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
ORM1	5004	hgsc.bcm.edu	37	9	117088618	117088620	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AGG	AGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	979.0	178.0	915.0	0.0	0.181818	0	.	.	none	.	ORM1	20	.	NM_000607	exon6	c.586_588del	p.196_196del	.	.	PASS	Atlas-Indel
LRRC37A2	474170	hgsc.bcm.edu	37	17	44590963	44590965	+	In_Frame_Del	DEL	CAA	CAA	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	305.0	20.0	238.0	0.0	0.0655738	0	.	.	none	.	LRRC37A2	37	.	NM_001006607	exon1	c.884_886del	p.295_296del	.	.	PASS	Atlas-Indel
FOXD4L6	653404	hgsc.bcm.edu	37	9	69201361	69201362	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	547.0	86.0	354.0	0.0	0.157221	0	.	.	none	.	.	.	.	NM_001085476	exon1	c.252_253del	p.84_85del	.	.	PASS	Atlas-Indel
LCNL1	401562	hgsc.bcm.edu	37	9	139879429	139879429	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	209.0	15.0	315.0	0.0	0.0717703	0	.	.	none	.	LCNL1	4	.	NM_207510	exon3	c.460delC	p.L154fs	.	.	PASS	Atlas-Indel
C6orf48	50854	hgsc.bcm.edu	37	6	31807372	31807373	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	41.0	119.0	0.0	0.342	.	.	.	none	.	C6orf48	8	.	NM_001040437	exon5	c.160_161insA	p.Y54_N55delinsX	.	.	PASS	Pindel,Atlas-Indel
NAP1L5	266812	hgsc.bcm.edu	37	4	89618415	89618426	+	In_Frame_Del	DEL	GCAGCCTCTGCC	GCAGCCTCTGCC	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GCAGCCTCTGCC	GCAGCCTCTGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	285.0	66.0	279.0	0.0	0.232	.	.	.	none	.	NAP1L5	23	.	NM_153757	exon1	c.481_492del	p.161_164del	.	.	PASS	Pindel,Atlas-Indel
LRRC37A	9884	hgsc.bcm.edu	37	17	44373384	44373386	+	In_Frame_Del	DEL	CAA	CAA	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	305.0	21.0	235.0	0.0	0.0688525	0	.	.	none	.	LRRC37A	19	.	NM_014834	exon1	c.884_886del	p.295_296del	.	.	PASS	Atlas-Indel
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643073	1643073	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	284.0	23.0	225.0	0.0	0.0809859	0	.	.	none	KRTAP5-4,NS,carcinoma,0,1	KRTAP5-4	78	1	NM_001012709	exon1	c.252delT	p.C84fs	.	.	PASS	Atlas-Indel
FANCE	2178	hgsc.bcm.edu	37	6	35424008	35424010	+	In_Frame_Del	DEL	GGA	GGA	-	rs45451605	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	42.0	138.0	0.0	0.296	.	GGA|0.979;-|0.021	0.021	strong	.	FANCE	45	.	NM_021922	exon2	c.732_734del	p.244_245del	.	.	PASS	Pindel,Atlas-Indel
HYDIN	54768	hgsc.bcm.edu	37	16	71007312	71007312	+	Frame_Shift_Del	DEL	G	G	-	rs373616607		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	25.0	101.0	0.0	0.179	.	.	.	weak	.	HYDIN	788	.	NM_001270974	exon35	c.5314delA	p.I1772fs	.	.	PASS	Pindel,Atlas-Indel
SSPO	23145	hgsc.bcm.edu	37	7	149480091	149480092	+	Frame_Shift_Ins	INS	-	-	C	rs144883973	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	217.0	71.0	217.0	0.0	0.327	.	-|0.979;C|0.021	0.021	strong	.	.	.	.	NM_198455	exon15	c.2057_2058insC	p.D686fs	.	.	PASS	Pindel,Atlas-Indel
TIGD6	81789	hgsc.bcm.edu	37	5	149375721	149375721	+	Frame_Shift_Del	DEL	C	C	-	rs33910807	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	32.0	66.0	0.0	0.390	.	C|0.913;-|0.087	0.087	strong	.	TIGD6	29	.	NM_030953	exon2	c.192delA	p.G64fs	.	.	PASS	Pindel,Atlas-Indel
SCARA5	286133	hgsc.bcm.edu	37	8	27779652	27779672	+	In_Frame_Del	DEL	GCAGCGGAGCCTGCAGCAGCC	GCAGCGGAGCCTGCAGCAGCC	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GCAGCGGAGCCTGCAGCAGCC	GCAGCGGAGCCTGCAGCAGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	26.0	97.0	0.0	0.491	.	.	.	none	.	SCARA5	53	.	NM_173833	exon4	c.333_353del	p.111_118del	.	.	PASS	Pindel,Atlas-Indel
SLC39A8	64116	hgsc.bcm.edu	37	4	103188834	103188836	+	Splice_Site	DEL	AGA	AGA	-	rs71813938	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	55.0	166.0	0.0	0.34375	0	AGA|0.950;-|0.050	0.050	strong	SLC39A8,NS,carcinoma,0,1	SLC39A8	24	1	.	.	.	.	.	.	PASS	Atlas-Indel
NBPF3	84224	hgsc.bcm.edu	37	1	21801436	21801444	+	In_Frame_Del	DEL	GTCTCCCAG	GTCTCCCAG	-	rs139002241	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GTCTCCCAG	GTCTCCCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	17.0	85.0	0.0	0.193	.	GTCTCCCAG|0.948;-|0.052	0.052	strong	.	NBPF3	55	.	NM_032264	exon8	c.983_991del	p.328_331del	.	.	PASS	Pindel,Atlas-Indel
ING3	54556	hgsc.bcm.edu	37	7	120610847	120610849	+	In_Frame_Del	DEL	AAC	AAC	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	37.0	112.0	0.0	0.402	.	.	.	none	.	ING3	36	.	NM_019071	exon10	c.1013_1015del	p.338_339del	.	.	PASS	Pindel,Atlas-Indel
NAIP	4671	hgsc.bcm.edu	37	5	70281620	70281621	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	32.0	214.0	0.0	0.156098	0	.	.	none	.	NAIP	38	.	NM_004536	exon12	c.1256_1257del	p.419_419del	.	.	PASS	Atlas-Indel
ARID4B	51742	hgsc.bcm.edu	37	1	235377279	235377281	+	In_Frame_Del	DEL	TCC	TCC	-	rs113458177	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	28.0	137.0	0.0	0.159	.	TCC|0.967;-|0.033	0.033	strong	.	ARID4B	142	.	NM_016374	exon17	c.1645_1647del	p.549_549del	.	.	PASS	Pindel,Atlas-Indel
CMA1	1215	hgsc.bcm.edu	37	14	24976605	24976605	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	39.0	147.0	0.0	0.325	.	.	.	none	.	CMA1	21	.	NM_001836	exon2	c.167delT	p.I56fs	.	.	PASS	Pindel,Atlas-Indel
MTFP1	51537	hgsc.bcm.edu	37	22	30824659	30824660	+	Frame_Shift_Ins	INS	-	-	A	rs149958301	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	27.0	72.0	0.0	0.360	.	-|0.993;A|0.007	0.007	strong	.	MTFP1	7	.	NM_001003704	exon3	c.406_407insA	p.X136delinsX	.	.	PASS	Pindel,Atlas-Indel
SSPO	23145	hgsc.bcm.edu	37	7	149484830	149484830	+	Frame_Shift_Del	DEL	G	G	-	rs137977793	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	11.0	52.0	0.0	0.239	.	G|0.985;-|0.015	0.015	strong	.	.	.	.	NM_198455	exon25	c.3651delC	p.H1217fs	.	.	PASS	Pindel,Atlas-Indel
KRTAP6-2	337967	hgsc.bcm.edu	37	21	31971075	31971076	+	Frame_Shift_Ins	INS	-	-	A	rs113674499	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	60.0	206.0	0.0	0.300	.	-|0.990;A|0.010	0.010	strong	.	KRTAP6-2	24	.	NM_181604	exon1	c.119_120insT	p.Y40fs	.	.	PASS	Pindel,Atlas-Indel
ZSCAN29	146050	hgsc.bcm.edu	37	15	43658416	43658418	+	In_Frame_Del	DEL	CCT	CCT	-	rs151154169	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	25.0	61.0	0.0	0.338	.	CCT|0.977;-|0.023	0.023	strong	.	ZSCAN29	57	.	NM_152455	exon3	c.1113_1115del	p.371_372del	.	.	PASS	Pindel,Atlas-Indel
DCHS2	54798	hgsc.bcm.edu	37	4	155158259	155158260	+	In_Frame_Ins	INS	-	-	GTT	rs138652483	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	40.0	140.0	0.0	0.317	.	-|0.988;GTT|0.012	0.012	strong	.	DCHS2	594	.	NM_017639	exon25	c.6180_6181insAAC	p.T2060delinsTT	.	.	PASS	Pindel,Atlas-Indel
LCNL1	401562	hgsc.bcm.edu	37	9	139879427	139879428	+	Frame_Shift_Ins	INS	-	-	GG	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	217.0	14.0	314.0	0.0	0.0645161	0	.	.	none	.	LCNL1	4	.	NM_207510	exon3	c.459_460insGG	p.S153fs	.	.	PASS	Atlas-Indel
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057775	46057804	+	In_Frame_Del	DEL	TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA	TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA	TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	45.0	151.0	0.0	0.269461	0	.	.	none	.	KRTAP10-10	37	.	NM_181688	exon1	c.440_469del	p.147_157del	.	.	PASS	Atlas-Indel
MN1	4330	hgsc.bcm.edu	37	22	28194912	28194913	+	In_Frame_Ins	INS	-	-	TGC	rs75719175		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	27.0	42.0	0.0	0.482143	0	.	.	weak	MN1,NS,carcinoma,0,1	MN1	122	1	NM_002430	exon1	c.1620_1621insGCA	p.Q540delinsQQ	.	.	PASS	Atlas-Indel
CLCA4	22802	hgsc.bcm.edu	37	1	87045903	87045908	+	In_Frame_Del	DEL	CCTACT	CCTACT	-	rs56040873	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CCTACT	CCTACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	46.0	146.0	0.0	0.254	.	.	.	weak	.	CLCA4	131	.	NM_012128	exon14	c.2634_2639del	p.878_880del	.	.	PASS	Pindel,Atlas-Indel
SEC63	11231	hgsc.bcm.edu	37	6	108214734	108214735	+	In_Frame_Ins	INS	-	-	GTA	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	39.0	104.0	0.0	0.355	.	.	.	none	.	SEC63	79	.	NM_007214	exon16	c.1626_1627insTAC	p.P542delinsPT	.	.	PASS	Pindel,Atlas-Indel
RNF34	80196	hgsc.bcm.edu	37	12	121858078	121858080	+	In_Frame_Del	DEL	GAT	GAT	-	rs72059744	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GAT	GAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	35.0	66.0	0.0	0.380	.	GAT|0.969;-|0.031	0.031	strong	.	RNF34	54	.	NM_194271	exon5	c.669_671del	p.223_224del	.	.	PASS	Pindel,Atlas-Indel
TBC1D5	9779	hgsc.bcm.edu	37	3	17208285	17208286	+	Frame_Shift_Del	DEL	CG	CG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	46.0	165.0	0.0	0.256	.	.	.	none	.	TBC1D5	69	.	NM_001134381	exon23	c.2134_2135del	p.712_712del	.	.	PASS	Pindel,Atlas-Indel
SERPINB3	6317	hgsc.bcm.edu	37	18	61323014	61323014	+	Frame_Shift_Del	DEL	T	T	-	rs201374310	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	49.0	209.0	0.0	0.269231	0	T|0.960;-|0.040	0.040	strong	.	SERPINB3	90	.	NM_006919	exon8	c.1051delG	p.G351fs	.	.	PASS	Atlas-Indel
ORM2	5005	hgsc.bcm.edu	37	9	117095395	117095397	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AGG	AGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	888.0	290.0	871.0	0.0	0.326577	0	.	.	none	.	ORM2	13	.	NM_000608	exon6	c.586_588del	p.196_196del	.	.	PASS	Atlas-Indel
TRIM16	10626	hgsc.bcm.edu	37	17	15546132	15546133	+	Splice_Site	INS	-	-	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	402.0	88.0	335.0	0.0	0.218905	0	.	.	none	.	TRIM16	45	.	NM_006470	exon6	c.520-2->T	.	.	.	PASS	Atlas-Indel
LTF	4057	hgsc.bcm.edu	37	3	46496843	46496843	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	43.0	128.0	0.0	0.301	.	.	.	none	.	LTF	98	.	NM_002343	exon5	c.590delA	p.E197fs	.	.	PASS	Pindel,Atlas-Indel
ANKRD36B	57730	hgsc.bcm.edu	37	2	98129757	98129758	+	Frame_Shift_Ins	INS	-	-	T	rs367988895		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	678.0	61.0	1139.0	0.0	0.0899705	0	.	.	weak	.	.	.	.	NM_025190	exon38	c.2691_2692insA	p.K897fs	.	.	PASS	Atlas-Indel
PROL1	58503	hgsc.bcm.edu	37	4	71275631	71275632	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	65.0	167.0	0.0	0.330	.	.	.	none	.	PROL1	46	.	NM_021225	exon3	c.586_587insC	p.T196fs	.	.	PASS	Pindel,Atlas-Indel
LINC00471	151477	hgsc.bcm.edu	37	2	232373857	232373860	+	RNA	DEL	TTCT	TTCT	-	rs150545131	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TTCT	TTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	251.0	69.0	237.0	0.0	0.275	.	TTCT|0.994;-|0.006	0.006	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
OR5L2	26338	hgsc.bcm.edu	37	11	55594980	55594980	+	Frame_Shift_Del	DEL	G	G	-	rs144106069	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	37.0	201.0	0.0	0.262	.	G|0.995;-|0.005	0.005	strong	OR5L2,NS,carcinoma,+2,2	OR5L2	135	2	NM_001004739	exon1	c.285delA	p.L95fs	.	.	PASS	Pindel,Atlas-Indel
CEP85L	387119	hgsc.bcm.edu	37	6	118812811	118812813	+	In_Frame_Del	DEL	TGT	TGT	-	rs71866282	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	30.0	77.0	0.0	0.429	.	TGT|0.979;-|0.021	0.021	strong	.	CEP85L	26	.	NM_206921	exon6	c.1474_1476del	p.492_492del	.	.	PASS	Pindel,Atlas-Indel
PCDHAC2	56134	hgsc.bcm.edu	37	5	140346446	140346451	+	In_Frame_Del	DEL	TGCTGC	TGCTGC	-	rs148181752	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TGCTGC	TGCTGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	17.0	90.0	0.0	0.213	.	TGCTGC|0.974;-|0.026	0.026	strong	.	PCDHAC2	142	.	NM_031883	exon1	c.94_99del	p.32_33del	.	.	PASS	Pindel,Atlas-Indel
ZNF594	84622	hgsc.bcm.edu	37	17	5085878	5085879	+	Frame_Shift_Del	DEL	CT	CT	-	rs146837771	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	33.0	120.0	0.0	0.282	.	CT|0.987;-|0.013	0.013	strong	.	ZNF594	89	.	NM_032530	exon2	c.1674_1675del	p.558_559del	.	.	PASS	Pindel,Atlas-Indel
TNRC6A	27327	hgsc.bcm.edu	37	16	24788401	24788402	+	In_Frame_Ins	INS	-	-	GCA	rs112426081		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	11.0	48.0	0.0	0.2	0	-|0.500;GCA|0.500	0.500	weak	TNRC6A,NS,carcinoma,0,1	TNRC6A	171	1	NM_014494	exon5	c.311_312insGCA	p.P104delinsPQ	.	.	PASS	Atlas-Indel
SLC4A2	6522	hgsc.bcm.edu	37	7	150763616	150763621	+	In_Frame_Del	DEL	GGAGGC	GGAGGC	-	rs150330052	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GGAGGC	GGAGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	12.0	56.0	0.0	0.245	.	GGAGGC|0.962;-|0.038	0.038	strong	.	SLC4A2	98	.	NM_001199692	exon6	c.590_595del	p.197_199del	.	.	PASS	Pindel,Atlas-Indel
C8orf82	414919	hgsc.bcm.edu	37	8	145753431	145753431	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	28.0	51.0	0.0	0.491	.	.	.	none	C8orf82,bladder,carcinoma,0,1	C8orf82	7	1	NM_001001795	exon2	c.183delG	p.K61fs	.	.	PASS	Pindel,Atlas-Indel
OR52D1	390066	hgsc.bcm.edu	37	11	5510498	5510499	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	54.0	121.0	0.0	0.402985	0	.	.	none	.	OR52D1	66	.	NM_001005163	exon1	c.562_563insC	p.A188fs	.	.	PASS	Atlas-Indel
RBPJL	11317	hgsc.bcm.edu	37	20	43940531	43940542	+	In_Frame_Del	DEL	CAGCGCGTCCGG	CAGCGCGTCCGG	-	rs142744285	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CAGCGCGTCCGG	CAGCGCGTCCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	45.0	127.0	0.0	0.381	.	CAGCGCGTCCGG|0.987;-|0.013	0.013	strong	.	RBPJL	67	.	NM_014276	exon5	c.380_391del	p.127_131del	.	.	PASS	Pindel,Atlas-Indel
ATP2C2	9914	hgsc.bcm.edu	37	16	84497336	84497337	+	In_Frame_Ins	INS	-	-	AGTGGA	rs149491518	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	26.0	146.0	0.0	0.217	.	-|0.987;AGTGGA|0.013	0.013	strong	.	ATP2C2	75	.	NM_014861	exon27	c.2839_2840insAGTGGA	p.X947delinsX	.	.	PASS	Pindel,Atlas-Indel
LRRC46	90506	hgsc.bcm.edu	37	17	45914125	45914136	+	In_Frame_Del	DEL	AGGAGCTGGAGC	AGGAGCTGGAGC	-	rs142960476	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AGGAGCTGGAGC	AGGAGCTGGAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	35.0	184.0	0.0	0.267	.	AGGAGCTGGAGC|0.978;-|0.022	0.022	strong	.	LRRC46	25	.	NM_033413	exon8	c.604_615del	p.202_205del	.	.	PASS	Pindel,Atlas-Indel
UPK3BL	100134938	hgsc.bcm.edu	37	7	102281151	102281152	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	27.0	134.0	0.0	0.346154	0	.	.	none	.	UPK3BL	6	.	NM_001114403	exon2	c.182_183insT	p.S61fs	.	.	PASS	Atlas-Indel
ARID1A	8289	hgsc.bcm.edu	37	1	27097616	27097618	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	16.0	81.0	0.0	0.203	.	.	.	none	.	ARID1A	842	.	NM_139135	exon12	c.3204_3206del	p.1068_1069del	.	.	PASS	Pindel,Atlas-Indel
RSPH10B	222967	hgsc.bcm.edu	37	7	6838173	6838176	+	Frame_Shift_Del	DEL	AGAG	AGAG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AGAG	AGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	379.0	34.0	497.0	0.0	0.0897098	0	.	.	none	.	RSPH10B	28	.	NM_173565	exon21	c.2611_2884del	p.871_871del	.	.	PASS	Atlas-Indel
ANKRD40	91369	hgsc.bcm.edu	37	17	48777220	48777221	+	In_Frame_Ins	INS	-	-	TCA	rs138572332	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	15.0	40.0	0.0	0.294118	0	-|0.957;TCA|0.043	0.043	strong	.	ANKRD40	35	.	NM_052855	exon3	c.318_319insTGA	p.D106delinsDD	.	.	PASS	Atlas-Indel
C11orf16	56673	hgsc.bcm.edu	37	11	8942889	8942890	+	Frame_Shift_Del	DEL	AT	AT	-	rs10583719	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	52.0	174.0	0.0	0.291	.	AT|0.978;-|0.022	0.022	strong	.	C11orf16	43	.	NM_020643	exon6	c.1378_1379del	p.460_460del	.	.	PASS	Pindel,Atlas-Indel
KIAA1609	57707	hgsc.bcm.edu	37	16	84529358	84529360	+	In_Frame_Del	DEL	CTC	CTC	-	rs200260198	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	53.0	226.0	0.0	0.288	.	CTC|0.994;-|0.006	0.006	strong	.	KIAA1609	39	.	NM_020947	exon3	c.314_316del	p.105_106del	.	.	PASS	Pindel,Atlas-Indel
OR6P1	128366	hgsc.bcm.edu	37	1	158533298	158533299	+	Frame_Shift_Ins	INS	-	-	A	rs201077183	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	28.0	94.0	0.0	0.295	.	-|0.995;A|0.005	0.005	strong	.	OR6P1	47	.	NM_001160325	exon1	c.97_98insT	p.A33fs	.	.	PASS	Pindel,Atlas-Indel
FOXD4L3	286380	hgsc.bcm.edu	37	9	70919085	70919085	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	931.0	76.0	668.0	0.0	0.0816327	0	.	.	none	.	FOXD4L3	7	.	NM_199135	exon1	c.1217delG	p.C406fs	.	.	PASS	Atlas-Indel
PODXL2	50512	hgsc.bcm.edu	37	3	127379364	127379369	+	In_Frame_Del	DEL	GAAGAG	GAAGAG	-	rs200281996	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GAAGAG	GAAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	29.0	95.0	0.0	0.367	.	GAAGAG|0.992;-|0.008	0.008	strong	.	PODXL2	53	.	NM_015720	exon3	c.492_497del	p.164_166del	.	.	PASS	Pindel,Atlas-Indel
OR2T27	403239	hgsc.bcm.edu	37	1	248813309	248813310	+	Frame_Shift_Ins	INS	-	-	A	rs141113411	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	251.0	39.0	280.0	0.0	0.155378	0	-|0.960;A|0.040	0.040	strong	.	OR2T27	52	.	NM_001001824	exon1	c.877_878insT	p.R293_N294delinsX	.	.	PASS	Atlas-Indel
CIC	23152	hgsc.bcm.edu	37	19	42794829	42794831	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	33.0	87.0	0.0	0.308	.	.	.	none	.	CIC	249	.	NM_015125	exon10	c.1908_1910del	p.636_637del	.	.	PASS	Pindel,Atlas-Indel
SMPD2	6610	hgsc.bcm.edu	37	6	109764875	109764877	+	In_Frame_Del	DEL	GGA	GGA	-	rs142982624	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	34.0	123.0	0.0	0.333	.	GGA|0.957;-|0.043	0.043	strong	.	SMPD2	25	.	NM_003080	exon10	c.1038_1040del	p.346_347del	.	.	PASS	Pindel,Atlas-Indel
USP34	9736	hgsc.bcm.edu	37	2	61575022	61575023	+	In_Frame_Ins	INS	-	-	TGG	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	17.0	41.0	0.0	0.315	.	.	.	none	.	USP34	334	.	NM_014709	exon15	c.2268_2269insCCA	p.H756delinsHH	.	.	PASS	Pindel,Atlas-Indel
DMXL1	1657	hgsc.bcm.edu	37	5	118529595	118529597	+	In_Frame_Del	DEL	AAT	AAT	-	rs374810198		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	10.0	52.0	0.0	0.182	.	.	.	weak	.	DMXL1	268	.	NM_005509	exon30	c.7386_7388del	p.2462_2463del	.	.	PASS	Pindel,Atlas-Indel
FOXD4L6	653404	hgsc.bcm.edu	37	9	69200395	69200395	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1099.0	96.0	643.0	0.0	0.0873521	0	.	.	none	.	.	.	.	NM_001085476	exon1	c.1219delT	p.W407fs	.	.	PASS	Atlas-Indel
SLC22A25	387601	hgsc.bcm.edu	37	11	62996774	62996775	+	Frame_Shift_Ins	INS	-	-	A	rs112260121	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	57.0	235.0	0.0	0.285	.	-|0.990;A|0.010	0.010	strong	.	SLC22A25	87	.	NM_199352	exon1	c.351_352insT	p.V117fs	.	.	PASS	Pindel,Atlas-Indel
ADRM1	11047	hgsc.bcm.edu	37	20	60883770	60883778	+	In_Frame_Del	DEL	GACACGAAG	GACACGAAG	-	rs202079747	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GACACGAAG	GACACGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	243.0	56.0	250.0	0.0	0.230	.	GACACGAAG|0.012;-|0.988	0.988	strong	.	ADRM1	28	.	NM_007002	exon10	c.1176_1184del	p.392_395del	.	.	PASS	Pindel,Atlas-Indel
HRC	3270	hgsc.bcm.edu	37	19	49657889	49657890	+	In_Frame_Ins	INS	-	-	TCCTCCTCC	rs147238387	bycluster;by1000genomes;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	31.0	165.0	0.0	0.182353	0	.	.	alt	.	HRC	85	.	NM_002152	exon1	c.606_607insGGAGGAGGA	p.E202delinsEEEE	.	.	PASS	Atlas-Indel
ONECUT2	9480	hgsc.bcm.edu	37	18	55103476	55103477	+	In_Frame_Ins	INS	-	-	CAC	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	11.0	63.0	0.0	0.167	.	.	.	none	.	ONECUT2	42	.	NM_004852	exon1	c.528_529insCAC	p.P176delinsPH	.	.	PASS	Pindel,Atlas-Indel
CABYR	26256	hgsc.bcm.edu	37	18	21740032	21740033	+	Frame_Shift_Del	DEL	TG	TG	-	rs149126027	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	26.0	57.0	0.0	0.338	.	TG|0.978;-|0.022	0.022	strong	.	CABYR	51	.	NM_153769	exon5	c.1137_1138del	p.379_380del	.	.	PASS	Pindel,Atlas-Indel
SERPINB3	6317	hgsc.bcm.edu	37	18	61323011	61323012	+	Frame_Shift_Ins	INS	-	-	GCCA	rs60533853	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	49.0	212.0	0.0	0.255208	0	.	.	alt	.	SERPINB3	90	.	NM_006919	exon8	c.1053_1054insTGGC	p.G351fs	.	.	PASS	Atlas-Indel
DUPD1	338599	hgsc.bcm.edu	37	10	76803600	76803602	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	18.0	44.0	0.0	0.321	.	.	.	none	.	DUPD1	30	.	NM_001003892	exon2	c.375_377del	p.125_126del	.	.	PASS	Pindel,Atlas-Indel
DEFB119	245932	hgsc.bcm.edu	37	20	29965208	29965211	+	Frame_Shift_Del	DEL	ACTG	ACTG	-	rs374993061	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	ACTG	ACTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	36.0	110.0	0.0	0.409	.	.	.	weak	DEFB119_ENST00000376321,NS,malignant_melanoma,+1,2	DEFB119	37	2	NM_153289	exon2	c.94_97del	p.32_33del	.	.	PASS	Pindel,Atlas-Indel
NRAP	4892	hgsc.bcm.edu	37	10	115348749	115348751	+	In_Frame_Del	DEL	CTT	CTT	-	rs11575787	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	61.0	144.0	0.0	0.326	.	CTT|0.992;-|0.008	0.008	strong	.	NRAP	208	.	NM_001261463	exon42	c.5180_5182del	p.1727_1728del	.	.	PASS	Pindel,Atlas-Indel
FMO2	2327	hgsc.bcm.edu	37	1	171162551	171162552	+	In_Frame_Ins	INS	-	-	GAC	rs2020868	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	19.0	76.0	0.0	0.328	.	-|0.904;GAC|0.096	0.096	strong	.	FMO2	66	.	NM_001460	exon3	c.210_211insGAC	p.S70delinsSD	.	.	PASS	Pindel,Atlas-Indel
OR2A1	346528	hgsc.bcm.edu	37	7	144015524	144015527	+	Frame_Shift_Del	DEL	TGTT	TGTT	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TGTT	TGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1136.0	133.0	626.0	0.0	0.117077	0	.	.	none	.	OR2A1	10	.	NM_001005287	exon1	c.306_309del	p.102_103del	.	.	PASS	Atlas-Indel
LIPM	340654	hgsc.bcm.edu	37	10	90562801	90562802	+	Splice_Site	INS	-	-	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	35.0	129.0	0.0	0.337	.	.	.	none	.	LIPM	17	.	NM_001128215	exon1	c.147+1->T	.	.	.	PASS	Pindel,Atlas-Indel
TRPM3	80036	hgsc.bcm.edu	37	9	73151130	73151133	+	Frame_Shift_Del	DEL	TCTC	TCTC	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TCTC	TCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	453.0	86.0	439.0	0.0	0.190	.	.	.	none	.	TRPM3	700	.	NM_001007471	exon25	c.4861_4864del	p.1621_1622del	.	.	PASS	Pindel,Atlas-Indel
PLIN5	440503	hgsc.bcm.edu	37	19	4529255	4529257	+	In_Frame_Del	DEL	GAG	GAG	-	rs140507757	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	36.0	143.0	0.0	0.305	.	GAG|0.986;-|0.014	0.014	strong	.	PLIN5	27	.	NM_001013706	exon5	c.349_351del	p.117_117del	.	.	PASS	Pindel,Atlas-Indel
ADAM28	10863	hgsc.bcm.edu	37	8	24184128	24184129	+	In_Frame_Ins	INS	-	-	ATC	rs111491080		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	282.0	83.0	269.0	0.0	0.294	.	-|0.500;ATC|0.500	0.500	weak	.	ADAM28	100	.	NM_014265	exon10	c.952_953insATC	p.Y318delinsYH	.	.	PASS	Pindel,Atlas-Indel
ARID1B	57492	hgsc.bcm.edu	37	6	157099402	157099403	+	In_Frame_Ins	INS	-	-	CAGCAG	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	27.0	12.0	30.0	0.0	0.444444	0	.	.	none	.	ARID1B	320	.	NM_020732	exon1	c.339_340insCAGCAG	p.F113delinsFQQ	.	.	PASS	Atlas-Indel
FMO2	2327	hgsc.bcm.edu	37	1	171165803	171165803	+	Frame_Shift_Del	DEL	G	G	-	rs199532864		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	43.0	184.0	0.0	0.277	.	.	.	weak	.	FMO2	66	.	NM_001460	exon4	c.336delT	p.S112fs	.	.	PASS	Pindel,Atlas-Indel
SSPO	23145	hgsc.bcm.edu	37	7	149519007	149519007	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	54.0	181.0	0.0	0.273	.	.	.	none	.	.	.	.	NM_198455	exon90	c.12810delA	p.G4270fs	.	.	PASS	Pindel,Atlas-Indel
CDCP2	200008	hgsc.bcm.edu	37	1	54610404	54610405	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	33.0	138.0	0.0	0.277	.	.	.	none	.	CDCP2	52	.	NM_201546	exon2	c.162_163del	p.54_55del	.	.	PASS	Pindel,Atlas-Indel
NOTCH1	4851	hgsc.bcm.edu	37	9	139390649	139390650	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	38.0	113.0	0.0	0.322	.	.	.	none	.	NOTCH1	1980	.	NM_017617	exon34	c.7542_7543del	p.2514_2515del	.	.	PASS	Pindel,Atlas-Indel
MRM1	79922	hgsc.bcm.edu	37	17	34958760	34958761	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	12.0	29.0	0.0	0.364	.	.	.	none	.	MRM1	19	.	NM_024864	exon1	c.521_522insG	p.V174fs	.	.	PASS	Pindel,Atlas-Indel
CCDC34	91057	hgsc.bcm.edu	37	11	27384449	27384466	+	In_Frame_Del	DEL	TCATCCACGTCTTCCTCA	TCATCCACGTCTTCCTCA	-	rs138931796	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TCATCCACGTCTTCCTCA	TCATCCACGTCTTCCTCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	39.0	294.0	0.0	0.181	.	TCATCCACGTCTTCCTCA|0.966;-|0.034	0.034	strong	.	CCDC34	48	.	NM_030771	exon1	c.277_294del	p.93_98del	.	.	PASS	Pindel,Atlas-Indel
ZFHX3	463	hgsc.bcm.edu	37	16	72831357	72831358	+	In_Frame_Ins	INS	-	-	TTG	rs372909378	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	51.0	198.0	0.0	0.277174	0	.	.	weak	.	ZFHX3	404	.	NM_006885	exon9	c.5224_5225insCAA	p.A1742delinsQA	.	.	PASS	Atlas-Indel
PDE6H	5149	hgsc.bcm.edu	37	12	15134337	15134337	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	33.0	110.0	0.0	0.311	.	.	.	none	.	PDE6H	13	.	NM_006205	exon4	c.178delA	p.I60fs	.	.	PASS	Pindel,Atlas-Indel
ST6GALNAC5	81849	hgsc.bcm.edu	37	1	77334292	77334293	+	In_Frame_Ins	INS	-	-	CAGCAA	rs201548881	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	63.0	93.0	0.0	0.463235	0	-|0.929;CAGCAA|0.071	0.071	strong	.	ST6GALNAC5	59	.	NM_030965	exon2	c.126_127insCAGCAA	p.Q42delinsQQQ	.	.	PASS	Atlas-Indel
SUMF2	25870	hgsc.bcm.edu	37	7	56140760	56140761	+	Frame_Shift_Del	DEL	TT	TT	-	rs146946713	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	43.0	105.0	0.0	0.426	.	TT|0.993;-|0.007	0.007	strong	.	SUMF2	56	.	NM_001130069	exon3	c.351_352del	p.117_118del	.	.	PASS	Pindel,Atlas-Indel
RPGR	6103	hgsc.bcm.edu	37	X	38145694	38145717	+	In_Frame_Del	DEL	TCCTCCTCTTCCCCCTCCCCTTCC	TCCTCCTCTTCCCCCTCCCCTTCC	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TCCTCCTCTTCCCCCTCCCCTTCC	TCCTCCTCTTCCCCCTCCCCTTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	24.0	100.0	0.0	0.200	.	.	.	none	.	RPGR	175	.	NM_001034853	exon15	c.2536_2559del	p.846_853del	.	.	PASS	Pindel
ZNF271	10778	hgsc.bcm.edu	37	18	32889822	32889823	+	RNA	INS	-	-	ATTGGTGTCCAAAACTGACACA	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	16.0	43.0	0.0	0.364	.	.	.	none	.	ZNF271	16	.	.	.	.	.	.	.	PASS	Pindel
TMEM255B	348013	hgsc.bcm.edu	37	13	114503876	114503916	+	Frame_Shift_Del	DEL	CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA	CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA	CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	25.0	199.0	0.0	0.181	.	.	.	none	.	.	.	.	NM_182614	exon6	c.499_509del	p.167_170del	.	.	PASS	Pindel
SERPINB3	6317	hgsc.bcm.edu	37	18	61323012	61323014	+	In_Frame_Del	DEL	CCT	CCT	-	rs60533853	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	42.0	211.0	0.0	0.221	.	.	.	alt	.	SERPINB3	90	.	NM_006919	exon8	c.1051_1053del	p.351_351del	.	.	PASS	Pindel
RPGR	6103	hgsc.bcm.edu	37	X	38145199	38145201	+	In_Frame_Del	DEL	TCC	TCC	-	rs200955614	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	10.0	29.0	0.0	0.182	.	TCC|0.992;-|0.008	0.008	strong	.	RPGR	175	.	NM_001034853	exon15	c.3052_3054del	p.1018_1018del	.	.	PASS	Pindel
DMKN	93099	hgsc.bcm.edu	37	19	36002371	36002394	+	In_Frame_Del	DEL	CCACTGCTGCCGCCACTGCTGCCG	CCACTGCTGCCGCCACTGCTGCCG	-	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	CCACTGCTGCCGCCACTGCTGCCG	CCACTGCTGCCGCCACTGCTGCCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	25.0	91.0	0.0	0.278	.	.	.	none	.	DMKN	116	.	NM_033317	exon5	c.838_861del	p.280_287del	.	.	PASS	Pindel
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46012225	46012226	+	In_Frame_Ins	INS	-	-	CAGCAGCTGGGGGCA	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	14.0	93.0	0.0	0.241	.	.	.	none	.	KRTAP10-6	57	.	NM_198688	exon1	c.141_142insTGCCCCCAGCTGCTG	p.C47delinsCAPSCC	.	.	PASS	Pindel
GPR39	2863	hgsc.bcm.edu	37	2	133403034	133403036	+	In_Frame_Del	DEL	AGA	AGA	-	rs113224054	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	23.0	10.0	26.0	0.0	0.435	.	AGA|0.500;-|0.500	0.500	weak	.	GPR39	60	.	NM_001508	exon2	c.1216_1218del	p.406_406del	.	.	PASS	Pindel
RPF2	84154	hgsc.bcm.edu	37	6	111310252	111310252	+	Missense_Mutation	SNP	G	G	A	rs6909298	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	66.0	113.0	0.0	0.496241	0	G|0.977;A|0.023	0.023	strong	.	RPF2	26	.	NM_032194	exon3	c.G178A	p.G60S	CCATACGGTGTAC	.	PASS	Atlas-SNP
SEC16A	9919	hgsc.bcm.edu	37	9	139370829	139370829	+	Silent	SNP	G	G	A	rs114386206	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	45.0	89.0	0.0	0.371901	0	G|0.996;A|0.004	0.004	strong	.	SEC16A	249	.	NM_014866	exon3	c.C1239T	p.P413P	AGGTGCGGGCGGA	.	PASS	Atlas-SNP
EIF2A	83939	hgsc.bcm.edu	37	3	150285535	150285535	+	Silent	SNP	T	T	C	rs376872417		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	95.0	174.0	0.0	0.508021	0	.	.	weak	.	EIF2A	59	.	NM_032025	exon7	c.T531C	p.P177P	ATCACCTGGACCC	.	PASS	Atlas-SNP
TNPO2	30000	hgsc.bcm.edu	37	19	12813683	12813683	+	Silent	SNP	T	T	C	rs16978630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	314.0	141.0	310.0	0.0	0.449045	0	T|0.866;C|0.134	0.134	strong	.	TNPO2	108	.	NM_013433	exon20	c.A2259G	p.E753E	AATGATTTCCACC	.	PASS	Atlas-SNP
LRP4	4038	hgsc.bcm.edu	37	11	46917868	46917868	+	Missense_Mutation	SNP	A	A	G	rs7926667	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	22.0	7.0	28.0	0.0	0.318182	0	A|0.948;G|0.052	0.052	strong	.	LRP4	160	.	NM_002334	exon9	c.T941C	p.L314S	TGGTCCAAGGCAC	.	PASS	Atlas-SNP
DTX4	23220	hgsc.bcm.edu	37	11	58949852	58949852	+	Silent	SNP	C	C	T	rs75403375	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	25.0	45.0	0.0	0.510204	0	C|0.975;T|0.025	0.025	strong	.	DTX4	84	.	NM_015177	exon2	c.C852T	p.T284T	CAAGACCGGAAGG	.	PASS	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	37	7	88965040	88965040	+	Missense_Mutation	SNP	C	C	T	rs56948780	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	65.0	135.0	0.0	0.5	0	C|0.964;T|0.036	0.036	strong	.	ZNF804B	322	.	NM_181646	exon4	c.C2744T	p.T915I	CAAACACTGCAGA	.	PASS	Atlas-SNP
IFNA13	3447	hgsc.bcm.edu	37	9	21367519	21367519	+	Missense_Mutation	SNP	G	G	C	rs28383794	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	592.0	229.0	569.0	1.0	0.386824	0.00175747	G|0.832;C|0.168	0.168	strong	.	IFNA13	19	.	NM_006900	exon1	c.C491G	p.A164G	TCCCAGGCACAAG	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49969501	49969501	+	Silent	SNP	G	G	A	rs61732839	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	20.0	40.0	0.0	0.4	0	G|0.975;A|0.025	0.025	strong	.	ALDH16A1	54	.	NM_153329	exon14	c.G1899A	p.A633A	TCGGGCGTGGGGG	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22846962	22846962	+	Missense_Mutation	SNP	G	G	C	rs138844698	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	119.0	281.0	2.0	0.74375	0.00711744	G|0.957;C|0.043	0.043	strong	.	ZNF492	129	.	NM_020855	exon4	c.G491C	p.S164T	TTCATAGTGGAGA	.	PASS	Atlas-SNP
FAM214A	56204	hgsc.bcm.edu	37	15	52901109	52901109	+	Missense_Mutation	SNP	T	T	C	rs61731676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	38.0	55.0	0.0	0.457831	0	T|0.982;C|0.018	0.018	strong	.	.	.	.	NM_019600	exon6	c.A2002G	p.K668E	AGAATTTTGGATT	.	PASS	Atlas-SNP
WDR85	92715	hgsc.bcm.edu	37	9	140472034	140472034	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	92.0	106.0	0.0	0.691729	0	.	.	none	.	WDR85	20	.	NM_138778	exon2	c.C175G	p.P59A	CCTGAGGCTCCTT	.	PASS	Atlas-SNP
PCSK7	9159	hgsc.bcm.edu	37	11	117097931	117097931	+	Silent	SNP	C	C	T	rs45528535	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	28.0	78.0	0.0	0.35443	0	C|0.956;T|0.044	0.044	strong	PCSK7,NS,carcinoma,-2,1	PCSK7	59	1	NM_004716	exon5	c.G711A	p.A237A	CACAGCCGCGATC	.	PASS	Atlas-SNP
ADRB1	153	hgsc.bcm.edu	37	10	115805057	115805057	+	Missense_Mutation	SNP	G	G	T	rs17875445	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	17.0	36.0	0.0	0.459459	0	G|0.994;T|0.006	0.006	strong	.	ADRB1	16	.	NM_000684	exon1	c.G1166T	p.G389V	TCCAGGGACTGCT	.	PASS	Atlas-SNP
TMEM63A	9725	hgsc.bcm.edu	37	1	226050503	226050503	+	Silent	SNP	G	G	A	rs10915888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	108.0	170.0	0.0	0.53202	0	G|0.956;A|0.044	0.044	strong	.	TMEM63A	75	.	NM_014698	exon11	c.C795T	p.N265N	GGCCACGTTGTAG	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113265448	113265448	+	Silent	SNP	A	A	G	rs10120982	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	59.0	186.0	0.0	0.292079	0	A|0.992;G|0.008	0.008	strong	SVEP1,NS,carcinoma,-1,2	SVEP1	326	2	NM_153366	exon6	c.T1353C	p.C451C	TGTAGAACAGCTG	.	PASS	Atlas-SNP
ADAMTS15	170689	hgsc.bcm.edu	37	11	130318935	130318935	+	Silent	SNP	C	C	A	rs146878786	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	24.0	82.0	0.0	0.40678	0	C|0.997;A|0.003	0.003	strong	.	ADAMTS15	103	.	NM_139055	exon1	c.C67A	p.R23R	CCAGAGCGGGAGG	.	PASS	Atlas-SNP
ALX4	60529	hgsc.bcm.edu	37	11	44286722	44286722	+	Silent	SNP	C	C	T	rs145904583	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	221.0	109.0	267.0	0.0	0.493213	0	C|0.991;T|0.009	0.009	strong	ALX4,NS,carcinoma,0,1	ALX4	58	1	NM_021926	exon4	c.G918A	p.P306P	CCAGGACGGGTTC	.	PASS	Atlas-SNP
PKP2	5318	hgsc.bcm.edu	37	12	33031023	33031023	+	Missense_Mutation	SNP	G	G	A	rs62001016	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	47.0	85.0	0.0	0.484536	0	G|0.988;A|0.012	0.012	strong	.	PKP2	110	.	NM_004572	exon3	c.C791T	p.A264V	AGCCCTGCCGTCA	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149488991	149488991	+	Missense_Mutation	SNP	T	T	C	rs893601	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	40.0	95.0	0.0	0.481928	0	T|0.976;C|0.024	0.024	strong	.	.	.	.	NM_198455	exon35	c.T5332C	p.S1778P	TGCCACTCACCCC	.	PASS	Atlas-SNP
ZNF286A	57335	hgsc.bcm.edu	37	17	15604508	15604508	+	Missense_Mutation	SNP	C	C	G	rs144115902	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	222.0	110.0	263.0	0.0	0.495495	0	C|0.978;G|0.022	0.022	strong	.	ZNF286A	58	.	NM_020652	exon3	c.C80G	p.T27R	AGAGCACAGAAGA	.	PASS	Atlas-SNP
ITIH6	347365	hgsc.bcm.edu	37	X	54815065	54815065	+	Missense_Mutation	SNP	G	G	C	rs140757238	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	50.0	81.0	0.0	0.47619	0	G|0.976;C|0.024	0.024	strong	.	.	.	.	NM_198510	exon5	c.C634G	p.P212A	TGGATGGGGGTGA	.	PASS	Atlas-SNP
SNX20	124460	hgsc.bcm.edu	37	16	50709792	50709792	+	Silent	SNP	C	C	T	rs35435054	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	34.0	66.0	0.0	0.425	0	C|0.981;T|0.019	0.019	strong	SNX20_ENST00000300590,NS,carcinoma,-1,2	SNX20	50	2	NM_001144972	exon3	c.G171A	p.T57T	CTCCCGCGTGGTC	.	PASS	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	37	11	18743529	18743529	+	Missense_Mutation	SNP	T	T	C	rs115954314	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	30.0	50.0	0.0	0.422535	0	T|0.992;C|0.008	0.008	strong	.	IGSF22	211	.	NM_173588	exon3	c.A169G	p.S57G	TTGAGCTCCGGGT	.	PASS	Atlas-SNP
LRSAM1	90678	hgsc.bcm.edu	37	9	130263362	130263362	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	20.0	63.0	0.0	0.294118	0	.	.	none	.	LRSAM1	40	.	NM_001005373	exon25	c.C1986T	p.S662S	GCCATCCGCTCCC	.	PASS	Atlas-SNP
ZBTB18	10472	hgsc.bcm.edu	37	1	244217662	244217662	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	91.0	169.0	0.0	0.54491	0	.	.	none	.	.	.	.	NM_205768	exon2	c.T586C	p.L196L	ATGCGATTGCCCT	.	PASS	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	37	9	140671147	140671147	+	Silent	SNP	C	C	T	rs7868455	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	126.0	122.0	0.0	1	0	C|0.939;T|0.061	0.061	strong	.	EHMT1	196	.	NM_001145527	exon12	c.C1869T	p.N623N	CAATAACGCCAGC	.	PASS	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68631920	68631920	+	Silent	SNP	C	C	T	rs9302249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	32.0	56.0	0.0	0.410256	0	C|0.956;T|0.044	0.044	strong	ITGA11,colon,carcinoma,-1,1	ITGA11	110	1	NM_001004439	exon11	c.G1194A	p.T398T	GGCACTCGTCTCC	.	PASS	Atlas-SNP
DOCK11	139818	hgsc.bcm.edu	37	X	117680019	117680019	+	Silent	SNP	G	G	C	rs61740837	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	77.0	192.0	0.0	0.383085	0	G|0.993;C|0.007	0.007	strong	.	DOCK11	185	.	NM_144658	exon6	c.G498C	p.V166V	TGGTGTGATAAAA	.	PASS	Atlas-SNP
COL28A1	340267	hgsc.bcm.edu	37	7	7410391	7410391	+	Missense_Mutation	SNP	A	A	C	rs76240858	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	32.0	84.0	0.0	0.329897	0	A|0.997;C|0.003	0.003	strong	.	COL28A1	113	.	NM_001037763	exon33	c.T3031G	p.S1011A	GAGTAGATTCACT	.	PASS	Atlas-SNP
PLD3	23646	hgsc.bcm.edu	37	19	40882588	40882588	+	Silent	SNP	C	C	T	rs57187324	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	23.0	62.0	0.0	0.469388	0	C|0.990;T|0.010	0.010	strong	.	PLD3	71	.	NM_012268	exon11	c.C1092T	p.I364I	GCTCATCAGCTGC	.	PASS	Atlas-SNP
ADCY9	115	hgsc.bcm.edu	37	16	4043415	4043415	+	Missense_Mutation	SNP	T	T	C	rs113187435	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	245.0	116.0	269.0	0.0	0.473469	0	T|0.991;C|0.009	0.009	strong	.	ADCY9	151	.	NM_001116	exon4	c.A1981G	p.S661G	TGGTGCTGTTTTT	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11622729	11622729	+	Silent	SNP	C	C	T	rs61739488	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	47.0	114.0	0.0	0.443396	0	C|0.950;T|0.050	0.050	strong	.	DNAH9	695	.	NM_001372	exon27	c.C5631T	p.T1877T	CAAGACCGAGACC	.	PASS	Atlas-SNP
LUZP1	7798	hgsc.bcm.edu	37	1	23415518	23415518	+	Missense_Mutation	SNP	C	C	T	rs12066671	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	328.0	166.0	273.0	0.0	0.506098	0	C|0.925;T|0.075	0.075	strong	.	LUZP1	83	.	NM_033631	exon5	c.G3101A	p.S1034N	TAGACACTGAGTG	.	PASS	Atlas-SNP
PRODH2	58510	hgsc.bcm.edu	37	19	36302897	36302897	+	Silent	SNP	G	G	A	rs145376615	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	51.0	97.0	0.0	0.525773	0	A|0.006;G|0.994;T|0.000	0.006	strong	.	PRODH2	68	.	NM_021232	exon5	c.C792T	p.P264P	CCTCTCGGGGCTC	.	PASS	Atlas-SNP
MYL9	10398	hgsc.bcm.edu	37	20	35176541	35176541	+	Silent	SNP	G	G	A	rs11553089	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	60.0	117.0	0.0	0.594059	0	G|0.975;A|0.025	0.025	strong	.	MYL9	13	.	NM_006097	exon3	c.G291A	p.T97T	CGGCACGGACCCC	.	PASS	Atlas-SNP
OR2T27	403239	hgsc.bcm.edu	37	1	248813352	248813352	+	Silent	SNP	G	G	A	rs147773385	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	26.0	246.0	0.0	0.156627	0	G|0.986;A|0.014	0.014	strong	OR2T27,colon,carcinoma,0,1	OR2T27	52	1	NM_001001824	exon1	c.C834T	p.Y278Y	GATGGTGTAGAAG	.	scavenged	Atlas-SNP
LRTM1	57408	hgsc.bcm.edu	37	3	54958884	54958884	+	Silent	SNP	A	A	G	rs35757787	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	67.0	122.0	0.0	0.540323	0	A|0.971;G|0.029	0.029	strong	.	LRTM1	52	.	NM_020678	exon2	c.T366C	p.P122P	CAGCTGAGGGAGG	.	PASS	Atlas-SNP
CAMK4	814	hgsc.bcm.edu	37	5	110820116	110820116	+	Silent	SNP	T	T	G	rs6886469	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	40.0	78.0	0.0	0.57971	0	T|0.991;G|0.009	0.009	strong	.	CAMK4	77	.	NM_001744	exon11	c.T1374G	p.A458A	CTCTGCTGTGGGT	.	PASS	Atlas-SNP
TSSK3	81629	hgsc.bcm.edu	37	1	32829261	32829261	+	Missense_Mutation	SNP	A	A	G	rs35508255	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	82.0	120.0	0.0	0.557823	0	A|0.981;G|0.019	0.019	strong	.	TSSK3	22	.	NM_052841	exon2	c.A211G	p.I71V	AACATCATCCAGG	.	PASS	Atlas-SNP
ERBB2	2064	hgsc.bcm.edu	37	17	37872035	37872035	+	Missense_Mutation	SNP	G	G	T	rs4252633	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	32.0	42.0	0.0	0.484848	0	G|0.979;T|0.021	0.021	strong	.	ERBB2	429	.	NM_004448	exon12	c.G1356T	p.W452C	CAGCTGGCTGGGG	.	PASS	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	37	14	23549948	23549948	+	Missense_Mutation	SNP	C	C	T	rs11555803	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	48.0	102.0	0.0	0.521739	0	C|0.971;T|0.029	0.029	strong	.	ACIN1	147	.	NM_001164814	exon6	c.G770A	p.R257K	AGGTTTCTGGAAG	.	PASS	Atlas-SNP
SYCE1L	100130958	hgsc.bcm.edu	37	16	77246093	77246093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	67.0	73.0	0.0	0.544715	0	.	.	none	.	SYCE1L	10	.	NM_001129979	exon8	c.G490A	p.E164K	CTCTCGGAGAGTG	.	PASS	Atlas-SNP
UGT3A2	167127	hgsc.bcm.edu	37	5	36049324	36049324	+	Silent	SNP	G	G	A	rs148290056	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	46.0	101.0	0.0	0.410714	0	G|0.996;A|0.004	0.004	strong	.	UGT3A2	117	.	NM_174914	exon4	c.C510T	p.F170F	AGAGCCGAATGAA	.	PASS	Atlas-SNP
GPR87	53836	hgsc.bcm.edu	37	3	151017855	151017855	+	Missense_Mutation	SNP	T	T	G	rs141290943	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	44.0	76.0	0.0	0.60274	0	T|0.998;G|0.002	0.002	strong	.	GPR87	52	.	NM_023915	exon2	c.A34C	p.N12H	GCTTACTTGGTAA	.	PASS	Atlas-SNP
MAP10	54627	hgsc.bcm.edu	37	1	232943513	232943513	+	Missense_Mutation	SNP	A	A	T	rs61735509	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	55.0	89.0	0.0	0.518868	0	A|0.989;T|0.011	0.011	strong	.	.	.	.	NM_019090	exon1	c.A2744T	p.H915L	CTGTACACTCATA	.	PASS	Atlas-SNP
CLEC4F	165530	hgsc.bcm.edu	37	2	71043607	71043607	+	Silent	SNP	G	G	C	rs114209954	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	82.0	186.0	0.0	0.479532	0	G|0.985;C|0.015	0.015	strong	.	CLEC4F	95	.	NM_173535	exon4	c.C906G	p.T302T	GGCCTGGGTCTGG	.	PASS	Atlas-SNP
TNFRSF18	8784	hgsc.bcm.edu	37	1	1141824	1141824	+	Missense_Mutation	SNP	G	G	C	rs11466676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	22.0	9.0	33.0	0.0	0.409091	0	G|0.955;C|0.045	0.045	strong	.	TNFRSF18	13	.	NM_148902	exon1	c.C128G	p.T43R	GTTCCCGTCCCAA	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240611	39240611	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	35.0	113.0	0.0	0.198864	0	.	.	none	KRTAP4-9_ENST00000377734,NS,carcinoma,+1,2	KRTAP4-7	49	2	NM_033061	exon1	c.G153A	p.R51R	CTGCAGGCCCCAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507780	195507780	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	52.0	336.0	0.0	0.284153	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-2,2	MUC4	1505	2	NM_018406	exon2	c.C10671T	p.D3557D	GGAAGCGTCGGTG	.	scavenged	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105417732	105417732	+	Silent	SNP	G	G	A	rs190986194	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	258.0	105.0	363.0	0.0	0.406977	0	G|0.914;A|0.086	0.086	strong	.	AHNAK2	719	.	NM_138420	exon7	c.C4056T	p.D1352D	AGACAGGTCCACG	.	PASS	Atlas-SNP
ITGAD	3681	hgsc.bcm.edu	37	16	31422071	31422071	+	Missense_Mutation	SNP	C	C	G	rs142278416	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	89.0	209.0	0.0	0.468421	0	C|0.991;G|0.009	0.009	strong	.	ITGAD	154	.	NM_005353	exon12	c.C1228G	p.L410V	ACCGAGCTAGCCC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105416344	105416344	+	Missense_Mutation	SNP	T	T	G	rs368838079		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	301.0	16.0	290.0	0.0	0.0531561	0	.	.	weak	.	AHNAK2	719	.	NM_138420	exon7	c.A5444C	p.D1815A	GTCACATCCTTGT	.	PASS	Atlas-SNP
ZC3H12C	85463	hgsc.bcm.edu	37	11	110007834	110007834	+	Silent	SNP	T	T	C	rs78240010	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	24.0	91.0	0.0	0.444444	0	T|0.992;C|0.008	0.008	strong	.	ZC3H12C	83	.	NM_033390	exon2	c.T468C	p.P156P	ACCACCTGATGTG	.	PASS	Atlas-SNP
PTAFR	5724	hgsc.bcm.edu	37	1	28476520	28476520	+	Missense_Mutation	SNP	T	T	C	rs5939	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	68.0	121.0	0.0	0.450331	0	T|0.975;C|0.025	0.025	strong	.	PTAFR	30	.	NM_001164723	exon3	c.A1013G	p.N338S	AGGGAATTGCCAG	.	PASS	Atlas-SNP
OR4D9	390199	hgsc.bcm.edu	37	11	59282651	59282651	+	Missense_Mutation	SNP	C	C	T	rs76276934	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	88.0	177.0	0.0	0.505747	0	C|0.979;T|0.021	0.021	strong	.	OR4D9	47	.	NM_001004711	exon1	c.C266T	p.T89I	CAGAGACAAAAAC	.	PASS	Atlas-SNP
SPATC1L	84221	hgsc.bcm.edu	37	21	47588365	47588365	+	Missense_Mutation	SNP	G	G	A	rs73908565	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	57.0	116.0	0.0	0.448819	0	G|0.978;A|0.022	0.022	strong	.	.	.	.	NM_001142854	exon3	c.C401T	p.S134F	AGCGGGGACAGCT	.	PASS	Atlas-SNP
CHCHD3	54927	hgsc.bcm.edu	37	7	132470419	132470419	+	Silent	SNP	G	G	A	rs147050556	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	324.0	186.0	329.0	0.0	0.574074	0	G|0.998;A|0.002	0.002	strong	.	CHCHD3	21	.	NM_017812	exon8	c.C663T	p.S221S	AAGCATGCTCTGC	.	PASS	Atlas-SNP
NOL10	79954	hgsc.bcm.edu	37	2	10729257	10729257	+	Missense_Mutation	SNP	T	T	C	rs34359340	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	116.0	239.0	0.0	0.469636	0	T|0.964;C|0.036	0.036	strong	.	NOL10	22	.	NM_024894	exon19	c.A1756G	p.T586A	GGACTGTCTGCTG	.	PASS	Atlas-SNP
RNF130	55819	hgsc.bcm.edu	37	5	179393867	179393867	+	Silent	SNP	T	T	C	rs10060093	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	82.0	148.0	0.0	0.450549	0	T|0.972;C|0.028	0.028	strong	.	RNF130	49	.	NM_018434	exon7	c.A1089G	p.S363S	AAGAGGTGAGATC	.	PASS	Atlas-SNP
RIMKLB	57494	hgsc.bcm.edu	37	12	8926015	8926015	+	Silent	SNP	C	C	T	rs2302488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	267.0	116.0	263.0	0.0	0.434457	0	C|0.911;T|0.089	0.089	strong	.	RIMKLB	47	.	NM_020734	exon7	c.C796T	p.L266L	GATCTGCTGATGA	.	PASS	Atlas-SNP
GRM1	2911	hgsc.bcm.edu	37	6	146755561	146755561	+	Missense_Mutation	SNP	C	C	G	rs146753539	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	23.0	63.0	0.0	0.338235	0	C|0.993;G|0.007	0.007	strong	GRM1,NS,carcinoma,-1,1	GRM1	419	1	NM_000838	exon9	c.C3214G	p.P1072A	CCACCTCCGCAGC	.	PASS	Atlas-SNP
TSKS	60385	hgsc.bcm.edu	37	19	50251701	50251701	+	Missense_Mutation	SNP	C	C	T	rs199829146	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	71.0	167.0	0.0	0.430303	0	.	.	weak	TSKS,NS,carcinoma,+1,2	TSKS	97	2	NM_021733	exon3	c.G425A	p.R142H	TTGGCGCGGACCA	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	37	1	173526520	173526520	+	Missense_Mutation	SNP	C	C	T	rs116588526	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	118.0	238.0	0.0	0.529148	0	C|0.989;T|0.011	0.011	strong	.	.	.	.	NM_178527	exon10	c.G1174A	p.V392I	TATAAACATCAGG	.	PASS	Atlas-SNP
GPATCH2	55105	hgsc.bcm.edu	37	1	217793718	217793718	+	Silent	SNP	A	A	G	rs34839777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	22.0	51.0	0.0	0.431373	0	A|0.990;G|0.010	0.010	strong	.	GPATCH2	53	.	NM_018040	exon2	c.T180C	p.P60P	TTTCAGAGGGCAA	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15793282	15793282	+	Silent	SNP	A	A	G	rs35352350	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	395.0	56.0	326.0	0.0	0.141772	0	A|0.991;G|0.009	0.009	strong	.	CYP4F12	89	.	NM_023944	exon6	c.A609G	p.L203L	CAGTCTACAGAAA	.	PASS	Atlas-SNP
SNX27	81609	hgsc.bcm.edu	37	1	151638486	151638486	+	Silent	SNP	T	T	C	rs150091333	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	50.0	95.0	0.0	0.454545	0	T|0.994;C|0.006	0.006	strong	.	SNX27	44	.	NM_030918	exon6	c.T984C	p.F328F	CTCCTTTGGTAAG	.	PASS	Atlas-SNP
GNA14	9630	hgsc.bcm.edu	37	9	80144099	80144099	+	Silent	SNP	G	G	A	rs12346870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	324.0	213.0	291.0	0.0	0.657407	0	G|0.976;A|0.024	0.024	strong	.	GNA14	50	.	NM_004297	exon2	c.C195T	p.D65D	GTCTTCGTCGCTG	.	PASS	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	37	11	18735480	18735480	+	Missense_Mutation	SNP	G	G	A	rs111397851	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	107.0	165.0	0.0	0.551546	0	G|0.961;A|0.039	0.039	strong	.	IGSF22	211	.	NM_173588	exon14	c.C2014T	p.R672C	CTTCACGCACACA	.	PASS	Atlas-SNP
ABCA3	21	hgsc.bcm.edu	37	16	2373687	2373687	+	Silent	SNP	C	C	T	rs74002800	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	46.0	111.0	0.0	0.365079	0	C|0.963;T|0.037	0.037	strong	.	ABCA3	176	.	NM_001089	exon7	c.G450A	p.V150V	ATATTTCACCTGT	.	PASS	Atlas-SNP
INSL6	11172	hgsc.bcm.edu	37	9	5185365	5185365	+	Missense_Mutation	SNP	A	A	G	rs2149554	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	61.0	84.0	1.0	0.521368	0.0119048	A|0.897;G|0.103	0.103	strong	INSL6,NS,carcinoma,+2,1	INSL6	35	1	NM_007179	exon1	c.T238C	p.F80L	TTTCGAACTGGTA	.	scavenged	Atlas-SNP
ICAM5	7087	hgsc.bcm.edu	37	19	10404588	10404588	+	Silent	SNP	T	T	C	rs116688659	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	12.0	45.0	0.0	0.333333	0	T|0.995;C|0.005	0.005	strong	.	ICAM5	53	.	NM_003259	exon7	c.T1680C	p.S560S	GGGCTCTGCGGCC	.	PASS	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274360	39274360	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	169.0	15.0	189.0	2.0	0.0887574	0.010582	.	.	none	KRTAP4-11,NS,carcinoma,0,1	KRTAP4-11	94	1	NM_033059	exon1	c.T208A	p.C70S	AGATGCAGCATCT	.	scavenged	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225355716	225355716	+	Missense_Mutation	SNP	T	T	C	rs78614986	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	279.0	131.0	271.0	0.0	0.469534	0	T|0.993;C|0.007	0.007	strong	.	DNAH14	300	.	NM_001373	exon35	c.T5455C	p.Y1819H	CAGTTTTATAATC	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141754625	141754625	+	Silent	SNP	C	C	T	rs115294234	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	95.0	169.0	0.0	0.5	0	C|0.985;T|0.015	0.015	strong	.	MGAM	767	.	NM_004668	exon27	c.C3231T	p.T1077T	CAGCACCCCTGAG	.	PASS	Atlas-SNP
SLC37A3	84255	hgsc.bcm.edu	37	7	140051116	140051116	+	Missense_Mutation	SNP	G	G	A	rs76089276	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	83.0	171.0	0.0	0.44385	0	G|0.969;A|0.031	0.031	strong	.	SLC37A3	80	.	NM_207113	exon9	c.C839T	p.A280V	CTTATCGCCTTGA	.	PASS	Atlas-SNP
CLDN22	53842	hgsc.bcm.edu	37	4	184240777	184240777	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	300.0	153.0	243.0	2.0	0.51	0.00823045	.	.	none	CLDN22,NS,carcinoma,+2,1	CLDN22	20	1	NM_001111319	exon1	c.T595C	p.Y199H	CTGCGTAGTGGCC	.	scavenged	Atlas-SNP
NAA16	79612	hgsc.bcm.edu	37	13	41929296	41929296	+	Missense_Mutation	SNP	A	A	G	rs17062054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	13.0	33.0	0.0	0.361111	0	A|0.919;G|0.081	0.081	strong	.	NAA16	74	.	NM_001110798	exon10	c.A1031G	p.E344G	TCCAGGAACTTGT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4586220	4586220	+	Silent	SNP	G	G	A	rs35109567	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	84.0	185.0	0.0	0.477273	0	G|0.974;A|0.026	0.026	strong	.	PELP1	102	.	NM_014389	exon4	c.C448T	p.L150L	CGGCCAGCTCCAT	.	PASS	Atlas-SNP
AHSG	197	hgsc.bcm.edu	37	3	186338634	186338634	+	Missense_Mutation	SNP	G	G	A	rs77385737	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	169.0	86.0	124.0	1.0	0.508876	0.00806452	G|0.996;A|0.004	0.004	strong	AHSG,NS,carcinoma,+1,1	AHSG	40	1	NM_001622	exon7	c.G1019A	p.R340H	AAACACGCACAGT	.	scavenged	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	649164	649164	+	Missense_Mutation	SNP	G	G	A	rs34519093	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	22.0	46.0	0.0	0.628571	0	G|0.978;A|0.022	0.022	strong	.	GEMIN4	116	.	NM_015721	exon2	c.C2119T	p.R707C	TGAAGCGGTCCAA	.	PASS	Atlas-SNP
INTS1	26173	hgsc.bcm.edu	37	7	1538174	1538174	+	Silent	SNP	C	C	T	rs143126716	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	166.0	131.0	0.0	1	0	C|0.988;T|0.012	0.012	strong	INTS1,NS,carcinoma,-1,1	INTS1	145	1	NM_001080453	exon10	c.G1299A	p.A433A	CTTGTGCGCGCTC	.	PASS	Atlas-SNP
AWAT1	158833	hgsc.bcm.edu	37	X	69455671	69455671	+	Missense_Mutation	SNP	G	G	A	rs61995694	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	49.0	127.0	0.0	0.411765	0	G|0.967;A|0.033	0.033	strong	.	AWAT1	74	.	NM_001013579	exon2	c.G182A	p.R61Q	CAGAGCGAGGTAA	.	PASS	Atlas-SNP
SCAF11	9169	hgsc.bcm.edu	37	12	46339033	46339033	+	Silent	SNP	A	A	G	rs11183245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	42.0	97.0	0.0	0.466667	0	A|0.972;G|0.028	0.028	strong	.	SCAF11	145	.	NM_004719	exon6	c.T462C	p.H154H	CTTACTATGTATC	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64450479	64450479	+	Missense_Mutation	SNP	A	A	G	rs78191145	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	80.0	149.0	0.0	0.57971	0	A|0.996;G|0.004	0.004	strong	.	SYNE2	577	.	NM_182914	exon18	c.A2026G	p.K676E	ATGATAAAAAAAC	.	PASS	Atlas-SNP
SDC3	9672	hgsc.bcm.edu	37	1	31349795	31349795	+	Silent	SNP	G	G	A	rs142879690	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	70.0	119.0	0.0	0.496454	0	G|0.998;A|0.002	0.002	strong	.	SDC3	45	.	NM_014654	exon3	c.C474T	p.T158T	GGAGACGGTGGTG	.	PASS	Atlas-SNP
ELL	8178	hgsc.bcm.edu	37	19	18561420	18561420	+	Silent	SNP	C	C	T	rs34078075	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	266.0	134.0	189.0	0.0	0.503759	0	C|0.976;T|0.024	0.024	strong	.	ELL	52	.	NM_006532	exon8	c.G1332A	p.S444S	GCTGCGCGAGGGG	.	PASS	Atlas-SNP
DDX27	55661	hgsc.bcm.edu	37	20	47858695	47858695	+	Missense_Mutation	SNP	G	G	A	rs143843778	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	56.0	139.0	0.0	0.421053	0	G|0.996;A|0.004	0.004	strong	.	DDX27	74	.	NM_017895	exon18	c.G2161A	p.A721T	CGCAGAGCCAAGC	.	PASS	Atlas-SNP
OR8D2	283160	hgsc.bcm.edu	37	11	124190036	124190036	+	Missense_Mutation	SNP	G	G	A	rs61735123	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	28.0	61.0	0.0	0.424242	0	G|0.972;A|0.028	0.028	strong	.	OR8D2	65	.	NM_001002918	exon1	c.C58T	p.R20C	CTGGGCGTTGTGT	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31118304	31118304	+	Silent	SNP	C	C	T	rs139910767	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	45.0	76.0	0.0	0.483871	0	C|0.999;T|0.001	0.001	strong	.	CCHCR1	68	.	NM_001105564	exon7	c.G1140A	p.A380A	CAGCTCCGCGGTG	.	PASS	Atlas-SNP
LRP4	4038	hgsc.bcm.edu	37	11	46914526	46914526	+	Silent	SNP	C	C	T	rs61741501	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	29.0	66.0	0.0	0.517857	0	C|0.947;T|0.053	0.053	strong	.	LRP4	160	.	NM_002334	exon13	c.G1695A	p.E565E	TTACCCCTCCATG	.	PASS	Atlas-SNP
CATSPER3	347732	hgsc.bcm.edu	37	5	134347241	134347241	+	Silent	SNP	T	T	C	rs7719874	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	39.0	77.0	0.0	0.46988	0	T|0.929;C|0.071	0.071	strong	.	CATSPER3	38	.	NM_178019	exon8	c.T1125C	p.H375H	CGTGCATGTGCTG	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1522330	1522330	+	Silent	SNP	C	C	T	rs11553057	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	98.0	154.0	0.0	0.518519	0	C|0.982;T|0.018	0.018	strong	.	ASMTL	56	.	NM_004192	exon13	c.G1698A	p.A566A	GCGCTGCGCCACC	.	PASS	Atlas-SNP
ABCC1	4363	hgsc.bcm.edu	37	16	16184366	16184366	+	Silent	SNP	G	G	T	rs28364004	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	31.0	66.0	0.0	0.430556	0	G|0.983;T|0.017	0.017	strong	.	ABCC1	156	.	NM_004996	exon19	c.G2565T	p.L855L	GGAGCTGCTGGCT	.	PASS	Atlas-SNP
MAN2B1	4125	hgsc.bcm.edu	37	19	12766624	12766624	+	Missense_Mutation	SNP	C	C	A	rs377104016		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	21.0	32.0	0.0	0.567568	0	.	.	weak	MAN2B1,NS,carcinoma,0,1	MAN2B1	91	1	NM_000528	exon14	c.G1714T	p.A572S	CCAGGGCGGGCAG	.	PASS	Atlas-SNP
ACVR2B	93	hgsc.bcm.edu	37	3	38523754	38523754	+	Silent	SNP	C	C	T	rs149695736	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	277.0	141.0	218.0	1.0	0.509025	0.00458716	C|0.999;T|0.001	0.001	strong	ACVR2B_ENST00000352511,caecum,carcinoma,0,2	ACVR2B	88	2	NM_001106	exon9	c.C1140T	p.A380A	AGATGCCTTCCTG	.	PASS	Atlas-SNP
CEP85L	387119	hgsc.bcm.edu	37	6	118791804	118791804	+	Missense_Mutation	SNP	T	T	C	rs7743702	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	69.0	127.0	0.0	0.526718	0	T|0.975;C|0.025	0.025	strong	.	CEP85L	26	.	NM_001178035	exon12	c.A1927G	p.M643V	CTTGCATAGACTA	.	PASS	Atlas-SNP
C3orf22	152065	hgsc.bcm.edu	37	3	126272160	126272160	+	Missense_Mutation	SNP	T	T	C	rs146981008	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	34.0	114.0	0.0	0.453333	0	T|0.999;C|0.001	0.001	strong	.	C3orf22	17	.	NM_152533	exon2	c.A74G	p.K25R	AACTTCTTGGCAA	.	PASS	Atlas-SNP
GYS2	2998	hgsc.bcm.edu	37	12	21692210	21692210	+	Silent	SNP	T	T	C	rs142883971	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	46.0	88.0	0.0	0.505495	0	T|0.995;C|0.005	0.005	strong	GYS2,NS,carcinoma,-2,1	GYS2	110	1	NM_021957	exon15	c.A1872G	p.E624E	TGTTAGTTCCACA	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79959197	79959197	+	Silent	SNP	G	G	A	rs73449933	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	57.0	69.0	0.0	0.703704	0	G|0.986;A|0.014	0.014	strong	.	VPS13A	735	.	NM_001018038	exon51	c.G7155A	p.E2385E	TAACGAGGTAAGT	.	PASS	Atlas-SNP
ADAM18	8749	hgsc.bcm.edu	37	8	39581417	39581417	+	Missense_Mutation	SNP	A	A	G	rs76378145	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	52.0	55.0	0.0	1	0	A|0.972;G|0.028	0.028	strong	.	ADAM18	169	.	NM_014237	exon19	c.A2168G	p.E723G	ATGCAGAGTATAA	.	PASS	Atlas-SNP
ST6GALNAC3	256435	hgsc.bcm.edu	37	1	76878097	76878097	+	Silent	SNP	G	G	A	rs17098940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	35.0	42.0	0.0	0.522388	0	G|0.955;A|0.045	0.045	strong	.	ST6GALNAC3	71	.	NM_001160011	exon3	c.G618A	p.K206K	TGGGAAGGACAGG	.	PASS	Atlas-SNP
MROH6	642475	hgsc.bcm.edu	37	8	144652780	144652780	+	Silent	SNP	T	T	A	rs11990485	bycluster;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	27.0	14.0	14.0	0.0	0.518519	0	T|0.989;A|0.011	0.011	strong	.	.	.	.	NM_001100878	exon5	c.A768T	p.G256G	CGTGGCTCCCACG	.	PASS	Atlas-SNP
KIF6	221458	hgsc.bcm.edu	37	6	39688551	39688551	+	Missense_Mutation	SNP	T	T	C	rs114269617	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	31.0	68.0	0.0	0.525424	0	T|0.984;C|0.016	0.016	strong	.	KIF6	233	.	NM_145027	exon2	c.A103G	p.S35G	CCAAGCTAGGTAT	.	PASS	Atlas-SNP
OR1E2	8388	hgsc.bcm.edu	37	17	3336723	3336723	+	Missense_Mutation	SNP	A	A	G	rs73296096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	98.0	214.0	0.0	0.439462	0	A|0.975;G|0.025	0.025	strong	.	OR1E2	25	.	NM_003554	exon1	c.T413C	p.L138P	TGCAGGAGGAAGC	.	PASS	Atlas-SNP
C3orf33	285315	hgsc.bcm.edu	37	3	155493497	155493497	+	Silent	SNP	T	T	C	rs377018605	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	55.0	111.0	0.0	0.55	0	.	.	weak	.	C3orf33	18	.	NM_173657	exon4	c.A186G	p.S62S	TCTCAATGAAGCT	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238253332	238253332	+	Silent	SNP	G	G	A	rs10084221	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	34.0	54.0	0.0	0.441558	0	G|0.935;A|0.065	0.065	strong	.	COL6A3	608	.	NM_004369	exon36	c.C7329T	p.A2443A	CACCCGGGCCCCC	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92568196	92568196	+	Silent	SNP	C	C	T	rs374591402		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	83.0	195.0	0.0	0.553333	0	.	.	weak	.	FAT3	1822	.	NM_001008781	exon14	c.C10032T	p.D3344D	CCAAGACGTCTAC	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229783328	229783328	+	Silent	SNP	G	G	C	rs115914317	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	76.0	163.0	0.0	0.517007	0	G|0.997;C|0.003	0.003	strong	.	URB2	152	.	NM_014777	exon7	c.G3978C	p.L1326L	TGTCCTGGCTGCA	.	PASS	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	37	13	103506690	103506690	+	Missense_Mutation	SNP	G	G	A	rs4987063	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	35.0	93.0	0.0	0.364583	0	G|0.993;A|0.007	0.007	strong	.	.	.	.	NM_001204425	exon12	c.G1795A	p.V599I	CTCTATGTTTTGC	.	PASS	Atlas-SNP
UVSSA	57654	hgsc.bcm.edu	37	4	1374769	1374769	+	Silent	SNP	G	G	A	rs115722661	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	97.0	213.0	0.0	0.480198	0	G|0.995;A|0.005	0.005	strong	.	.	.	.	NM_020894	exon12	c.G1854A	p.E618E	GCAGGAGCGCCCG	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8137052	8137052	+	Silent	SNP	G	G	A	rs10420783	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	72.0	72.0	0.0	1	0	G|0.949;A|0.051	0.051	strong	.	FBN3	300	.	NM_032447	exon62	c.C7968T	p.P2656P	GGGTCCGGGGCTG	.	PASS	Atlas-SNP
NMU	10874	hgsc.bcm.edu	37	4	56475330	56475330	+	Missense_Mutation	SNP	T	T	C	rs35892915	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	43.0	71.0	0.0	0.494253	0	T|0.978;C|0.022	0.022	strong	.	NMU	17	.	NM_006681	exon4	c.A236G	p.E79G	AGCTCCTCCAGTG	.	PASS	Atlas-SNP
NCOA6	23054	hgsc.bcm.edu	37	20	33338099	33338099	+	Silent	SNP	G	G	A	rs61736335	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	101.0	155.0	0.0	0.510101	0	G|0.996;A|0.004	0.004	strong	.	NCOA6	219	.	NM_014071	exon9	c.C1899T	p.G633G	CATCTGGCCCTGG	.	PASS	Atlas-SNP
LIPG	9388	hgsc.bcm.edu	37	18	47088741	47088741	+	Silent	SNP	C	C	T	rs874566	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	46.0	113.0	0.0	0.494624	0	C|0.953;T|0.047	0.047	strong	.	LIPG	47	.	NM_006033	exon1	c.C63T	p.S21S	GGGGAGCCCCGTA	.	PASS	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	37	2	50280469	50280469	+	Silent	SNP	C	C	T	rs74714098	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	104.0	198.0	0.0	0.509804	0	C|0.983;T|0.017	0.017	strong	.	NRXN1	1118	.	NM_001135659	exon22	c.G4188A	p.T1396T	CAGGGTCGTGGTA	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16860602	16860602	+	Silent	SNP	T	T	C	rs61731252	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	55.0	52.0	0.0	0.982143	0	T|0.927;C|0.073	0.073	strong	.	NWD1	303	.	NM_001007525	exon6	c.T1149C	p.R383R	TGCCCGTGGCCTG	.	PASS	Atlas-SNP
IGSF5	150084	hgsc.bcm.edu	37	21	41143018	41143018	+	Missense_Mutation	SNP	T	T	A	rs74817033	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	35.0	64.0	0.0	0.5	0	T|0.959;A|0.041	0.041	strong	.	IGSF5	62	.	NM_001080444	exon4	c.T594A	p.S198R	TCAAAGTGCAGTG	.	PASS	Atlas-SNP
FOCAD	54914	hgsc.bcm.edu	37	9	20820346	20820346	+	Silent	SNP	A	A	T	rs147147351	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	55.0	127.0	0.0	0.447154	0	A|1.000;T|0.000	0.000	strong	KIAA1797,rectum,carcinoma,+1,1	.	.	1	NM_017794	exon15	c.A1584T	p.R528R	TCTACGAATAATA	.	PASS	Atlas-SNP
RGS13	6003	hgsc.bcm.edu	37	1	192613522	192613522	+	Missense_Mutation	SNP	C	C	T	rs146420296		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	96.0	235.0	0.0	0.448598	0	C|1.000;T|0.000	0.000	weak	.	RGS13	31	.	NM_002927	exon4	c.C58T	p.P20S	AGGCCCCCTTCAA	.	PASS	Atlas-SNP
MBOAT7	79143	hgsc.bcm.edu	37	19	54682538	54682538	+	Silent	SNP	C	C	T	rs116423748	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	61.0	100.0	0.0	0.504132	0	C|0.991;T|0.009	0.009	strong	.	MBOAT7	37	.	NM_001146082	exon7	c.G975A	p.Q325Q	CCACCACTGCACC	.	PASS	Atlas-SNP
NFAM1	150372	hgsc.bcm.edu	37	22	42805444	42805444	+	Missense_Mutation	SNP	G	G	C	rs17003048	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	42.0	72.0	0.0	0.525	0	G|0.962;C|0.038	0.038	strong	.	NFAM1	12	.	NM_145912	exon3	c.C561G	p.N187K	TACCTTGTTCCAG	.	PASS	Atlas-SNP
ATOH1	474	hgsc.bcm.edu	37	4	94750227	94750227	+	Silent	SNP	G	G	A	rs138388359	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	52.0	133.0	0.0	0.452174	0	A|0.001;G|0.999;T|0.000	0.001	strong	.	ATOH1	40	.	NM_005172	exon1	c.G150A	p.P50P	CTACCCGCCTGAG	.	PASS	Atlas-SNP
UTP3	57050	hgsc.bcm.edu	37	4	71555656	71555656	+	Missense_Mutation	SNP	T	T	G	rs111975570	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	37.0	71.0	0.0	0.486842	0	T|0.994;G|0.006	0.006	strong	.	UTP3	40	.	NM_020368	exon1	c.T1262G	p.L421R	GGGGACTTACTCC	.	PASS	Atlas-SNP
SRCIN1	80725	hgsc.bcm.edu	37	17	36708277	36708277	+	Missense_Mutation	SNP	C	C	T	rs7222929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	62.0	90.0	1.0	0.5	0.0111111	C|0.930;T|0.070	0.070	strong	SRCIN1,rectum,carcinoma,0,1	SRCIN1	66	1	NM_025248	exon14	c.G2572A	p.V858M	AGTCCACGCTCTT	.	scavenged	Atlas-SNP
PRSS36	146547	hgsc.bcm.edu	37	16	31151622	31151622	+	Missense_Mutation	SNP	C	C	T	rs61729752	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	50.0	93.0	0.0	0.520833	0	C|0.982;T|0.018	0.018	strong	.	PRSS36	50	.	NM_173502	exon14	c.G2282A	p.R761K	TCACACCTGTTCT	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103387667	103387667	+	Missense_Mutation	SNP	G	G	A	rs79455872	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	286.0	132.0	271.0	0.0	0.461538	0	G|0.970;A|0.030	0.030	strong	.	.	.	.	NM_001146197	exon4	c.C15380T	p.S5127L	TCACTTGAAAGTT	.	PASS	Atlas-SNP
CTC1	80169	hgsc.bcm.edu	37	17	8141779	8141779	+	Silent	SNP	T	T	C	rs73244859	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	102.0	208.0	0.0	0.507463	0	T|0.984;C|0.016	0.016	strong	.	CTC1	75	.	NM_025099	exon3	c.A366G	p.A122A	CAAGTCTGCCGAT	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32014190	32014190	+	Silent	SNP	G	G	A	rs116701346	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	47.0	82.0	0.0	0.594937	0	G|0.996;A|0.004	0.004	strong	.	TNXB	553	.	NM_019105	exon31	c.C10362T	p.T3454T	AGCCACGGTCAGT	.	PASS	Atlas-SNP
NETO1	81832	hgsc.bcm.edu	37	18	70417378	70417378	+	Missense_Mutation	SNP	G	G	C	rs17086286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	212.0	93.0	181.0	0.0	0.438679	0	G|0.978;C|0.022	0.022	strong	.	NETO1	178	.	NM_001201465	exon9	c.C1460G	p.A487G	GCATCTGCAGCAT	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240982009	240982009	+	Missense_Mutation	SNP	G	G	A	rs202192655		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	2.0	35.0	0.0	0.166667	0	.	.	weak	PRR21,NS,malignant_melanoma,0,2	PRR21	53	2	NM_001080835	exon1	c.C391T	p.P131S	CCGTGGGTGAAGA	.	scavenged	Atlas-SNP
SPOCK2	9806	hgsc.bcm.edu	37	10	73826775	73826775	+	Silent	SNP	G	G	A	rs7079142	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	34.0	58.0	0.0	0.459459	0	G|0.990;A|0.010	0.010	strong	.	SPOCK2	32	.	NM_001244950	exon8	c.C813T	p.A271A	GATGGCGGCCAGC	.	PASS	Atlas-SNP
PGLYRP2	114770	hgsc.bcm.edu	37	19	15587067	15587067	+	Silent	SNP	T	T	A	rs35927052	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	59.0	116.0	0.0	0.541284	0	T|0.981;A|0.019	0.019	strong	.	PGLYRP2	116	.	NM_052890	exon2	c.A414T	p.I138I	CAAATTTATGACC	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38377404	38377404	+	Missense_Mutation	SNP	C	C	T	rs201328117		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	12.0	30.0	0.0	0.179104	0	.	.	weak	.	WDR87	191	.	NM_031951	exon6	c.G6790A	p.E2264K	CCTCCTCCCTTAC	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44891748	44891748	+	Missense_Mutation	SNP	T	T	C	rs60800862	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	60.0	134.0	0.0	0.451128	0	T|0.983;C|0.017	0.017	strong	.	ZNF285	86	.	NM_152354	exon4	c.A659G	p.E220G	CGTTTTTCAACCG	.	PASS	Atlas-SNP
COX1	5742	hgsc.bcm.edu	37	MT	6253	6253	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	12.0	11.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361624	exon1	c.T350C	p.M117T	CTGCTATAGTGGA	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70845400	70845400	+	Missense_Mutation	SNP	A	A	G	rs59354595	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	103.0	218.0	0.0	0.451754	0	A|0.963;G|0.037	0.037	strong	.	BDP1	204	.	NM_018429	exon34	c.A6962G	p.K2321R	TGGTCAAATCAGT	.	PASS	Atlas-SNP
FCGR3A	2214	hgsc.bcm.edu	37	1	161518233	161518233	+	Silent	SNP	C	C	A	rs139622799	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	585.0	181.0	488.0	2.0	0.309402	0.00409836	C|0.985;A|0.015	0.015	strong	FCGR3A,lower_third,carcinoma,-2,1	FCGR3A	38	1	NM_000569	exon3	c.G405T	p.P135P	CTGCACCGGGTCA	.	scavenged	Atlas-SNP
TLR3	7098	hgsc.bcm.edu	37	4	187004544	187004544	+	Silent	SNP	C	C	T	rs35111588	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	45.0	116.0	0.0	0.412844	0	C|0.949;T|0.051	0.051	strong	.	TLR3	83	.	NM_003265	exon4	c.C1704T	p.N568N	CCTTAACTTGGAG	.	PASS	Atlas-SNP
ORAOV1	220064	hgsc.bcm.edu	37	11	69490001	69490001	+	Missense_Mutation	SNP	C	C	T	rs56107468	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	218.0	101.0	227.0	0.0	0.463303	0	C|0.978;T|0.022	0.022	strong	.	ORAOV1	11	.	NM_153451	exon1	c.G7A	p.G3S	GACTGCCAGCCAT	.	PASS	Atlas-SNP
USP17L2	377630	hgsc.bcm.edu	37	8	11995276	11995276	+	Missense_Mutation	SNP	C	C	T	rs372605534		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	351.0	148.0	322.0	2.0	0.421652	0.00621118	.	.	weak	USP17L2,NS,carcinoma,0,1	USP17L2	47	1	NM_201402	exon1	c.G994A	p.D332N	GTCCGTCGTGACA	.	scavenged	Atlas-SNP
RACGAP1	29127	hgsc.bcm.edu	37	12	50384469	50384469	+	Silent	SNP	A	A	G	rs56699050	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	70.0	136.0	0.0	0.530303	0	A|0.918;G|0.082	0.082	strong	.	RACGAP1	36	.	NM_013277	exon18	c.T1821C	p.P607P	ATACCTAGGAGTG	.	PASS	Atlas-SNP
ZNF80	7634	hgsc.bcm.edu	37	3	113955726	113955726	+	Nonsense_Mutation	SNP	G	G	A	rs79892855	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	40.0	88.0	0.0	0.449438	0	G|0.987;A|0.013	0.013	strong	.	ZNF80	75	.	NM_007136	exon1	c.C196T	p.R66X	GATGTCGAACAAG	.	PASS	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	37	12	52822464	52822464	+	Missense_Mutation	SNP	T	T	C	rs2232402	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	73.0	153.0	0.0	0.489933	0	T|0.969;C|0.031	0.031	strong	KRT75,NS,carcinoma,+2,3	KRT75	75	3	NM_004693	exon6	c.A1099G	p.I367V	CAGAGATCTCTTG	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6182828	6182828	+	Missense_Mutation	SNP	A	A	T	rs1800387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	28.0	77.0	0.0	0.318182	0	A|0.839;T|0.161	0.161	strong	.	VWF	338	.	NM_000552	exon8	c.T954A	p.N318K	CATTTCATTGATG	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44102193	44102193	+	Silent	SNP	G	G	A	rs187103862	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	44.0	94.0	0.0	0.431373	0	G|1.000;A|0.000	0.000	strong	LOXHD1_ENST00000398722,NS,carcinoma,0,2	LOXHD1	367	2	NM_144612	exon32	c.C4956T	p.I1652I	CTCCCCGATGAGA	.	PASS	Atlas-SNP
TEX19	400629	hgsc.bcm.edu	37	17	80320303	80320303	+	Missense_Mutation	SNP	G	G	T	rs147220016	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	26.0	51.0	0.0	0.351351	0	G|0.997;T|0.003	0.003	strong	.	TEX19	17	.	NM_207459	exon2	c.G277T	p.G93W	GTGCAGGGGGGCT	.	PASS	Atlas-SNP
CNGB3	54714	hgsc.bcm.edu	37	8	87680282	87680282	+	Missense_Mutation	SNP	C	C	T	rs16916632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	86.0	163.0	0.0	0.464865	0	C|0.951;T|0.049	0.049	strong	.	CNGB3	176	.	NM_019098	exon5	c.G608A	p.R203Q	TTAATTCGCTTTA	.	PASS	Atlas-SNP
DLK1	8788	hgsc.bcm.edu	37	14	101201206	101201206	+	Silent	SNP	C	C	T	rs139584149	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	16.0	30.0	0.0	0.615385	0	C|0.991;T|0.009	0.009	strong	.	DLK1	57	.	NM_003836	exon5	c.C1125T	p.S375S	CTTCAGCAAGGAG	.	PASS	Atlas-SNP
WBP4	11193	hgsc.bcm.edu	37	13	41639377	41639377	+	Silent	SNP	C	C	T	rs61740513	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	37.0	56.0	0.0	0.569231	0	C|0.967;T|0.033	0.033	strong	.	WBP4	40	.	NM_007187	exon4	c.C216T	p.A72A	AGCTGCCCTGAAA	.	PASS	Atlas-SNP
SSRP1	6749	hgsc.bcm.edu	37	11	57101000	57101000	+	Silent	SNP	G	G	C	rs7932705	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	63.0	144.0	0.0	0.567568	0	G|0.986;C|0.014	0.014	strong	.	SSRP1	75	.	NM_003146	exon4	c.C255G	p.L85L	ATCAGAGAGTTTC	.	PASS	Atlas-SNP
PLAC4	191585	hgsc.bcm.edu	37	21	42551183	42551183	+	Missense_Mutation	SNP	G	G	A	rs202000983	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	297.0	158.0	263.0	1.0	0.531987	0.00380228	.	.	weak	.	.	.	.	NM_182832	exon1	c.C373T	p.P125S	AGTGAGGGAGTCC	.	PASS	Atlas-SNP
ERCC4	2072	hgsc.bcm.edu	37	16	14031695	14031695	+	Silent	SNP	A	A	G	rs2020958	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	41.0	70.0	0.0	0.506173	0	A|0.982;G|0.018	0.018	strong	.	ERCC4	100	.	NM_005236	exon9	c.A1884G	p.E628E	AAAGGAAGCTTTT	.	PASS	Atlas-SNP
TRMT2B	79979	hgsc.bcm.edu	37	X	100278558	100278558	+	Silent	SNP	T	T	C	rs61745518	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	175.0	165.0	0.0	0.972222	0	T|0.979;C|0.021	0.021	strong	.	TRMT2B	33	.	NM_001167972	exon7	c.A657G	p.V219V	ATGAAATACAAGG	.	PASS	Atlas-SNP
CAPN5	726	hgsc.bcm.edu	37	11	76796022	76796022	+	Silent	SNP	C	C	A	rs34236021	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	24.0	85.0	0.0	0.328767	0	C|0.973;A|0.027	0.027	strong	.	CAPN5	67	.	NM_004055	exon2	c.C90A	p.P30P	GGACCCCCTCTTC	.	PASS	Atlas-SNP
SSR2	6746	hgsc.bcm.edu	37	1	155988108	155988108	+	Silent	SNP	A	A	G	rs34428308	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	37.0	61.0	0.0	0.560606	0	A|0.990;G|0.010	0.010	strong	.	SSR2	20	.	NM_003145	exon3	c.T207C	p.F69F	AATGCCAAAGTCT	.	PASS	Atlas-SNP
TRIM29	23650	hgsc.bcm.edu	37	11	119996490	119996490	+	Silent	SNP	G	G	A	rs61753082	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	78.0	151.0	0.0	0.661017	0	G|0.979;A|0.021	0.021	strong	.	TRIM29	78	.	NM_012101	exon4	c.C1242T	p.D414D	CAGGTCGTCCTTG	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15791212	15791212	+	Silent	SNP	A	A	C	rs61731188	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	258.0	48.0	211.0	0.0	0.186047	0	A|0.969;C|0.031	0.031	strong	.	CYP4F12	89	.	NM_023944	exon5	c.A408C	p.I136I	AGGGATACTGCTG	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48145742	48145742	+	Missense_Mutation	SNP	T	T	A	rs34135219	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	118.0	224.0	0.0	0.502128	0	T|0.963;A|0.037	0.037	strong	.	ABCC12	190	.	NM_033226	exon14	c.A2069T	p.E690V	CTCTCCTCCATTA	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50406892	50406892	+	Silent	SNP	C	C	T	rs61737143	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	55.0	171.0	0.0	0.348101	0	C|0.982;T|0.018	0.018	strong	.	SALL4	168	.	NM_020436	exon2	c.G2130A	p.T710T	AAGAGGCGTGGGG	.	PASS	Atlas-SNP
CXXC11	285093	hgsc.bcm.edu	37	2	242814604	242814604	+	Silent	SNP	G	G	C	rs78628254	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	40.0	56.0	0.0	0.547945	0	G|0.967;C|0.033	0.033	strong	.	.	.	.	NM_173821	exon2	c.G897C	p.P299P	CAGCCCGGTTGGC	.	PASS	Atlas-SNP
ITSN2	50618	hgsc.bcm.edu	37	2	24498674	24498674	+	Silent	SNP	C	C	T	rs77507357	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	104.0	172.0	0.0	0.517413	0	C|0.989;T|0.011	0.011	strong	.	ITSN2	224	.	NM_147152	exon18	c.G1989A	p.Q663Q	ATAAAGCTGTTCA	.	PASS	Atlas-SNP
UBE2U	148581	hgsc.bcm.edu	37	1	64686577	64686577	+	Missense_Mutation	SNP	C	C	T	rs139887828	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	78.0	187.0	0.0	0.490566	0	C|0.991;T|0.009	0.009	strong	.	UBE2U	16	.	NM_152489	exon6	c.C493T	p.R165C	GACCCACGTAAAT	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	37	7	107706208	107706208	+	Silent	SNP	C	C	T	rs73725316	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	51.0	118.0	0.0	0.472222	0	C|0.992;T|0.008	0.008	strong	.	LAMB4	253	.	NM_007356	exon21	c.G2835A	p.T945T	CATACCCGTATAA	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2152850	2152850	+	Silent	SNP	A	A	G	rs9926309	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	24.0	80.0	0.0	0.352941	0	A|0.976;G|0.024	0.024	strong	.	PKD1	184	.	NM_000296	exon24	c.T8913C	p.A2971A	GTGGTCAGCACCC	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50019740	50019740	+	Missense_Mutation	SNP	T	T	C	rs114590878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	69.0	112.0	0.0	0.560976	0	T|0.992;C|0.008	0.008	strong	.	WDFY4	205	.	NM_020945	exon30	c.T5201C	p.M1734T	AGCTGATGGACGG	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	37	20	34089679	34089679	+	Silent	SNP	C	C	T	rs224379	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	21.0	31.0	0.0	0.6	0	C|0.996;T|0.004	0.004	strong	.	CEP250	141	.	NM_007186	exon29	c.C3906T	p.S1302S	GAAATCCAAGTGG	.	PASS	Atlas-SNP
NLRP14	338323	hgsc.bcm.edu	37	11	7064271	7064271	+	Silent	SNP	T	T	C	rs116753166	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	82.0	127.0	0.0	0.493976	0	T|0.983;C|0.017	0.017	strong	.	NLRP14	187	.	NM_176822	exon4	c.T1014C	p.Y338Y	GGAGTATATTTAC	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49965956	49965956	+	Missense_Mutation	SNP	G	G	A	rs10406757	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	323.0	171.0	275.0	0.0	0.529412	0	A|0.034;C|0.000;G|0.965	0.034	strong	.	ALDH16A1	54	.	NM_153329	exon8	c.G1042A	p.A348T	GGGGCTGCCGCAT	.	PASS	Atlas-SNP
FGF6	2251	hgsc.bcm.edu	37	12	4554549	4554549	+	Missense_Mutation	SNP	G	G	A	rs17183529	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	44.0	59.0	0.0	0.494382	0	G|0.996;A|0.004	0.004	strong	FGF6,colon,carcinoma,-1,2	FGF6	40	2	NM_020996	exon1	c.C188T	p.A63V	AGCCCGGCGCGAG	.	PASS	Atlas-SNP
IL1A	3552	hgsc.bcm.edu	37	2	113539224	113539224	+	Silent	SNP	G	G	A	rs20540	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	112.0	243.0	1.0	0.46281	0.00411523	G|0.980;A|0.020	0.020	strong	.	IL1A	19	.	NM_000575	exon4	c.C276T	p.I92I	ATCAGTGATGGAT	.	PASS	Atlas-SNP
SUPT7L	9913	hgsc.bcm.edu	37	2	27883958	27883958	+	Silent	SNP	C	C	T	rs6756254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	440.0	194.0	358.0	0.0	0.440909	0	C|0.940;T|0.060	0.060	strong	.	SUPT7L	36	.	NM_014860	exon3	c.G312A	p.S104S	AGGGCACGAGGGA	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47295906	47295906	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	16.0	36.0	0.0	0.470588	0	.	.	none	.	PREX1	441	.	NM_020820	exon13	c.G1581A	p.P527P	GATCACCGGGGTG	.	PASS	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91770308	91770308	+	Silent	SNP	C	C	T	rs112741231	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	31.0	54.0	0.0	0.534483	0	C|0.983;T|0.017	0.017	strong	CCDC88C_ENST00000389857,NS,carcinoma,0,2	CCDC88C	192	2	NM_001080414	exon20	c.G3372A	p.T1124T	ACTCAGCGTGGAG	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76922208	76922208	+	Silent	SNP	G	G	A	rs111033209	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	24.0	83.0	0.0	0.387097	0	G|0.966;A|0.034	0.034	strong	.	MYO7A	164	.	NM_000260	exon45	c.G6063A	p.K2021K	GCCCAAGTATCTC	.	PASS	Atlas-SNP
MSLN	10232	hgsc.bcm.edu	37	16	816973	816973	+	Missense_Mutation	SNP	A	A	G	rs35317722	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	38.0	58.0	0.0	0.493506	0	A|0.970;G|0.030	0.030	strong	.	MSLN	109	.	NM_013404	exon14	c.A1486G	p.N496D	AACATGAACGGGT	.	PASS	Atlas-SNP
MEGF8	1954	hgsc.bcm.edu	37	19	42873089	42873089	+	Silent	SNP	G	G	A	rs10425783	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	48.0	78.0	0.0	0.539326	0	G|0.969;A|0.031	0.031	strong	.	MEGF8	358	.	NM_001271938	exon37	c.G6576A	p.T2192T	CGAGACGCAGAAT	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23914286	23914286	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	62.0	79.0	0.0	0.512397	0	.	.	none	.	SACS	871	.	NM_014363	exon10	c.A3729G	p.E1243E	GTAGTCTTCATCA	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11272227	11272227	+	Missense_Mutation	SNP	C	C	T	rs61744103	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	46.0	73.0	0.0	0.597403	0	C|0.991;T|0.009	0.009	strong	.	CLEC16A	101	.	NM_015226	exon23	c.C2842T	p.L948F	CCTCACCTTCCTG	.	PASS	Atlas-SNP
CCL18	6362	hgsc.bcm.edu	37	17	34391721	34391721	+	Missense_Mutation	SNP	G	G	A	rs73290772	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	74.0	115.0	0.0	0.493333	0	G|0.994;A|0.006	0.006	strong	.	CCL18	9	.	NM_002988	exon1	c.G19A	p.A7T	GCAGCTGCCCTCC	.	PASS	Atlas-SNP
LMAN1L	79748	hgsc.bcm.edu	37	15	75111530	75111530	+	Missense_Mutation	SNP	G	G	A	rs62621375	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	225.0	224.0	236.0	0.0	0.995556	0	G|0.924;A|0.076	0.076	strong	.	LMAN1L	43	.	NM_021819	exon6	c.G635A	p.G212D	ATCCAGGTGAGTT	.	PASS	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	37	6	169648723	169648723	+	Missense_Mutation	SNP	G	G	C	rs36088849	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	60.0	84.0	0.0	0.545455	0	G|0.977;C|0.023	0.023	strong	.	THBS2	230	.	NM_003247	exon4	c.C398G	p.T133S	TGCCGGGTGCCGT	.	PASS	Atlas-SNP
FGD3	89846	hgsc.bcm.edu	37	9	95768396	95768396	+	Silent	SNP	C	C	T	rs199786328	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	56.0	68.0	0.0	0.658824	0	C|1.000;T|0.000	0.000	strong	.	FGD3	116	.	NM_001083536	exon6	c.C771T	p.A257A	CCGAGCCGTAGGG	.	PASS	Atlas-SNP
JAG1	182	hgsc.bcm.edu	37	20	10624502	10624502	+	Silent	SNP	G	G	A	rs56225585	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	58.0	58.0	0.0	1	0	G|0.914;A|0.086	0.086	strong	.	JAG1	213	.	NM_000214	exon20	c.C2382T	p.S794S	GGTGCCGCTGTTG	.	PASS	Atlas-SNP
NEFM	4741	hgsc.bcm.edu	37	8	24771318	24771318	+	Silent	SNP	G	G	A	rs61735462	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	34.0	68.0	0.0	0.419753	0	G|0.992;A|0.008	0.008	strong	.	NEFM	115	.	NM_005382	exon1	c.G12A	p.T4T	CTACACGTTGGAC	.	PASS	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102262227	102262227	+	Silent	SNP	C	C	G	rs143541316	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	18.0	42.0	0.0	0.45	0	C|0.990;G|0.010	0.010	strong	.	SEC31B	84	.	NM_015490	exon11	c.G1194C	p.L398L	AGTAACCAGCTTC	.	PASS	Atlas-SNP
PIK3C3	5289	hgsc.bcm.edu	37	18	39576682	39576682	+	Silent	SNP	G	G	A	rs140083392	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	65.0	186.0	1.0	0.398773	0.00537634	G|0.999;A|0.001	0.001	strong	PIK3C3,NS,carcinoma,+1,1	PIK3C3	138	1	NM_002647	exon9	c.G972A	p.T324T	TCTTACGAATCAA	.	scavenged	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33486992	33486992	+	Missense_Mutation	SNP	A	A	C	rs75351369	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	290.0	143.0	311.0	0.0	0.493103	0	A|0.973;C|0.027	0.027	strong	.	RHPN2	107	.	NM_033103	exon11	c.T1360G	p.Y454D	GGGCGTACGTGAG	.	PASS	Atlas-SNP
UNC45B	146862	hgsc.bcm.edu	37	17	33475426	33475426	+	Silent	SNP	C	C	T	rs16970656	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	41.0	77.0	0.0	0.476744	0	C|0.975;T|0.025	0.025	strong	.	UNC45B	133	.	NM_001267052	exon2	c.C144T	p.N48N	TCGGAACCGGGCA	.	PASS	Atlas-SNP
FES	2242	hgsc.bcm.edu	37	15	91434277	91434277	+	Silent	SNP	C	C	T	rs2229074	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	98.0	75.0	0.0	0.98	0	C|0.935;T|0.065	0.065	strong	.	FES	102	.	NM_002005	exon11	c.C1386T	p.H462H	GTACCACGGGGCC	.	PASS	Atlas-SNP
CPXM2	119587	hgsc.bcm.edu	37	10	125651150	125651150	+	Missense_Mutation	SNP	G	G	A	rs112027854	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	18.0	7.0	12.0	0.0	0.388889	0	G|0.500;A|0.500	0.500	weak	CPXM2,rectum,carcinoma,0,1	CPXM2	120	1	NM_198148	exon1	c.C26T	p.P9L	AGCGCTGGGGTAG	.	PASS	Atlas-SNP
KRT6C	286887	hgsc.bcm.edu	37	12	52865924	52865924	+	Silent	SNP	G	G	A	rs77218649	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	398.0	189.0	340.0	0.0	0.474874	0	G|0.976;A|0.024	0.024	strong	.	KRT6C	55	.	NM_173086	exon2	c.C681T	p.S227S	GACGATGCTGTCC	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	37	6	7565596	7565596	+	Missense_Mutation	SNP	C	C	T	rs139509870	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	22.0	58.0	0.0	0.44	0	C|1.000;T|0.000	0.000	strong	.	DSP	306	.	NM_004415	exon7	c.C782T	p.A261V	AGAAAGCGTCCTT	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66928470	66928470	+	Silent	SNP	C	C	T	rs28385895	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	48.0	80.0	0.0	0.470588	0	C|0.959;T|0.041	0.041	strong	.	ABCA8	213	.	NM_007168	exon6	c.G756A	p.K252K	CAAGGCCTTCATC	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	6986589	6986589	+	Missense_Mutation	SNP	A	A	C	rs111451391	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	89.0	162.0	1.0	0.511494	0.00617284	A|0.995;C|0.004;T|0.000	0.004	strong	KDM4C,NS,carcinoma,-2,1	KDM4C	186	1	NM_001146696	exon11	c.A1666C	p.S556R	GTGGAGAGCCATG	.	scavenged	Atlas-SNP
MICALL2	79778	hgsc.bcm.edu	37	7	1481983	1481983	+	Missense_Mutation	SNP	G	G	A	rs4075307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	76.0	86.0	0.0	1	0	G|0.965;A|0.035	0.035	strong	.	MICALL2	63	.	NM_182924	exon7	c.C1556T	p.P519L	CTCAGCGGGGCTG	.	PASS	Atlas-SNP
E4F1	1877	hgsc.bcm.edu	37	16	2273676	2273676	+	Missense_Mutation	SNP	C	C	A	rs200831818	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	20.0	12.0	8.0	0.0	0.6	0	.	.	weak	.	E4F1	53	.	NM_004424	exon1	c.C62A	p.A21D	CCGAAGCCGGGCG	.	PASS	Atlas-SNP
OR8J1	219477	hgsc.bcm.edu	37	11	56128226	56128226	+	Silent	SNP	T	T	C	rs11823483	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	73.0	146.0	0.0	0.453416	0	T|0.955;C|0.045	0.045	strong	.	OR8J1	87	.	NM_001005205	exon1	c.T504C	p.Y168Y	GTCTTATTGCTCT	.	PASS	Atlas-SNP
OR6C68	403284	hgsc.bcm.edu	37	12	55887054	55887054	+	Missense_Mutation	SNP	C	C	G	rs56760228	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	23.0	61.0	0.0	0.370968	0	C|0.953;G|0.047	0.047	strong	.	OR6C68	36	.	NM_001005519	exon1	c.C893G	p.A298G	AACAAGCCTTTCA	.	PASS	Atlas-SNP
CAMK1	8536	hgsc.bcm.edu	37	3	9804658	9804658	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	70.0	127.0	0.0	0.578512	0	.	.	none	.	CAMK1	32	.	NM_003656	exon5	c.C369T	p.F123F	CACCTGGAAGATG	.	PASS	Atlas-SNP
KIAA1107	23285	hgsc.bcm.edu	37	1	92646431	92646431	+	Missense_Mutation	SNP	A	A	G	rs7523466	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	44.0	80.0	0.0	0.511628	0	A|0.994;G|0.006	0.006	strong	.	KIAA1107	60	.	NM_015237	exon8	c.A1877G	p.D626G	CAGATGATTGCGA	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105415899	105415899	+	Silent	SNP	A	A	G	rs11850869	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	296.0	294.0	276.0	0.0	0.993243	0	A|0.965;G|0.035	0.035	strong	.	AHNAK2	719	.	NM_138420	exon7	c.T5889C	p.A1963A	CAGCTTAGCCTTC	.	PASS	Atlas-SNP
GSE1	23199	hgsc.bcm.edu	37	16	85695298	85695298	+	Silent	SNP	C	C	T	rs61737039	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	61.0	125.0	0.0	0.484127	0	C|0.988;T|0.012	0.012	strong	.	.	.	.	NM_014615	exon9	c.C2187T	p.F729F	TGAGTTCCTGCAG	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27803810	27803810	+	Silent	SNP	C	C	T	rs13408423	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	42.0	62.0	0.0	0.617647	0	C|0.986;T|0.014	0.014	strong	.	C2orf16	357	.	NM_032266	exon1	c.C4371T	p.P1457P	CAAGCCCACAGAT	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32087828	32087828	+	Missense_Mutation	SNP	C	C	T	rs36097367	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	89.0	95.0	0.0	0.597315	0	C|0.961;T|0.039	0.039	strong	PDZD2,NS,carcinoma,-1,1	PDZD2	306	1	NM_178140	exon19	c.C4274T	p.T1425M	CTGTGACGGACAT	.	PASS	Atlas-SNP
KIAA0319	9856	hgsc.bcm.edu	37	6	24596433	24596433	+	Missense_Mutation	SNP	A	A	C	rs73727343	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	25.0	55.0	0.0	0.462963	0	A|0.970;C|0.030	0.030	strong	.	KIAA0319	117	.	NM_001168377	exon3	c.T469G	p.S157A	CATCTGAGTACTC	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62291912	62291912	+	Missense_Mutation	SNP	C	C	T	rs115362908	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	45.0	80.0	0.0	0.592105	0	C|0.996;T|0.004	0.004	strong	.	AHNAK	532	.	NM_001620	exon5	c.G9977A	p.S3326N	TCCAAACTGGGAG	.	PASS	Atlas-SNP
NOL10	79954	hgsc.bcm.edu	37	2	10797952	10797952	+	Silent	SNP	G	G	A	rs61737663	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	92.0	199.0	0.0	0.479167	0	G|0.988;A|0.012	0.012	strong	.	NOL10	22	.	NM_024894	exon11	c.C822T	p.P274P	CTTAATGGGCAGC	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155158104	155158104	+	Missense_Mutation	SNP	G	G	A	rs17031279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	90.0	162.0	0.0	0.505618	0	G|0.979;A|0.021	0.021	strong	.	DCHS2	594	.	NM_017639	exon25	c.C6335T	p.T2112M	ACAAGCGTGCTTC	.	PASS	Atlas-SNP
USP2	9099	hgsc.bcm.edu	37	11	119243612	119243612	+	Silent	SNP	T	T	C	rs4938649	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	29.0	55.0	0.0	0.630435	0	T|0.959;C|0.041	0.041	strong	.	USP2	71	.	NM_004205	exon2	c.A579G	p.E193E	CAGGTATTCAGGG	.	PASS	Atlas-SNP
CNST	163882	hgsc.bcm.edu	37	1	246755204	246755204	+	Missense_Mutation	SNP	C	C	T	rs116182112	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	22.0	54.0	0.0	0.488889	0	C|0.998;T|0.002	0.002	strong	.	CNST	73	.	NM_152609	exon2	c.C340T	p.P114S	AGAAGTCCAAGAA	.	PASS	Atlas-SNP
MRPL23	6150	hgsc.bcm.edu	37	11	1972229	1972229	+	Missense_Mutation	SNP	G	G	A	rs377324983		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	37.0	64.0	0.0	0.528571	0	.	.	weak	.	MRPL23	14	.	NM_021134	exon2	c.G118A	p.V40M	GACACCGTGCAGT	.	PASS	Atlas-SNP
FCER2	2208	hgsc.bcm.edu	37	19	7754101	7754101	+	Missense_Mutation	SNP	G	G	A	rs34694289	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	138.0	156.0	0.0	0.587234	0	G|0.990;A|0.010	0.010	strong	.	FCER2	19	.	NM_002002	exon11	c.C944T	p.P315L	GCAGAGGGGGTGG	.	PASS	Atlas-SNP
PCSK7	9159	hgsc.bcm.edu	37	11	117089801	117089801	+	Missense_Mutation	SNP	T	T	C	rs61729982	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	29.0	44.0	0.0	0.707317	0	T|0.996;C|0.004	0.004	strong	.	PCSK7	59	.	NM_004716	exon11	c.A1403G	p.N468S	CAGGCGTTGAGGA	.	PASS	Atlas-SNP
FTSJD1	55783	hgsc.bcm.edu	37	16	71317567	71317567	+	Missense_Mutation	SNP	A	A	G	rs16970857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	88.0	178.0	0.0	0.488889	0	A|0.964;G|0.036	0.036	strong	.	FTSJD1	70	.	NM_018348	exon3	c.T2257C	p.F753L	TAATGAAATGCAA	.	PASS	Atlas-SNP
KIF20A	10112	hgsc.bcm.edu	37	5	137520025	137520025	+	Missense_Mutation	SNP	G	G	A	rs142495138	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	107.0	217.0	0.0	0.514423	0	G|1.000;A|0.000	0.000	strong	.	KIF20A	53	.	NM_005733	exon12	c.G1450A	p.V484M	GTCAATGTGAATC	.	PASS	Atlas-SNP
OR8U1	219417	hgsc.bcm.edu	37	11	56143952	56143952	+	Silent	SNP	T	T	C	rs78408319	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	60.0	114.0	0.0	0.48	0	T|0.973;C|0.027	0.027	strong	.	OR8U1	59	.	NM_001005204	exon1	c.T853C	p.L285L	CCCATGTTGAATC	.	PASS	Atlas-SNP
OR7C1	26664	hgsc.bcm.edu	37	19	14910900	14910900	+	Missense_Mutation	SNP	A	A	T	rs149561973	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	31.0	68.0	0.0	0.508197	0	A|0.994;T|0.006	0.006	strong	.	OR7C1	58	.	NM_198944	exon1	c.T49A	p.F17I	CTGAAAATCCCAG	.	PASS	Atlas-SNP
ZMYM6	9204	hgsc.bcm.edu	37	1	35454115	35454115	+	Silent	SNP	A	A	G	rs61745582	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	112.0	245.0	0.0	0.489083	0	A|0.962;G|0.038	0.038	strong	.	ZMYM6	110	.	NM_007167	exon16	c.T2568C	p.Y856Y	TACTAAATATGGT	.	PASS	Atlas-SNP
CCDC107	203260	hgsc.bcm.edu	37	9	35661057	35661057	+	Missense_Mutation	SNP	C	C	G	rs10441685	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	52.0	119.0	0.0	0.448276	0	C|0.929;G|0.071	0.071	strong	.	CCDC107	12	.	NM_174923	exon5	c.C725G	p.S242C	CTACTTCCTGGGA	.	PASS	Atlas-SNP
SQSTM1	8878	hgsc.bcm.edu	37	5	179260661	179260661	+	Silent	SNP	G	G	A	rs10058037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	36.0	82.0	0.0	0.439024	0	G|0.960;A|0.040	0.040	strong	SQSTM1,NS,carcinoma,+1,1	SQSTM1	30	1	NM_003900	exon7	c.G1044A	p.P348P	GGACCCGTCTACA	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	37	9	35714269	35714269	+	Silent	SNP	G	G	A	rs35844106	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	45.0	98.0	0.0	0.517241	0	G|0.995;A|0.005	0.005	strong	.	TLN1	185	.	NM_006289	exon24	c.C3087T	p.T1029T	CAGCGCGGTGCCC	.	PASS	Atlas-SNP
ARID4B	51742	hgsc.bcm.edu	37	1	235357460	235357460	+	Silent	SNP	A	A	G	rs62000435	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	191.0	100.0	181.0	0.0	0.52356	0	A|0.992;G|0.008	0.008	strong	.	ARID4B	142	.	NM_016374	exon19	c.T1993C	p.L665L	TGGACAAGCGCCG	.	PASS	Atlas-SNP
ATP6V0A4	50617	hgsc.bcm.edu	37	7	138417642	138417642	+	Missense_Mutation	SNP	C	C	T	rs73730479	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	38.0	108.0	0.0	0.422222	0	C|0.963;T|0.037	0.037	strong	.	ATP6V0A4	93	.	NM_130841	exon16	c.G1888A	p.A630T	GGGGTGCGTTGGA	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90424458	90424458	+	Silent	SNP	C	C	T	rs114422841	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	35.0	71.0	0.0	0.546875	0	C|0.996;T|0.004	0.004	strong	.	MDN1	478	.	NM_014611	exon46	c.G6873A	p.S2291S	ATCCATCGAGAGG	.	PASS	Atlas-SNP
FCRL5	83416	hgsc.bcm.edu	37	1	157514685	157514685	+	Silent	SNP	G	G	A	rs11803066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	103.0	155.0	0.0	0.542105	0	G|0.982;A|0.018	0.018	strong	.	FCRL5	177	.	NM_031281	exon4	c.C495T	p.R165R	AGTACAGCGATAT	.	PASS	Atlas-SNP
AFF2	2334	hgsc.bcm.edu	37	X	148035200	148035200	+	Silent	SNP	G	G	A	rs12011040	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	415.0	140.0	352.0	0.0	0.337349	0	0|0.003;A|0.180	0.180	strong	.	AFF2	679	.	NM_002025	exon10	c.G1488A	p.S496S	TGAGTCGGATTCA	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124821705	124821705	+	Silent	SNP	G	G	A	rs3741512	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	269.0	131.0	252.0	0.0	0.486989	0	G|0.966;A|0.034	0.034	strong	.	NCOR2	475	.	NM_006312	exon40	c.C5709T	p.P1903P	GCGAACGGGTGAG	.	PASS	Atlas-SNP
SLC22A25	387601	hgsc.bcm.edu	37	11	62931547	62931547	+	Splice_Site	SNP	T	T	C	rs114205803	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	230.0	91.0	230.0	0.0	0.395652	0	T|0.996;C|0.004	0.004	strong	.	SLC22A25	87	.	NM_199352	exon10	c.1395-2A>G	.	TTCCCCTTGGAGT	.	PASS	Atlas-SNP
GRM3	2913	hgsc.bcm.edu	37	7	86479694	86479694	+	Silent	SNP	G	G	A	rs76035289	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	82.0	162.0	0.0	0.525641	0	G|0.985;A|0.015	0.015	strong	.	GRM3	237	.	NM_000840	exon5	c.G2400A	p.T800T	GCAGACGACAACC	.	PASS	Atlas-SNP
CD1E	913	hgsc.bcm.edu	37	1	158325765	158325765	+	Silent	SNP	C	C	T	rs61734677	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	313.0	162.0	296.0	0.0	0.517572	0	C|0.978;T|0.022	0.022	strong	.	CD1E	129	.	NM_001042584	exon4	c.C774T	p.D258D	AGGGGACGTCCTG	.	PASS	Atlas-SNP
BCL2A1	597	hgsc.bcm.edu	37	15	80263111	80263111	+	Missense_Mutation	SNP	C	C	A	rs34080999	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	224.0	105.0	244.0	0.0	0.46875	0	C|0.968;A|0.032	0.032	strong	.	BCL2A1	28	.	NM_001114735	exon1	c.G351T	p.E117D	TGAAATCTCCTTA	.	PASS	Atlas-SNP
STARD13	90627	hgsc.bcm.edu	37	13	33704346	33704346	+	Silent	SNP	C	C	T	rs114088950	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	18.0	33.0	0.0	0.418605	0	C|0.986;T|0.014	0.014	strong	.	STARD13	100	.	NM_178006	exon5	c.G468A	p.V156V	GTCGTCCACACGA	.	PASS	Atlas-SNP
TRMT5	57570	hgsc.bcm.edu	37	14	61445981	61445981	+	Missense_Mutation	SNP	C	C	T	rs114005374	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	61.0	119.0	0.0	0.472868	0	C|0.999;T|0.001	0.001	strong	TRMT5,caecum,carcinoma,0,1	TRMT5	44	1	NM_020810	exon2	c.G635A	p.R212Q	TGATCTCGAAGGT	.	PASS	Atlas-SNP
CENPJ	55835	hgsc.bcm.edu	37	13	25480616	25480616	+	Silent	SNP	T	T	A	rs17081368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	60.0	88.0	0.0	0.508475	0	T|0.950;A|0.050	0.050	strong	.	CENPJ	116	.	NM_018451	exon7	c.A1560T	p.T520T	ACCTTGTGTCTTA	.	PASS	Atlas-SNP
S100A3	6274	hgsc.bcm.edu	37	1	153520954	153520954	+	Missense_Mutation	SNP	C	C	T	rs36022742	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	22.0	45.0	0.0	0.458333	0	C|0.861;T|0.139	0.139	strong	.	S100A3	7	.	NM_002960	exon2	c.G8A	p.R3K	AGAGGCCTGGCCA	.	PASS	Atlas-SNP
C2CD5	9847	hgsc.bcm.edu	37	12	22680809	22680809	+	Silent	SNP	T	T	C	rs12322490	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	93.0	119.0	0.0	0.688889	0	T|0.950;C|0.050	0.050	strong	.	.	.	.	NM_014802	exon4	c.A195G	p.L65L	ATCTTGTAAGTCT	.	PASS	Atlas-SNP
CEP85	64793	hgsc.bcm.edu	37	1	26581981	26581981	+	Silent	SNP	G	G	A	rs34867486	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	58.0	110.0	0.0	0.508772	0	G|0.979;A|0.021	0.021	strong	CEP85,NS,carcinoma,+2,1	CEP85	61	1	NM_022778	exon4	c.G528A	p.A176A	AGAGGCGAGGAAG	.	PASS	Atlas-SNP
HECTD2	143279	hgsc.bcm.edu	37	10	93260363	93260363	+	Silent	SNP	C	C	T	rs34553731	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	29.0	50.0	0.0	0.47541	0	C|0.985;T|0.015	0.015	strong	.	HECTD2	60	.	NM_182765	exon19	c.C2055T	p.D685D	AACGGACTTAACT	.	PASS	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	37	11	101829070	101829070	+	Silent	SNP	C	C	T	rs61742070	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	32.0	68.0	0.0	0.477612	0	C|0.989;T|0.011	0.011	strong	.	KIAA1377	111	.	NM_020802	exon5	c.C678T	p.L226L	ACTCCTCGAAGAT	.	PASS	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	37	19	39234674	39234674	+	Silent	SNP	G	G	A	rs111831826	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	69.0	0.0	0.468354	0	G|0.998;A|0.002	0.002	strong	.	CAPN12	43	.	NM_144691	exon1	c.C132T	p.I44I	GAACAGGATCCCC	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	69104701	69104701	+	Silent	SNP	G	G	A	rs116570374	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	51.0	65.0	0.0	0.504951	0	G|0.993;A|0.007	0.007	strong	.	PREX2	614	.	NM_024870	exon37	c.G4545A	p.S1515S	TTCCTCGGAGCTG	.	PASS	Atlas-SNP
HTR4	3360	hgsc.bcm.edu	37	5	147845463	147845463	+	Missense_Mutation	SNP	G	G	A	rs73266449	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	255.0	118.0	257.0	0.0	0.462745	0	G|0.967;A|0.033	0.033	strong	.	HTR4	161	.	NM_199453	exon6	c.C1102T	p.L368F	GCAGGAGGAAGCT	.	PASS	Atlas-SNP
FCRL1	115350	hgsc.bcm.edu	37	1	157771979	157771979	+	Silent	SNP	C	C	T	rs12035302	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	65.0	134.0	0.0	0.477941	0	C|0.978;T|0.022	0.022	strong	.	FCRL1	164	.	NM_001159397	exon5	c.G612A	p.P204P	AGACACCGGGACT	.	PASS	Atlas-SNP
PDHX	8050	hgsc.bcm.edu	37	11	34969150	34969150	+	Silent	SNP	C	C	T	rs34582941	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	33.0	36.0	0.0	0.471429	0	C|0.951;T|0.049	0.049	strong	.	PDHX	40	.	NM_003477	exon3	c.C339T	p.I113I	CAAAATCGTGGTA	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2969689	2969689	+	Missense_Mutation	SNP	T	T	G	rs41515445	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	62.0	111.0	0.0	0.504065	0	T|0.972;G|0.028	0.028	strong	.	CARD11	339	.	NM_032415	exon12	c.A1590C	p.E530D	CGTGCCTTCTTCC	.	PASS	Atlas-SNP
HK2	3099	hgsc.bcm.edu	37	2	75107671	75107671	+	Silent	SNP	C	C	T	rs28363033	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	62.0	129.0	0.0	0.380368	0	C|0.988;T|0.012	0.012	strong	.	HK2	85	.	NM_000189	exon10	c.C1545T	p.Y515Y	CACCTACGTGTGT	.	PASS	Atlas-SNP
ZNF592	9640	hgsc.bcm.edu	37	15	85326315	85326315	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	29.0	80.0	0.0	0.467742	0	.	.	none	.	ZNF592	95	.	NM_014630	exon4	c.A409C	p.T137P	TTACCCACCTTCA	.	PASS	Atlas-SNP
ABHD11	83451	hgsc.bcm.edu	37	7	73151643	73151643	+	Missense_Mutation	SNP	C	C	T	rs61745525	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	63.0	59.0	0.0	1	0	C|0.963;T|0.037	0.037	strong	.	ABHD11	11	.	NM_148912	exon4	c.G541A	p.V181M	CTGCCACATAGGT	.	PASS	Atlas-SNP
ZNF420	147923	hgsc.bcm.edu	37	19	37618157	37618157	+	Silent	SNP	T	T	C	rs78427535	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	72.0	141.0	0.0	0.486486	0	T|0.984;C|0.016	0.016	strong	.	ZNF420	71	.	NM_144689	exon5	c.T264C	p.D88D	CAGGGATTATTTG	.	PASS	Atlas-SNP
BDNF	627	hgsc.bcm.edu	37	11	27679976	27679976	+	Missense_Mutation	SNP	C	C	T	rs146354977	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	61.0	139.0	0.0	0.465649	0	C|0.999;T|0.001	0.001	strong	.	BDNF	63	.	NM_001143810	exon3	c.G382A	p.V128M	CATTCACGCTCTC	.	PASS	Atlas-SNP
SLC9A3	6550	hgsc.bcm.edu	37	5	491906	491906	+	Silent	SNP	G	G	A	rs6870920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	43.0	81.0	0.0	0.518072	0	G|0.958;A|0.042	0.042	strong	SLC9A3,head_neck,malignant_melanoma,-1,1	SLC9A3	89	1	NM_004174	exon2	c.C492T	p.G164G	GAAGACGCCGTAG	.	PASS	Atlas-SNP
PITPNM1	9600	hgsc.bcm.edu	37	11	67267636	67267636	+	Silent	SNP	G	G	A	rs59249357	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	13.0	15.0	0.0	0.448276	0	A|0.006;C|0.005;G|0.988	0.006	strong	.	PITPNM1	84	.	NM_001130848	exon6	c.C897T	p.A299A	GGGGGAGGCATCT	.	PASS	Atlas-SNP
HS3ST2	9956	hgsc.bcm.edu	37	16	22826321	22826321	+	Silent	SNP	G	G	A	rs111703383	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	94.0	106.0	0.0	1	0	G|0.949;A|0.051	0.051	strong	.	HS3ST2	59	.	NM_006043	exon1	c.G390A	p.V130V	GGCCGTGCTGGAG	.	PASS	Atlas-SNP
IGFALS	3483	hgsc.bcm.edu	37	16	1840777	1840777	+	Missense_Mutation	SNP	G	G	A	rs9282731	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	61.0	103.0	0.0	0.559633	0	G|0.909;A|0.091	0.091	strong	.	IGFALS	29	.	NM_001146006	exon2	c.C1756T	p.R586W	AGTCCCGCAGCGC	.	PASS	Atlas-SNP
SCAMP5	192683	hgsc.bcm.edu	37	15	75305058	75305058	+	Silent	SNP	G	G	T	rs60910940	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	167.0	164.0	1.0	1	0.00609756	G|0.966;T|0.034	0.034	strong	.	SCAMP5	34	.	NM_001178111	exon4	c.G48T	p.P16P	CATCCCGCTGAAG	.	PASS	Atlas-SNP
SFXN3	81855	hgsc.bcm.edu	37	10	102795819	102795819	+	Missense_Mutation	SNP	A	A	T	rs35361377	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	67.0	113.0	0.0	0.577586	0	A|0.986;T|0.014	0.014	strong	.	SFXN3	19	.	NM_030971	exon5	c.A404T	p.N135I	TTGTTAACTACTC	.	PASS	Atlas-SNP
ANKRD24	170961	hgsc.bcm.edu	37	19	4216931	4216931	+	Missense_Mutation	SNP	A	A	G	rs61741405	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	16.0	46.0	0.0	0.571429	0	A|0.987;G|0.013	0.013	strong	.	ANKRD24	180	.	NM_133475	exon18	c.A1774G	p.T592A	GAGGCCACAGGAG	.	PASS	Atlas-SNP
COPA	1314	hgsc.bcm.edu	37	1	160302298	160302298	+	Missense_Mutation	SNP	T	T	C	rs57425682	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	29.0	52.0	0.0	0.58	0	T|0.956;C|0.044	0.044	strong	.	COPA	181	.	NM_001098398	exon6	c.A436G	p.T146A	CTTCTGTGGGGTG	.	PASS	Atlas-SNP
ELMOD1	55531	hgsc.bcm.edu	37	11	107501428	107501428	+	Missense_Mutation	SNP	A	A	T	rs201717101	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	58.0	122.0	0.0	0.381579	0	.	.	weak	.	ELMOD1	40	.	NM_018712	exon4	c.A166T	p.T56S	ACAGAAACATCAC	.	PASS	Atlas-SNP
DCC	1630	hgsc.bcm.edu	37	18	50705370	50705370	+	Missense_Mutation	SNP	A	A	T	rs116498325	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	78.0	107.0	0.0	0.47561	0	A|0.996;T|0.004	0.004	strong	.	DCC	360	.	NM_005215	exon9	c.A1457T	p.Q486L	CCCTTCAGCTCAC	.	PASS	Atlas-SNP
ETAA1	54465	hgsc.bcm.edu	37	2	67624739	67624739	+	Silent	SNP	C	C	A	rs182131786	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	23.0	12.0	0.0	0.69697	0	C|0.999;A|0.001	0.001	strong	ETAA1,colon,carcinoma,+2,1	ETAA1	88	1	NM_019002	exon1	c.C159A	p.P53P	GCCTCCCGGGCCA	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150946444	150946444	+	Silent	SNP	G	G	A	rs142348925	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	98.0	132.0	0.0	0.445455	0	G|0.999;A|0.001	0.001	strong	.	FAT2	465	.	NM_001447	exon1	c.C2049T	p.I683I	GTGGAGGATAGTC	.	PASS	Atlas-SNP
COX7B	1349	hgsc.bcm.edu	37	X	77158147	77158147	+	Missense_Mutation	SNP	C	C	A	rs61752458	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	42.0	78.0	0.0	0.482759	0	C|0.991;A|0.009	0.009	strong	.	COX7B	8	.	NM_001866	exon2	c.C48A	p.S16R	TCGAAGCATTCAG	.	PASS	Atlas-SNP
ITPRIPL2	162073	hgsc.bcm.edu	37	16	19126492	19126492	+	Missense_Mutation	SNP	T	T	A	rs8051801	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	36.0	86.0	0.0	0.423529	0	T|0.989;A|0.011	0.011	strong	.	ITPRIPL2	40	.	NM_001034841	exon1	c.T709A	p.C237S	GCCTTCTGCGTGG	.	PASS	Atlas-SNP
NOL8	55035	hgsc.bcm.edu	37	9	95077498	95077498	+	Missense_Mutation	SNP	C	C	T	rs58545014	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	118.0	178.0	0.0	0.732919	0	C|0.972;T|0.028	0.028	strong	.	NOL8	118	.	NM_017948	exon7	c.G1409A	p.G470E	TCACCTCCTTCAG	.	PASS	Atlas-SNP
RPGR	6103	hgsc.bcm.edu	37	X	38145715	38145715	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	8.0	113.0	0.0	0.0695652	0	.	.	none	.	RPGR	175	.	NM_001034853	exon15	c.A2537G	p.E846G	TCCCCTTCCTCCT	.	PASS	Atlas-SNP
BAIAP3	8938	hgsc.bcm.edu	37	16	1391362	1391362	+	Silent	SNP	A	A	G	rs75271587	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	24.0	74.0	0.0	0.45283	0	A|0.988;G|0.012	0.012	strong	.	BAIAP3	88	.	NM_003933	exon8	c.A708G	p.A236A	CCGTGCACAGAAG	.	PASS	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55956183	55956183	+	Silent	SNP	G	G	T	rs145298133	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	28.0	68.0	0.0	0.35	0	G|0.999;T|0.001	0.001	strong	.	KDR	307	.	NM_002253	exon23	c.C3132A	p.I1044I	GTCACAGATTTTA	.	PASS	Atlas-SNP
GH2	2689	hgsc.bcm.edu	37	17	61957610	61957610	+	Missense_Mutation	SNP	G	G	T	rs58696130	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	71.0	82.0	0.0	0.537879	0	G|0.983;T|0.017	0.017	strong	.	GH2	73	.	NM_022558	exon5	c.C721A	p.P241T	CTGGTGGGCACTG	.	PASS	Atlas-SNP
GPC3	2719	hgsc.bcm.edu	37	X	132670269	132670269	+	Silent	SNP	T	T	C	rs61754631	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	119.0	172.0	0.0	0.61658	0	T|0.927;C|0.073	0.073	strong	.	GPC3	88	.	NM_001164617	exon9	c.A1695G	p.A565A	CGGAGTTGCCTGC	.	PASS	Atlas-SNP
DPY19L2	283417	hgsc.bcm.edu	37	12	64057543	64057543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	344.0	21.0	317.0	0.0	0.0610465	0	.	.	none	DPY19L2,caecum,carcinoma,0,1	DPY19L2	97	1	NM_173812	exon3	c.G445A	p.E149K	CCATTTCAGTGCG	.	scavenged	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17612064	17612064	+	Missense_Mutation	SNP	A	A	C	rs75253845	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	68.0	147.0	0.0	0.507463	0	A|0.978;C|0.022	0.022	strong	.	MTUS1	144	.	NM_001001924	exon2	c.T1253G	p.M418R	ATGACCATATCAT	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228461655	228461655	+	Silent	SNP	C	C	T	rs138055037	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	103.0	185.0	0.0	0.559783	0	C|0.996;T|0.004	0.004	strong	.	OBSCN	2142	.	NM_001271223	exon22	c.C6447T	p.H2149H	CACCCACACCCTG	.	PASS	Atlas-SNP
SBF1	6305	hgsc.bcm.edu	37	22	50899103	50899103	+	Silent	SNP	G	G	A	rs77064034	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	43.0	96.0	0.0	0.447917	0	G|0.990;A|0.010	0.010	strong	.	SBF1	211	.	NM_002972	exon24	c.C3006T	p.D1002D	GGCGCTGTCAGAC	.	PASS	Atlas-SNP
CETP	1071	hgsc.bcm.edu	37	16	57003846	57003846	+	Missense_Mutation	SNP	C	C	T	rs34716057	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	72.0	136.0	0.0	0.517986	0	C|0.992;T|0.008	0.008	strong	.	CETP	50	.	NM_000078	exon5	c.C460T	p.R154W	AGAGTGCGGACCG	.	PASS	Atlas-SNP
NLRP6	171389	hgsc.bcm.edu	37	11	285256	285256	+	Silent	SNP	G	G	A	rs144727560	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	36.0	70.0	0.0	0.461538	0	G|0.995;A|0.005	0.005	strong	.	NLRP6	4	.	NM_138329	exon8	c.G2631A	p.A877A	CCCAGCGCTGGAC	.	PASS	Atlas-SNP
PDLIM5	10611	hgsc.bcm.edu	37	4	95539204	95539204	+	Missense_Mutation	SNP	C	C	T	rs141653509	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	64.0	83.0	0.0	0.556522	0	C|0.999;T|0.001	0.001	strong	PDLIM5,NS,carcinoma,-1,1	PDLIM5	76	1	NM_001256426	exon12	c.C1057T	p.R353W	TCCACACGGAGCA	.	PASS	Atlas-SNP
CPA3	1359	hgsc.bcm.edu	37	3	148601596	148601596	+	Silent	SNP	G	G	A	rs140411214	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	67.0	136.0	0.0	0.468531	0	G|0.995;A|0.005	0.005	strong	.	CPA3	75	.	NM_001870	exon9	c.G975A	p.E325E	CCATGAGGACTTG	.	PASS	Atlas-SNP
MYO19	80179	hgsc.bcm.edu	37	17	34858985	34858985	+	Missense_Mutation	SNP	A	A	G	rs61743158	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	65.0	149.0	0.0	0.422078	0	A|0.995;G|0.005	0.005	strong	.	MYO19	130	.	NM_001163735	exon22	c.T2032C	p.C678R	ATGTGCAAGGATG	.	PASS	Atlas-SNP
TPM4	7171	hgsc.bcm.edu	37	19	16186865	16186865	+	Silent	SNP	G	G	A	rs114042568	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	67.0	108.0	0.0	0.489051	0	G|0.989;A|0.011	0.011	strong	.	TPM4	28	.	NM_001145160	exon2	c.G123A	p.E41E	GGAGGAGGAGCTG	.	PASS	Atlas-SNP
FCGRT	2217	hgsc.bcm.edu	37	19	50017191	50017191	+	Silent	SNP	G	G	T	rs11551281	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	88.0	170.0	0.0	0.54321	0	G|0.984;T|0.016	0.016	strong	.	FCGRT	23	.	NM_001136019	exon3	c.G126T	p.P42P	TGCCCCGGGGACT	.	PASS	Atlas-SNP
MYO5B	4645	hgsc.bcm.edu	37	18	47462657	47462657	+	Silent	SNP	G	G	A	rs1627232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	63.0	145.0	0.0	0.440559	0	G|0.961;A|0.039	0.039	strong	.	MYO5B	178	.	NM_001080467	exon16	c.C1968T	p.R656R	GATGCAGCGGACA	.	PASS	Atlas-SNP
HLA-DMA	3108	hgsc.bcm.edu	37	6	32917126	32917126	+	Missense_Mutation	SNP	C	C	T	rs9469319	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	50.0	87.0	0.0	0.5	0	C|0.997;T|0.003	0.003	strong	.	HLA-DMA	20	.	NM_006120	exon4	c.G703A	p.V235M	AGGCCACGCCACA	.	PASS	Atlas-SNP
HTR3A	3359	hgsc.bcm.edu	37	11	113857661	113857661	+	Missense_Mutation	SNP	G	G	A	rs35815285	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	69.0	119.0	1.0	0.579832	0.00840336	G|0.965;A|0.035	0.035	strong	HTR3A,NS,carcinoma,+1,1	HTR3A	93	1	NM_213621	exon7	c.G1145A	p.R382H	GGCTGCGTCACCT	.	scavenged	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	37	14	94173098	94173098	+	Missense_Mutation	SNP	G	G	A	rs76642035	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	48.0	104.0	0.0	0.5	0	G|0.996;A|0.004	0.004	strong	.	UNC79	366	.	NM_020818	exon50	c.G7225A	p.V2409M	AACCACGTGAACC	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16860558	16860558	+	Missense_Mutation	SNP	G	G	A	rs61733271	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	63.0	61.0	0.0	1	0	G|0.927;A|0.073	0.073	strong	.	NWD1	303	.	NM_001007525	exon6	c.G1105A	p.V369I	GTGACCGTCCTGC	.	PASS	Atlas-SNP
IGDCC4	57722	hgsc.bcm.edu	37	15	65681648	65681648	+	Missense_Mutation	SNP	A	A	G	rs144676391	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	18.0	79.0	0.0	0.36	0	A|0.995;G|0.005	0.005	strong	.	IGDCC4	95	.	NM_020962	exon14	c.T2510C	p.V837A	TCCACCACAGAGC	.	PASS	Atlas-SNP
DNASE1	1773	hgsc.bcm.edu	37	16	3707262	3707262	+	Silent	SNP	G	G	A	rs8176920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	115.0	120.0	0.0	1	0	G|0.970;A|0.030	0.030	strong	.	DNASE1	16	.	NM_005223	exon7	c.G624A	p.L208L	CCGCCTGTGGACA	.	PASS	Atlas-SNP
TFDP3	51270	hgsc.bcm.edu	37	X	132352230	132352230	+	Missense_Mutation	SNP	C	C	G	rs28455963	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	116.0	186.0	0.0	0.682353	0	C|0.877;G|0.123	0.123	strong	.	TFDP3	92	.	NM_016521	exon1	c.G58C	p.E20Q	GGTTCTCGTCCAT	.	PASS	Atlas-SNP
C6orf52	347744	hgsc.bcm.edu	37	6	10687325	10687325	+	Silent	SNP	C	C	T	rs144052767	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	53.0	121.0	1.0	0.456897	0.00826446	C|0.990;T|0.010	0.010	strong	C6orf52,caecum,carcinoma,0,1	C6orf52	9	1	NM_001145020	exon3	c.G144A	p.A48A	CTGTCGCGCATAC	.	scavenged	Atlas-SNP
HDAC7	51564	hgsc.bcm.edu	37	12	48185449	48185449	+	Missense_Mutation	SNP	G	G	A	rs73291234	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	79.0	178.0	0.0	0.459302	0	G|0.989;A|0.011	0.011	strong	.	HDAC7	71	.	NM_015401	exon15	c.C1853T	p.S618L	TGGACCGACTGCA	.	PASS	Atlas-SNP
SKIV2L	6499	hgsc.bcm.edu	37	6	31928039	31928039	+	Silent	SNP	C	C	G	rs11541400	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	53.0	113.0	0.0	0.456897	0	C|0.993;G|0.007	0.007	strong	.	SKIV2L	97	.	NM_006929	exon4	c.C279G	p.V93V	GGCTGTCCTGGGA	.	PASS	Atlas-SNP
RPL37	6167	hgsc.bcm.edu	37	5	40834595	40834595	+	Silent	SNP	G	G	A	rs6495	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	44.0	62.0	0.0	0.44	0	G|0.996;A|0.004	0.004	strong	.	RPL37	7	.	NM_000997	exon2	c.C117T	p.Y39Y	GGCAGGGTAGCCA	.	PASS	Atlas-SNP
NKD2	85409	hgsc.bcm.edu	37	5	1036482	1036482	+	Missense_Mutation	SNP	C	C	A	rs35679233	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	44.0	72.0	0.0	0.52381	0	C|0.994;A|0.006	0.006	strong	.	NKD2	39	.	NM_001271082	exon9	c.C770A	p.T257K	ACTACACGTCCAG	.	PASS	Atlas-SNP
TRPM2	7226	hgsc.bcm.edu	37	21	45799018	45799018	+	Missense_Mutation	SNP	G	G	A	rs45485992	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	38.0	75.0	0.0	0.487179	0	G|0.994;A|0.006	0.006	strong	.	TRPM2	196	.	NM_003307	exon8	c.G1153A	p.V385M	CTGAGCGTGTTCT	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18022385	18022385	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	48.0	53.0	0.0	0.571429	0	.	.	none	.	MYO15A	268	.	NM_016239	exon2	c.C271A	p.R91S	CAGATGCGCATGG	.	PASS	Atlas-SNP
STAG1	10274	hgsc.bcm.edu	37	3	136062724	136062724	+	Missense_Mutation	SNP	C	C	G	rs34149860	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	87.0	136.0	0.0	0.54375	0	C|0.914;G|0.086	0.086	strong	.	STAG1	135	.	NM_005862	exon30	c.G3396C	p.Q1132H	TTGAATCTGGTCT	.	PASS	Atlas-SNP
RXFP3	51289	hgsc.bcm.edu	37	5	33937215	33937215	+	Silent	SNP	C	C	T	rs78710898	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	76.0	111.0	0.0	0.546763	0	C|0.989;T|0.011	0.011	strong	.	RXFP3	114	.	NM_016568	exon1	c.C370T	p.L124L	ACCAACCTGGCGC	.	PASS	Atlas-SNP
MED24	9862	hgsc.bcm.edu	37	17	38189659	38189659	+	Missense_Mutation	SNP	C	C	T	rs34585432	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	47.0	93.0	0.0	0.465347	0	C|0.993;T|0.007	0.007	strong	.	MED24	89	.	NM_014815	exon7	c.G610A	p.A204T	GATTGGCCAGGAT	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	131864657	131864657	+	Silent	SNP	G	G	A	rs374317794		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	26.0	49.0	0.0	0.464286	0	.	.	weak	.	PLXNA4	873	.	NM_020911	exon20	c.C3663T	p.Y1221Y	CGGGGAGTACTCC	.	PASS	Atlas-SNP
KRTAP9-9	81870	hgsc.bcm.edu	37	17	39411711	39411711	+	Missense_Mutation	SNP	C	C	G	rs150962386	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	43.0	39.0	0.0	0.505882	0	C|0.962;G|0.038	0.038	strong	.	KRTAP9-9	24	.	NM_030975	exon1	c.C74G	p.T25S	CTGTGACCACCTG	.	PASS	Atlas-SNP
RHNO1	83695	hgsc.bcm.edu	37	12	2994562	2994562	+	Silent	SNP	T	T	C	rs371402573		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	94.0	178.0	0.0	0.580247	0	.	.	weak	.	.	.	.	NM_001257098	exon2	c.T30C	p.P10P	CCAGCCTTCCCAG	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92534968	92534968	+	Missense_Mutation	SNP	G	G	A	rs370539148		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	49.0	98.0	0.0	0.544444	0	.	.	weak	.	FAT3	1822	.	NM_001008781	exon9	c.G8789A	p.R2930Q	TGTACCGAGGGAA	.	PASS	Atlas-SNP
TACC1	6867	hgsc.bcm.edu	37	8	38677242	38677242	+	Silent	SNP	G	G	A	rs16887780	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	230.0	117.0	225.0	1.0	0.508696	0.00444444	G|0.991;A|0.009	0.009	strong	.	TACC1	98	.	NM_006283	exon3	c.G480A	p.T160T	TTCCACGGATATC	.	PASS	Atlas-SNP
RERE	473	hgsc.bcm.edu	37	1	8420966	8420966	+	Silent	SNP	G	G	A	rs77608355	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	11.0	9.0	10.0	0.0	0.818182	0	G|0.972;A|0.028	0.028	strong	.	RERE	129	.	NM_012102	exon19	c.C2601T	p.G867G	TGGGGGGCCTGGG	.	PASS	Atlas-SNP
THRAP3	9967	hgsc.bcm.edu	37	1	36752687	36752687	+	Missense_Mutation	SNP	A	A	G	rs58840555	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	49.0	115.0	0.0	0.404959	0	A|0.946;G|0.054	0.054	strong	.	THRAP3	93	.	NM_005119	exon4	c.A856G	p.T286A	GGCTCAACTCTGC	.	PASS	Atlas-SNP
ACOX1	51	hgsc.bcm.edu	37	17	73944496	73944496	+	Missense_Mutation	SNP	G	G	A	rs35629489	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	12.0	58.0	0.0	0.307692	0	G|0.989;A|0.011	0.011	strong	ACOX1_ENST00000301608,caecum,carcinoma,0,2	ACOX1	85	2	NM_007292	exon13	c.C1771T	p.R591C	TTACACGCTGGTT	.	PASS	Atlas-SNP
BIN1	274	hgsc.bcm.edu	37	2	127827598	127827598	+	Silent	SNP	C	C	T	rs61748158	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	32.0	67.0	0.0	0.5	0	C|0.998;T|0.002	0.002	strong	.	BIN1	85	.	NM_139346	exon5	c.G384A	p.T128T	CAGGTACGTGTCC	.	PASS	Atlas-SNP
TGIF1	7050	hgsc.bcm.edu	37	18	3452262	3452262	+	Silent	SNP	C	C	T	rs8098291	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	22.0	14.0	16.0	0.0	0.636364	0	C|0.953;T|0.047	0.047	strong	.	TGIF1	41	.	NM_170695	exon1	c.C285T	p.S95S	CCTCTCCCCGGAG	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88800122	88800122	+	Silent	SNP	C	C	G	rs9928479	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	21.0	54.0	0.0	0.328125	0	C|0.955;G|0.045	0.045	strong	.	PIEZO1	79	.	NM_001142864	exon18	c.G2361C	p.R787R	CAGCAGCCGCTCA	.	PASS	Atlas-SNP
LGI3	203190	hgsc.bcm.edu	37	8	22009053	22009053	+	Silent	SNP	G	G	A	rs35142808	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	55.0	96.0	0.0	0.486726	0	G|0.968;A|0.032	0.032	strong	.	LGI3	44	.	NM_139278	exon7	c.C778T	p.L260L	ACTTCAGGATGGT	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155407595	155407595	+	Missense_Mutation	SNP	C	C	A	rs140554741	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	36.0	113.0	0.0	0.371134	0	C|0.989;A|0.011	0.011	strong	DCHS2_ENST00000443500,NS,carcinoma,0,1	DCHS2	594	1	NM_001142553	exon2	c.G2130T	p.X710Y	GGAAATCTAGGCA	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121016424	121016424	+	Missense_Mutation	SNP	A	A	G	rs200852252	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	71.0	189.0	0.0	0.473333	0	A|1.000;G|0.000	0.000	strong	.	TECTA	329	.	NM_005422	exon11	c.A3704G	p.N1235S	TGCAGAACAGCAC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124401172	124401172	+	Missense_Mutation	SNP	G	G	A	rs61740383	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	52.0	83.0	0.0	0.530612	0	G|0.957;A|0.043	0.043	strong	.	DNAH10	888	.	NM_207437	exon62	c.G10537A	p.D3513N	CTGGGAGACAAGG	.	PASS	Atlas-SNP
DNPEP	23549	hgsc.bcm.edu	37	2	220250769	220250769	+	Missense_Mutation	SNP	T	T	C	rs6742404	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	111.0	182.0	0.0	0.528571	0	T|0.962;C|0.038	0.038	strong	.	DNPEP	40	.	NM_012100	exon6	c.A511G	p.I171V	GAAGAATGGGCCG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152275559	152275559	+	Missense_Mutation	SNP	A	A	G	rs3126065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	178.0	177.0	1.0	1	0.00564972	A|0.871;G|0.129	0.129	strong	.	FLG	900	.	NM_002016	exon3	c.T11803C	p.S3935P	CTTGTGAAAGACT	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24256389	24256389	+	Silent	SNP	A	A	T	rs7001097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	51.0	80.0	0.0	0.451327	0	A|0.977;T|0.023	0.023	strong	.	ADAMDEC1	69	.	NM_014479	exon9	c.A765T	p.I255I	ACAGATATATAAC	.	PASS	Atlas-SNP
DLG5	9231	hgsc.bcm.edu	37	10	79556305	79556305	+	Missense_Mutation	SNP	C	C	T	rs74140334	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	96.0	241.0	0.0	0.457143	0	C|0.988;T|0.012	0.012	strong	.	DLG5	154	.	NM_004747	exon28	c.G5212A	p.A1738T	TCAGAGCGGTGCA	.	PASS	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	37	11	94320300	94320300	+	Silent	SNP	C	C	T	rs145516372	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	47.0	119.0	0.0	0.379032	0	C|0.992;T|0.008	0.008	strong	.	PIWIL4	70	.	NM_152431	exon7	c.C801T	p.V267V	CAAAGTCCTCCGG	.	PASS	Atlas-SNP
BPIFA3	128861	hgsc.bcm.edu	37	20	31812949	31812949	+	Silent	SNP	C	C	T	rs147632261	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	84.0	136.0	0.0	0.518519	0	C|0.995;T|0.005	0.005	strong	.	.	.	.	NM_178466	exon4	c.C432T	p.I144I	GAGCATCGTTGTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511486	195511486	+	Missense_Mutation	SNP	G	G	T	rs202186297		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	26.0	113.0	0.0	0.230089	0	G|0.996;T|0.005	0.005	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C6965A	p.P2322H	GTGACAGGAAGAG	.	scavenged	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55889918	55889918	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	231.0	18.0	196.0	0.0	0.0779221	0	.	.	none	.	OR8H3	92	.	NM_001005201	exon1	c.G70A	p.V24I	GAAGAGGTCCAGA	.	PASS	Atlas-SNP
PRR5-ARHGAP8	553158	hgsc.bcm.edu	37	22	45221404	45221404	+	Missense_Mutation	SNP	C	C	T	rs74393756	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	83.0	150.0	0.0	0.448649	0	C|0.978;T|0.022	0.022	strong	.	PRR5-ARHGAP8	53	.	NM_181334	exon10	c.C893T	p.P298L	GGACGCCGCCTCC	.	PASS	Atlas-SNP
SIMC1	375484	hgsc.bcm.edu	37	5	175722243	175722243	+	Missense_Mutation	SNP	A	A	G	rs7736723	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	323.0	134.0	321.0	0.0	0.414861	0	A|1.000;|0.000	.	weak	.	.	.	.	NM_198567	exon2	c.A340G	p.M114V	GCCTACATGCTTC	.	PASS	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	37	9	137630361	137630361	+	Silent	SNP	G	G	A	rs61729545	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	100.0	128.0	0.0	0.625	0	G|0.937;A|0.063	0.063	strong	COL5A1,NS,carcinoma,+1,1	COL5A1	323	1	NM_000093	exon10	c.G1431A	p.A477A	CCCCGCGGTGAGT	.	PASS	Atlas-SNP
ATP2B3	492	hgsc.bcm.edu	37	X	152830495	152830495	+	Silent	SNP	T	T	C	rs5986910	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	64.0	185.0	0.0	0.329897	0	T|0.920;C|0.080	0.080	strong	.	ATP2B3	552	.	NM_001001344	exon19	c.T3276C	p.H1092H	CGACCATGCCGAG	.	PASS	Atlas-SNP
KRTAP4-9	100132386	hgsc.bcm.edu	37	17	39262121	39262121	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	17.0	129.0	0.0	0.112583	0	.	.	none	KRTAP4-9_ENST00000377734,NS,carcinoma,0,2	KRTAP4-9	110	2	NM_001146041	exon1	c.C481T	p.R161C	TGCTGCCGCCCCT	.	scavenged	Atlas-SNP
PTPRJ	5795	hgsc.bcm.edu	37	11	48166642	48166642	+	Silent	SNP	C	C	T	rs34300475	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	100.0	206.0	0.0	0.50505	0	C|0.944;T|0.056	0.056	strong	.	PTPRJ	225	.	NM_002843	exon14	c.C2877T	p.R959R	CAGTCGCTACTCA	.	PASS	Atlas-SNP
ZNF570	148268	hgsc.bcm.edu	37	19	37975400	37975400	+	Silent	SNP	T	T	C	rs78317808	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	36.0	68.0	0.0	0.590164	0	T|0.983;C|0.017	0.017	strong	.	ZNF570	58	.	NM_144694	exon5	c.T876C	p.H292H	TCAACATCTGCGA	.	PASS	Atlas-SNP
MOAP1	64112	hgsc.bcm.edu	37	14	93649552	93649552	+	Silent	SNP	A	A	G	rs114256363	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	48.0	118.0	0.0	0.432432	0	A|0.982;G|0.018	0.018	strong	.	MOAP1	32	.	NM_022151	exon3	c.T1036C	p.L346L	CTTCCAATATTGC	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38383386	38383386	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	248.0	133.0	225.0	0.0	0.53629	0	.	.	none	WDR87,colon,carcinoma,0,1	WDR87	191	1	NM_031951	exon4	c.G2840A	p.R947H	CCTAGACGCTTCA	.	PASS	Atlas-SNP
ZDHHC23	254887	hgsc.bcm.edu	37	3	113673098	113673098	+	Missense_Mutation	SNP	C	C	T	rs149202494	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	84.0	151.0	0.0	0.5	0	C|1.000;T|0.000	0.000	strong	.	ZDHHC23	38	.	NM_173570	exon3	c.C713T	p.T238I	GCACAACAAAGGA	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057949	46057949	+	Silent	SNP	C	C	T	rs78352751	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	471.0	121.0	297.0	0.0	0.2569	0	C|0.982;T|0.018	0.018	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.C615T	p.P205P	CGTGCCCGTCCCC	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11133642	11133642	+	Silent	SNP	G	G	A	rs61740101	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	46.0	89.0	0.0	0.494624	0	G|0.989;A|0.011	0.011	strong	.	CLEC16A	101	.	NM_015226	exon13	c.G1569A	p.Q523Q	AATCCAGCTCCCC	.	PASS	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	37	17	16001756	16001756	+	Silent	SNP	G	G	A	rs79413281	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	51.0	130.0	0.0	0.428571	0	G|0.981;A|0.019	0.019	strong	.	NCOR1	240	.	NM_001190440	exon20	c.C2793T	p.L931L	TGAGACGAGTATA	.	PASS	Atlas-SNP
RICTOR	253260	hgsc.bcm.edu	37	5	38950761	38950761	+	Silent	SNP	A	A	G	rs150422546	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	111.0	207.0	0.0	0.528571	0	A|0.999;G|0.001	0.001	strong	.	RICTOR	182	.	NM_152756	exon31	c.T3189C	p.D1063D	ATTGATATCAAGG	.	PASS	Atlas-SNP
ERI1	90459	hgsc.bcm.edu	37	8	8869129	8869129	+	Missense_Mutation	SNP	T	T	G	rs112570397	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	45.0	51.0	0.0	0.6	0	T|0.991;G|0.009	0.009	strong	.	ERI1	20	.	NM_153332	exon3	c.T365G	p.F122C	GCAATTTTGCTGA	.	PASS	Atlas-SNP
TCTE1	202500	hgsc.bcm.edu	37	6	44249939	44249939	+	Silent	SNP	G	G	A	rs34405945	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	98.0	135.0	0.0	0.535519	0	G|0.988;A|0.012	0.012	strong	.	TCTE1	77	.	NM_182539	exon4	c.C1204T	p.L402L	CAGACAGCTCATT	.	PASS	Atlas-SNP
BOC	91653	hgsc.bcm.edu	37	3	112993412	112993412	+	Silent	SNP	C	C	T	rs7615578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	104.0	169.0	0.0	0.483721	0	C|0.985;T|0.015	0.015	strong	.	BOC	139	.	NM_033254	exon9	c.C1425T	p.P475P	GGCTCCCATCATC	.	PASS	Atlas-SNP
LRP12	29967	hgsc.bcm.edu	37	8	105503401	105503401	+	Missense_Mutation	SNP	T	T	C	rs16871494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	93.0	170.0	0.0	0.492063	0	T|0.957;C|0.043	0.043	strong	.	LRP12	124	.	NM_013437	exon7	c.A2080G	p.S694G	AGGAACTTGCACA	.	PASS	Atlas-SNP
ITGA2B	3674	hgsc.bcm.edu	37	17	42455126	42455126	+	Silent	SNP	C	C	T	rs114232872	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	36.0	69.0	0.0	0.521739	0	C|0.995;T|0.005	0.005	strong	.	ITGA2B	88	.	NM_000419	exon21	c.G2127A	p.K709K	ATTCTCCTTCTTC	.	PASS	Atlas-SNP
EVA1C	59271	hgsc.bcm.edu	37	21	33867447	33867447	+	Missense_Mutation	SNP	G	G	A	rs61744983	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	88.0	145.0	0.0	0.553459	0	G|0.997;A|0.003	0.003	strong	.	.	.	.	NM_058187	exon5	c.G745A	p.V249M	CCAGGCGTGAAAA	.	PASS	Atlas-SNP
MAK	4117	hgsc.bcm.edu	37	6	10792040	10792040	+	Missense_Mutation	SNP	C	C	A	rs62000445	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	73.0	133.0	0.0	0.486667	0	C|0.991;A|0.009	0.009	strong	MAK,NS,carcinoma,-1,1	MAK	47	1	NM_005906	exon10	c.G1184T	p.R395L	CCCCAACGCCTCC	.	PASS	Atlas-SNP
HLA-DOA	3111	hgsc.bcm.edu	37	6	32975896	32975896	+	Silent	SNP	A	A	G	rs364950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	39.0	78.0	0.0	0.443182	0	A|0.906;G|0.094	0.094	strong	.	HLA-DOA	22	.	NM_002119	exon2	c.T225C	p.G75G	AAAGTCACCAAAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511447	195511447	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	7.0	214.0	0.0	0.0588235	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C7004T	p.T2335M	AGAGGCGTGGTGT	.	scavenged	Atlas-SNP
CTTN	2017	hgsc.bcm.edu	37	11	70279759	70279759	+	Missense_Mutation	SNP	G	G	A	rs56162978	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	64.0	121.0	0.0	0.463768	0	G|0.941;A|0.059	0.059	strong	.	CTTN	162	.	NM_005231	exon17	c.G1451A	p.S484N	AGGACAGCACCTA	.	PASS	Atlas-SNP
CCDC173	129881	hgsc.bcm.edu	37	2	170502509	170502509	+	Missense_Mutation	SNP	G	G	A	rs112720712	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	49.0	122.0	0.0	0.449541	0	G|0.990;A|0.010	0.010	strong	.	.	.	.	NM_001085447	exon9	c.C1501T	p.P501S	CTCCAGGTCCTTC	.	PASS	Atlas-SNP
MARK3	4140	hgsc.bcm.edu	37	14	103941392	103941392	+	Missense_Mutation	SNP	A	A	G	rs56305318	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	48.0	86.0	0.0	0.564706	0	A|0.958;G|0.042	0.042	strong	.	MARK3	86	.	NM_001128919	exon13	c.A1327G	p.S443G	GCAGATAGTGACC	.	PASS	Atlas-SNP
STARD13	90627	hgsc.bcm.edu	37	13	33741716	33741716	+	Silent	SNP	C	C	T	rs17078661	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	33.0	63.0	0.0	0.478261	0	C|0.960;T|0.040	0.040	strong	STARD13,NS,carcinoma,-1,1	STARD13	100	1	NM_178006	exon2	c.G213A	p.G71G	CGGGAACCCGGCA	.	PASS	Atlas-SNP
ZNF506	440515	hgsc.bcm.edu	37	19	19906131	19906131	+	Missense_Mutation	SNP	T	T	G	rs16996376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	22.0	66.0	0.0	0.44	0	T|0.935;G|0.065	0.065	strong	.	ZNF506	36	.	NM_001099269	exon4	c.A565C	p.T189P	ATGTAGTACGGGT	.	PASS	Atlas-SNP
WNT8B	7479	hgsc.bcm.edu	37	10	102242030	102242030	+	Silent	SNP	G	G	A	rs9420786	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	12.0	17.0	0.0	0.413793	0	G|0.978;A|0.022	0.022	strong	.	WNT8B	31	.	NM_003393	exon6	c.G513A	p.A171A	CCAGGCGGTGAAG	.	PASS	Atlas-SNP
CDC6	990	hgsc.bcm.edu	37	17	38447569	38447569	+	Silent	SNP	T	T	C	rs1130199	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	139.0	154.0	1.0	0.992857	0.00649351	T|0.886;C|0.114	0.114	strong	.	CDC6	53	.	NM_001254	exon3	c.T438C	p.C146C	TGCATGTGTGAGA	.	PASS	Atlas-SNP
DNAJB9	4189	hgsc.bcm.edu	37	7	108213545	108213545	+	Silent	SNP	T	T	C	rs376971670		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	83.0	172.0	0.0	0.471591	0	.	.	weak	DNAJB9,NS,carcinoma,+1,1	DNAJB9	25	1	NM_012328	exon3	c.T420C	p.H140H	AAATCATTTCCAG	.	PASS	Atlas-SNP
SELE	6401	hgsc.bcm.edu	37	1	169697218	169697218	+	Silent	SNP	G	G	A	rs5365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	27.0	67.0	0.0	0.45	0	G|0.982;A|0.018	0.018	strong	.	SELE	84	.	NM_000450	exon8	c.C1260T	p.N420N	CTTCTCGTTGTCC	.	PASS	Atlas-SNP
TMEM14B	81853	hgsc.bcm.edu	37	6	10751379	10751379	+	Silent	SNP	C	C	T	rs1046427	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	59.0	110.0	0.0	0.483607	0	C|0.979;T|0.021	0.021	strong	.	TMEM14B	19	.	NM_030969	exon4	c.C114T	p.S38S	GCCGTCCCTGGCT	.	PASS	Atlas-SNP
ANKRD33	341405	hgsc.bcm.edu	37	12	52282865	52282865	+	Silent	SNP	C	C	T	rs35851809	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	42.0	135.0	0.0	0.451613	0	C|0.998;T|0.002	0.002	strong	.	ANKRD33	33	.	NM_182608	exon3	c.C411T	p.V137V	CATGGTCGCATGC	.	PASS	Atlas-SNP
MS4A7	58475	hgsc.bcm.edu	37	11	60161273	60161273	+	Missense_Mutation	SNP	C	C	T	rs372900689		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	41.0	75.0	0.0	0.585714	0	.	.	weak	.	MS4A7	38	.	NM_021201	exon7	c.C662T	p.S221L	TTTCCTCGACCCA	.	PASS	Atlas-SNP
HSPB3	8988	hgsc.bcm.edu	37	5	53751818	53751818	+	Missense_Mutation	SNP	G	G	A	rs35258119	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	144.0	139.0	0.0	0.986301	0	G|0.992;A|0.008	0.008	strong	.	HSPB3	17	.	NM_006308	exon1	c.G199A	p.G67S	CGAGAAGGCAAAT	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27804690	27804690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	13.0	171.0	0.0	0.0822785	0	.	.	none	.	C2orf16	357	.	NM_032266	exon1	c.C5251T	p.H1751Y	AGACATCACAGTC	.	PASS	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	37	13	76195833	76195833	+	Missense_Mutation	SNP	A	A	G	rs143470231	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	13.0	33.0	0.0	0.464286	0	A|0.987;G|0.013	0.013	strong	LMO7_ENST00000357063,colon,carcinoma,-2,2	LMO7	334	2	NM_005358	exon1	c.A4G	p.K2E	GCTATGAAGAAAA	.	PASS	Atlas-SNP
OR51I2	390064	hgsc.bcm.edu	37	11	5474894	5474894	+	Missense_Mutation	SNP	T	T	C	rs74049540	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	64.0	125.0	0.0	0.474074	0	T|0.937;C|0.063	0.063	strong	.	OR51I2	76	.	NM_001004754	exon1	c.T176C	p.M59T	AGCCCATGTACTA	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470794	10470794	+	Missense_Mutation	SNP	G	G	C	rs77833234	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	9.0	33.0	0.0	0.428571	0	G|0.993;C|0.007	0.007	strong	.	RP1L1	453	.	NM_178857	exon4	c.C814G	p.P272A	GCCGTGGCGTGCT	.	PASS	Atlas-SNP
SHROOM4	57477	hgsc.bcm.edu	37	X	50350751	50350751	+	Missense_Mutation	SNP	G	G	C	rs201290098		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	6.0	111.0	0.0	0.0857143	0	.	.	weak	.	SHROOM4	171	.	NM_020717	exon6	c.C3391G	p.Q1131E	CCTCCTGTTGCTT	.	PASS	Atlas-SNP
EMR3	84658	hgsc.bcm.edu	37	19	14740942	14740942	+	Missense_Mutation	SNP	G	G	A	rs78700925	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	56.0	126.0	0.0	0.478632	0	G|0.984;A|0.016	0.016	strong	.	EMR3	99	.	NM_032571	exon14	c.C1721T	p.P574L	GCAGCTGGACCCA	.	PASS	Atlas-SNP
TBC1D9B	23061	hgsc.bcm.edu	37	5	179297352	179297352	+	Silent	SNP	A	A	G	rs384668	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	56.0	119.0	0.0	0.466667	0	A|0.890;G|0.110	0.110	strong	.	TBC1D9B	157	.	NM_198868	exon16	c.T2628C	p.C876C	GGAGCCACAGGCC	.	PASS	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	37	2	54895682	54895682	+	Silent	SNP	C	C	T	rs2229505	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	43.0	94.0	0.0	0.443299	0	C|0.962;T|0.038	0.038	strong	.	SPTBN1	378	.	NM_003128	exon36	c.C7071T	p.F2357F	GCGGTTCAGCCTT	.	PASS	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44019305	44019305	+	Silent	SNP	C	C	T	rs6684279	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	41.0	89.0	0.0	0.506173	0	C|0.964;T|0.036	0.036	strong	.	PTPRF	172	.	NM_002840	exon4	c.C234T	p.F78F	GCGCTTCGAGGTG	.	PASS	Atlas-SNP
GPR55	9290	hgsc.bcm.edu	37	2	231775371	231775371	+	Missense_Mutation	SNP	C	C	T	rs80290067	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	20.0	43.0	0.0	0.425532	0	C|0.971;T|0.029	0.029	strong	.	GPR55	46	.	NM_005683	exon2	c.G307A	p.V103I	TGCTGACGAAGTA	.	PASS	Atlas-SNP
KIAA0556	23247	hgsc.bcm.edu	37	16	27709812	27709812	+	Silent	SNP	C	C	T	rs61740294	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	18.0	29.0	0.0	0.428571	0	C|0.978;T|0.022	0.022	strong	.	KIAA0556	348	.	NM_015202	exon9	c.C1104T	p.S368S	AGCCAGCCCACTG	.	PASS	Atlas-SNP
CDC42BPB	9578	hgsc.bcm.edu	37	14	103434985	103434985	+	Silent	SNP	G	G	A	rs55659700	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	47.0	106.0	0.0	0.479592	0	G|0.992;A|0.008	0.008	strong	.	CDC42BPB	123	.	NM_006035	exon15	c.C2064T	p.S688S	CAGCTCGGATTTG	.	PASS	Atlas-SNP
SEMG1	6406	hgsc.bcm.edu	37	20	43837053	43837053	+	Missense_Mutation	SNP	G	G	T	rs2233887	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	85.0	151.0	0.0	0.512048	0	G|0.984;T|0.016	0.016	strong	SEMG1,bladder,carcinoma,+1,3	SEMG1	71	3	NM_003007	exon2	c.G1115T	p.R372L	CCCAACGCAGTAT	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1268528	1268528	+	Missense_Mutation	SNP	C	C	T	rs202008769	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	657.0	250.0	462.0	0.0	0.380518	0	.	.	weak	MUC5B,colon,carcinoma,0,4	MUC5B	473	4	NM_002458	exon31	c.C10418T	p.S3473L	GGACTTCGGCCAC	.	PASS	Atlas-SNP
FOXRED2	80020	hgsc.bcm.edu	37	22	36902259	36902259	+	Missense_Mutation	SNP	G	G	A	rs56767103	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	49.0	93.0	0.0	0.526882	0	G|0.974;A|0.026	0.026	strong	.	FOXRED2	48	.	NM_001102371	exon2	c.C211T	p.R71C	GGTAGCGTGTGAA	.	PASS	Atlas-SNP
CSTA	1475	hgsc.bcm.edu	37	3	122060390	122060390	+	Missense_Mutation	SNP	G	G	T	rs34021626	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	48.0	83.0	0.0	0.55814	0	G|0.984;T|0.016	0.016	strong	.	CSTA	11	.	NM_005213	exon3	c.G273T	p.K91N	AAACAAGGATGAC	.	PASS	Atlas-SNP
NXPE1	120400	hgsc.bcm.edu	37	11	114393757	114393757	+	Missense_Mutation	SNP	C	C	T	rs79538449	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	99.0	145.0	0.0	0.596386	0	C|0.997;T|0.003	0.003	strong	.	NXPE1	8	.	NM_152315	exon5	c.G526A	p.G176S	TATAACCACCAGG	.	PASS	Atlas-SNP
EVX2	344191	hgsc.bcm.edu	37	2	176948445	176948445	+	Silent	SNP	C	C	G	rs61731351	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	54.0	72.0	0.0	0.519231	0	C|0.930;G|0.070	0.070	strong	EVX2,NS,carcinoma,0,1	EVX2	51	1	NM_001080458	exon1	c.G60C	p.T20T	GCCCGCCGTAGGG	.	PASS	Atlas-SNP
GAD1	2571	hgsc.bcm.edu	37	2	171715387	171715387	+	Missense_Mutation	SNP	G	G	A	rs769402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	61.0	111.0	0.0	0.516949	0	G|0.935;A|0.065	0.065	strong	.	GAD1	79	.	NM_000817	exon16	c.G1595A	p.R532Q	AACGACGGGAAAA	.	PASS	Atlas-SNP
IL18BP	10068	hgsc.bcm.edu	37	11	71711438	71711438	+	Missense_Mutation	SNP	G	G	A	rs376290357		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	44.0	91.0	0.0	0.517647	0	.	.	weak	.	IL18BP	15	.	NM_001145057	exon3	c.G70A	p.V24I	CACGTCGTCACTC	.	PASS	Atlas-SNP
PTPRT	11122	hgsc.bcm.edu	37	20	41408886	41408886	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	20.0	52.0	1.0	0.307692	0.0192308	.	.	none	PTPRT,NS,carcinoma,0,2	PTPRT	372	2	NM_007050	exon4	c.C540T	p.D180D	GACCTCGTCCACG	.	scavenged	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26620761	26620761	+	Missense_Mutation	SNP	T	T	C	rs6695966	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	36.0	97.0	0.0	0.467532	0	T|0.974;C|0.026	0.026	strong	.	UBXN11	54	.	NM_183008	exon9	c.A494G	p.E165G	TTGCTCTCTGAGT	.	PASS	Atlas-SNP
ITIH5	80760	hgsc.bcm.edu	37	10	7628027	7628027	+	Silent	SNP	C	C	T	rs11255206	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	41.0	77.0	0.0	0.427083	0	C|0.983;T|0.017	0.017	strong	.	ITIH5	343	.	NM_001001851	exon8	c.G945A	p.K315K	GGCATCCTTGGTC	.	PASS	Atlas-SNP
RBPJL	11317	hgsc.bcm.edu	37	20	43945487	43945487	+	Missense_Mutation	SNP	T	T	C	rs34078698	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	24.0	66.0	0.0	0.421053	0	T|0.986;C|0.014	0.014	strong	RBPJL,colon,carcinoma,+1,1	RBPJL	67	1	NM_014276	exon12	c.T1442C	p.V481A	ACAGCGTGCGGCC	.	PASS	Atlas-SNP
WIPF3	644150	hgsc.bcm.edu	37	7	29924002	29924002	+	Missense_Mutation	SNP	C	C	A	rs371924598		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	69.0	117.0	0.0	0.492857	0	.	.	weak	.	WIPF3	46	.	NM_001080529	exon5	c.C892A	p.P298T	CTCCCCCCTTATG	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16899852	16899852	+	Missense_Mutation	SNP	G	G	T	rs140602425		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	55.0	113.0	0.0	0.436508	0	G|1.000;T|0.000	0.000	weak	.	NWD1	303	.	NM_001007525	exon13	c.G2791T	p.D931Y	TCAAAGGATTACA	.	PASS	Atlas-SNP
FUS	2521	hgsc.bcm.edu	37	16	31193948	31193948	+	Silent	SNP	C	C	T	rs61733962	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	94.0	193.0	0.0	0.513661	0	C|0.965;T|0.035	0.035	strong	.	FUS	52	.	NM_001170634	exon3	c.C153T	p.G51G	CTATGGCCAGAGC	.	PASS	Atlas-SNP
C22orf23	84645	hgsc.bcm.edu	37	22	38341124	38341124	+	Missense_Mutation	SNP	T	T	G	rs35562630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	368.0	163.0	348.0	0.0	0.442935	0	T|0.946;G|0.054	0.054	strong	.	C22orf23	21	.	NM_032561	exon5	c.A406C	p.M136L	CCTCCATGTCCTT	.	PASS	Atlas-SNP
NTRK1	4914	hgsc.bcm.edu	37	1	156838432	156838432	+	Missense_Mutation	SNP	C	C	T	rs55909005	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	53.0	93.0	0.0	0.514563	0	C|0.987;T|0.013	0.013	strong	.	NTRK1	287	.	NM_001012331	exon6	c.C710T	p.T237M	CAGCCACGGTGAT	.	PASS	Atlas-SNP
SCGB1D1	10648	hgsc.bcm.edu	37	11	61959636	61959636	+	Missense_Mutation	SNP	C	C	T	rs116188604	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	88.0	151.0	0.0	0.533333	0	C|0.982;T|0.018	0.018	strong	SCGB1D1,NS,carcinoma,0,1	SCGB1D1	18	1	NM_006552	exon2	c.C164T	p.A55V	TGGAAGCTGTTGC	.	PASS	Atlas-SNP
ILDR1	286676	hgsc.bcm.edu	37	3	121712098	121712098	+	Missense_Mutation	SNP	G	G	A	rs34284625	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	81.0	152.0	0.0	0.468208	0	G|0.956;A|0.044	0.044	strong	.	ILDR1	120	.	NM_001199799	exon7	c.C1498T	p.H500Y	GGGAGTGCGAGCC	.	PASS	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	37	12	25672880	25672880	+	Missense_Mutation	SNP	T	T	C	rs34732786	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	51.0	160.0	0.0	0.421488	0	T|0.980;C|0.020	0.020	strong	.	IFLTD1	121	.	NM_001145728	exon7	c.A928G	p.T310A	TAGCTGTAGATGC	.	PASS	Atlas-SNP
CCDC40	55036	hgsc.bcm.edu	37	17	78014024	78014024	+	Silent	SNP	G	G	A	rs2885349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	32.0	56.0	0.0	0.5	0	G|0.968;A|0.032	0.032	strong	CCDC40_ENST00000374877,rectum,carcinoma,+1,2	CCDC40	198	2	NM_017950	exon3	c.G507A	p.S169S	CCCGTCGGAGCAA	.	PASS	Atlas-SNP
FMNL2	114793	hgsc.bcm.edu	37	2	153475556	153475556	+	Missense_Mutation	SNP	T	T	C	rs11897929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	93.0	181.0	0.0	0.540698	0	T|0.920;C|0.080	0.080	strong	.	FMNL2	75	.	NM_052905	exon14	c.T1511C	p.M504T	TGTCCATGGGGTC	.	PASS	Atlas-SNP
FARP2	9855	hgsc.bcm.edu	37	2	242352768	242352768	+	Missense_Mutation	SNP	A	A	C	rs16843643	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	32.0	50.0	0.0	0.551724	0	A|0.960;C|0.040	0.040	strong	.	FARP2	92	.	NM_014808	exon7	c.A555C	p.K185N	CCTCAAAGTGAAC	.	PASS	Atlas-SNP
ZNF385C	201181	hgsc.bcm.edu	37	17	40183707	40183707	+	Silent	SNP	G	G	C	rs75049227	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	358.0	172.0	352.0	0.0	0.480447	0	G|0.994;C|0.006	0.006	strong	.	ZNF385C	7	.	NM_001242704	exon4	c.C369G	p.A123A	ATCCTGGGCCTGG	.	PASS	Atlas-SNP
NECAB2	54550	hgsc.bcm.edu	37	16	84027966	84027966	+	Missense_Mutation	SNP	C	C	T	rs79514285	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	50.0	100.0	0.0	0.50505	0	C|0.996;T|0.004	0.004	strong	.	NECAB2	36	.	NM_019065	exon7	c.C656T	p.P219L	CCACTCCCGCCTC	.	PASS	Atlas-SNP
MMP20	9313	hgsc.bcm.edu	37	11	102487643	102487643	+	Missense_Mutation	SNP	T	T	C	rs61730848	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	91.0	222.0	0.0	0.408072	0	T|0.998;C|0.002	0.002	strong	.	MMP20	52	.	NM_004771	exon2	c.A274G	p.M92V	CGTTCATTGTGGT	.	PASS	Atlas-SNP
PPP1R12C	54776	hgsc.bcm.edu	37	19	55623871	55623871	+	Missense_Mutation	SNP	T	T	G	rs116840455	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	38.0	122.0	0.0	0.408602	0	T|0.990;G|0.010	0.010	strong	.	PPP1R12C	46	.	NM_017607	exon3	c.A535C	p.M179L	CCTCCATGGCGTC	.	PASS	Atlas-SNP
SLITRK4	139065	hgsc.bcm.edu	37	X	142717383	142717383	+	Silent	SNP	A	A	G	rs73577386	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	168.0	199.0	1.0	1	0.00502513	A|0.836;G|0.164	0.164	strong	.	SLITRK4	162	.	NM_001184750	exon2	c.T1542C	p.S514S	GACCCCACTGACA	.	PASS	Atlas-SNP
GPR68	8111	hgsc.bcm.edu	37	14	91700319	91700319	+	Missense_Mutation	SNP	A	A	G	rs151219229	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	11.0	46.0	0.0	0.261905	0	A|0.995;G|0.005	0.005	strong	.	GPR68	32	.	NM_001177676	exon2	c.T1076C	p.F359S	GTGGGGAACCCGC	.	PASS	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	37	8	52320786	52320786	+	Missense_Mutation	SNP	G	G	A	rs74731075	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	40.0	68.0	0.0	0.493827	0	G|0.973;A|0.027	0.027	strong	.	PXDNL	414	.	NM_144651	exon17	c.C3398T	p.A1133V	ACGGCCGCAGAAT	.	PASS	Atlas-SNP
MAPK7	5598	hgsc.bcm.edu	37	17	19285392	19285392	+	Silent	SNP	G	G	A	rs2233079	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	114.0	144.0	0.0	0.57	0	G|0.959;A|0.041	0.041	strong	.	MAPK7	72	.	NM_002749	exon5	c.G1776A	p.A592A	CCCAGCGCCAACG	.	PASS	Atlas-SNP
OR8J3	81168	hgsc.bcm.edu	37	11	55904422	55904422	+	Missense_Mutation	SNP	A	A	G	rs114758947	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	236.0	127.0	183.0	0.0	0.538136	0	A|0.983;G|0.017	0.017	strong	.	OR8J3	112	.	NM_001004064	exon1	c.T773C	p.M258T	AAATACATAAATA	.	PASS	Atlas-SNP
GPR124	25960	hgsc.bcm.edu	37	8	37690615	37690615	+	Silent	SNP	G	G	A	rs61738775	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	17.0	15.0	14.0	0.0	0.882353	0	G|0.934;A|0.066	0.066	strong	.	GPR124	85	.	NM_032777	exon9	c.G1185A	p.P395P	TGCCCCGGGCACC	.	PASS	Atlas-SNP
USP50	373509	hgsc.bcm.edu	37	15	50836846	50836846	+	Silent	SNP	G	G	C	rs114737323	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	43.0	53.0	0.0	0.5	0	G|0.957;C|0.043	0.043	strong	.	USP50	24	.	NM_203494	exon2	c.C186G	p.L62L	GCTGCAGAGACAC	.	PASS	Atlas-SNP
PPFIBP1	8496	hgsc.bcm.edu	37	12	27829369	27829369	+	Silent	SNP	T	T	C	rs35150305	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	71.0	93.0	0.0	0.546154	0	T|0.978;C|0.022	0.022	strong	.	PPFIBP1	153	.	NM_177444	exon18	c.T1470C	p.A490A	CAGAGCTCCGGCA	.	PASS	Atlas-SNP
KIAA0895L	653319	hgsc.bcm.edu	37	16	67210855	67210855	+	Missense_Mutation	SNP	G	G	C	rs61733789	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	49.0	99.0	0.0	0.521277	0	G|0.923;C|0.077	0.077	strong	.	KIAA0895L	32	.	NM_001040715	exon7	c.C1275G	p.H425Q	CCGCAGGTGGTCC	.	PASS	Atlas-SNP
BANK1	55024	hgsc.bcm.edu	37	4	102965016	102965016	+	Missense_Mutation	SNP	A	A	G	rs140337324	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	26.0	56.0	0.0	0.433333	0	A|0.999;G|0.001	0.001	strong	.	BANK1	95	.	NM_017935	exon11	c.A1921G	p.R641G	ACAGCCAGAAGAC	.	PASS	Atlas-SNP
NIM1	0	hgsc.bcm.edu	37	5	43277283	43277283	+	Silent	SNP	G	G	A	rs61734291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	58.0	79.0	0.0	0.517857	0	G|0.965;A|0.035	0.035	strong	.	.	.	.	NM_153361	exon3	c.G417A	p.V139V	CGAAGTGGTGGAG	.	PASS	Atlas-SNP
PSRC1	84722	hgsc.bcm.edu	37	1	109824361	109824361	+	Silent	SNP	A	A	C	rs11800211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	83.0	126.0	0.0	0.568493	0	A|0.938;C|0.062	0.062	strong	.	PSRC1	12	.	NM_001032291	exon4	c.T399G	p.S133S	CGTCAAAGAGTTC	.	PASS	Atlas-SNP
KLHL26	55295	hgsc.bcm.edu	37	19	18778879	18778879	+	Silent	SNP	C	C	T	rs79044993	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	32.0	41.0	0.0	0.450704	0	C|0.988;T|0.012	0.012	strong	.	KLHL26	43	.	NM_018316	exon3	c.C672T	p.I224I	CGAGATCGACCTG	.	PASS	Atlas-SNP
ALPPL2	251	hgsc.bcm.edu	37	2	233271852	233271852	+	Silent	SNP	C	C	T	rs61730280	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	54.0	93.0	0.0	0.465517	0	C|0.990;T|0.010	0.010	strong	.	ALPPL2	36	.	NM_031313	exon2	c.C153T	p.A51A	GACAGCCGCCAAG	.	PASS	Atlas-SNP
ZNF175	7728	hgsc.bcm.edu	37	19	52090671	52090671	+	Missense_Mutation	SNP	T	T	A	rs60097262	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	56.0	99.0	0.0	0.430769	0	T|0.983;A|0.017	0.017	strong	.	ZNF175	65	.	NM_007147	exon5	c.T1087A	p.Y363N	AAGCCCTATAAAT	.	PASS	Atlas-SNP
OR2B2	81697	hgsc.bcm.edu	37	6	27879093	27879093	+	Silent	SNP	G	G	A	rs73392698	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	31.0	59.0	0.0	0.563636	0	G|0.984;A|0.016	0.016	strong	.	OR2B2	54	.	NM_033057	exon1	c.C1005T	p.S335S	ACTTGCGGAGAAG	.	PASS	Atlas-SNP
PGLYRP2	114770	hgsc.bcm.edu	37	19	15580694	15580694	+	Missense_Mutation	SNP	G	G	A	rs61734899	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	24.0	71.0	0.0	0.393443	0	G|0.983;A|0.017	0.017	strong	.	PGLYRP2	116	.	NM_052890	exon4	c.C1390T	p.H464Y	CCCAGTGCCAGCC	.	PASS	Atlas-SNP
SLC4A11	83959	hgsc.bcm.edu	37	20	3209254	3209254	+	Silent	SNP	G	G	A	rs139086376	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	72.0	184.0	0.0	0.470588	0	G|0.994;A|0.006	0.006	strong	.	SLC4A11	188	.	NM_001174090	exon18	c.C2421T	p.P807P	GGGCTTGGGGATC	.	PASS	Atlas-SNP
PRMT10	90826	hgsc.bcm.edu	37	4	148575601	148575601	+	Missense_Mutation	SNP	T	T	C	rs17023638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	43.0	68.0	0.0	0.421569	0	T|0.963;C|0.037	0.037	strong	.	PRMT10	68	.	NM_138364	exon9	c.A1447G	p.S483G	TAAAACTTTTTGC	.	PASS	Atlas-SNP
CCDC14	64770	hgsc.bcm.edu	37	3	123633665	123633665	+	Silent	SNP	T	T	C	rs13319634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	82.0	167.0	0.0	0.416244	0	T|0.970;C|0.030	0.030	strong	.	CCDC14	97	.	NM_022757	exon12	c.A2700G	p.R900R	CTGGAGTCTAGCT	.	PASS	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15904914	15904914	+	Missense_Mutation	SNP	C	C	T	rs150835909	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	86.0	146.0	0.0	0.480447	0	C|0.990;T|0.010	0.010	strong	.	OR10H5	49	.	NM_001004466	exon1	c.C56T	p.A19V	TCTCTGCCTTCCC	.	PASS	Atlas-SNP
NOC2L	26155	hgsc.bcm.edu	37	1	889421	889421	+	Missense_Mutation	SNP	C	C	T	rs3828050	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	275.0	143.0	288.0	1.0	0.52	0.00347222	C|0.999;T|0.001	0.001	strong	NOC2L,NS,carcinoma,0,1	NOC2L	42	1	NM_015658	exon7	c.G740A	p.R247H	TCCACACGAAGCT	.	PASS	Atlas-SNP
AGBL4	84871	hgsc.bcm.edu	37	1	49005351	49005351	+	Missense_Mutation	SNP	C	C	T	rs60977321	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	57.0	109.0	0.0	0.44186	0	C|0.961;T|0.039	0.039	strong	.	AGBL4	54	.	NM_032785	exon12	c.G1327A	p.V443M	CAACCACGGGGTT	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37115116	37115116	+	Missense_Mutation	SNP	C	C	T	rs7702892	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	39.0	64.0	0.0	0.527027	0	C|0.970;T|0.030	0.030	strong	C5orf42_ENST00000425232,bladder,carcinoma,+1,2	C5orf42	422	2	NM_023073	exon50	c.G9184A	p.G3062R	TGGCTCCACCAGC	.	PASS	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	37	5	36985751	36985751	+	Silent	SNP	A	A	G	rs293756	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	101.0	169.0	0.0	0.545946	0	A|0.961;G|0.039	0.039	strong	.	NIPBL	513	.	NM_015384	exon10	c.A2469G	p.K823K	ACAAAAATCAGAT	.	PASS	Atlas-SNP
ATPBD4	89978	hgsc.bcm.edu	37	15	35830665	35830665	+	Missense_Mutation	SNP	C	C	T	rs34907758	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	49.0	117.0	0.0	0.475728	0	C|0.972;T|0.028	0.028	strong	.	ATPBD4	30	.	NM_001141972	exon3	c.G122A	p.G41E	TCAGACCCCACTG	.	PASS	Atlas-SNP
OR7D2	162998	hgsc.bcm.edu	37	19	9297196	9297196	+	Missense_Mutation	SNP	G	G	A	rs61739064	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	33.0	66.0	0.0	0.471429	0	G|0.983;A|0.017	0.017	strong	.	OR7D2	55	.	NM_175883	exon1	c.G739A	p.V247I	CTCTCCGTCGTTT	.	PASS	Atlas-SNP
UPP2	151531	hgsc.bcm.edu	37	2	158977928	158977928	+	Silent	SNP	A	A	C	rs10186677	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	303.0	185.0	382.0	0.0	0.610561	0	A|0.980;C|0.020	0.020	strong	.	UPP2	60	.	NM_001135098	exon7	c.A633C	p.A211A	GATTGCACCAGGG	.	PASS	Atlas-SNP
IGSF5	150084	hgsc.bcm.edu	37	21	41142958	41142958	+	Silent	SNP	C	C	T	rs61737685	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	30.0	47.0	0.0	0.566038	0	C|0.957;T|0.043	0.043	strong	.	IGSF5	62	.	NM_001080444	exon4	c.C534T	p.L178L	GGAGCTCGGTCTC	.	PASS	Atlas-SNP
INMT	11185	hgsc.bcm.edu	37	7	30795419	30795419	+	Silent	SNP	C	C	T	rs35221354	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	30.0	78.0	0.0	0.422535	0	C|0.947;T|0.053	0.053	strong	INMT,NS,carcinoma,+1,1	INMT	38	1	NM_006774	exon3	c.C744T	p.A248A	TGCTGCCAACAAT	.	PASS	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140237094	140237094	+	Silent	SNP	C	C	G	rs60872775	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	309.0	157.0	365.0	0.0	0.508091	0	C|0.989;G|0.011	0.011	strong	.	PCDHA10	358	.	NM_031859	exon1	c.C1461G	p.A487A	GAACGCCCTGGTG	.	PASS	Atlas-SNP
SYCP2	10388	hgsc.bcm.edu	37	20	58496438	58496438	+	Missense_Mutation	SNP	A	A	G	rs61730337	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	101.0	165.0	0.0	0.523316	0	A|0.979;G|0.021	0.021	strong	.	SYCP2	204	.	NM_014258	exon3	c.T95C	p.I32T	ATATCAATTTGCA	.	PASS	Atlas-SNP
UBTF	7343	hgsc.bcm.edu	37	17	42284951	42284951	+	Silent	SNP	A	A	G	rs113823176	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	118.0	177.0	0.0	0.529148	0	A|0.990;G|0.010	0.010	strong	.	UBTF	65	.	NM_014233	exon20	c.T2040C	p.D680D	TTCATCATCCTCC	.	PASS	Atlas-SNP
KIAA0146	23514	hgsc.bcm.edu	37	8	48511729	48511729	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	41.0	102.0	0.0	0.405941	0	.	.	none	.	KIAA0146	64	.	NM_001080394	exon10	c.C1515T	p.S505S	GGCCAGCTCAGGA	.	PASS	Atlas-SNP
ZSCAN25	221785	hgsc.bcm.edu	37	7	99226981	99226981	+	Missense_Mutation	SNP	C	C	G	rs10239632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	35.0	52.0	0.0	0.603448	0	C|0.966;G|0.034	0.034	strong	.	.	.	.	NM_145115	exon8	c.C973G	p.P325A	GGGCTTCCTCCTC	.	PASS	Atlas-SNP
BMX	660	hgsc.bcm.edu	37	X	15555339	15555339	+	Silent	SNP	G	G	A	rs376617024	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	217.0	100.0	177.0	0.0	0.460829	0	.	.	weak	.	BMX	73	.	NM_001721	exon14	c.G1305A	p.K435K	GGGCAAGTGGAAG	.	PASS	Atlas-SNP
GPR110	266977	hgsc.bcm.edu	37	6	46977894	46977894	+	Missense_Mutation	SNP	C	C	T	rs115292676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	100.0	180.0	0.0	0.561798	0	C|0.989;T|0.011	0.011	strong	GPR110,colon,carcinoma,-1,2	GPR110	102	2	NM_153840	exon11	c.G1277A	p.R426Q	AATTTCCGAGAAA	.	PASS	Atlas-SNP
SLC26A11	284129	hgsc.bcm.edu	37	17	78201686	78201686	+	Silent	SNP	C	C	T	rs61011315	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	23.0	39.0	0.0	0.511111	0	C|0.944;T|0.056	0.056	strong	.	SLC26A11	60	.	NM_173626	exon7	c.C663T	p.H221H	GGACCACGTGCCT	.	PASS	Atlas-SNP
RACGAP1	29127	hgsc.bcm.edu	37	12	50384542	50384542	+	Missense_Mutation	SNP	T	T	C	rs140590023	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	67.0	159.0	0.0	0.401198	0	T|0.998;C|0.002	0.002	strong	.	RACGAP1	36	.	NM_013277	exon18	c.A1748G	p.H583R	AGCTGATGTTCAG	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011406	46011406	+	Silent	SNP	G	G	T	rs374116165		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	258.0	46.0	362.0	0.0	0.178295	0	.	.	weak	.	KRTAP10-6	57	.	NM_198688	exon1	c.C960A	p.V320V	GGAGGGGACGGGC	.	PASS	Atlas-SNP
AKIRIN2	55122	hgsc.bcm.edu	37	6	88385579	88385579	+	Silent	SNP	G	G	A	rs63749091	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	61.0	107.0	0.0	0.458647	0	G|0.968;A|0.032	0.032	strong	.	AKIRIN2	13	.	NM_018064	exon4	c.C600T	p.S200S	CTTACAGCTAGCA	.	PASS	Atlas-SNP
TOX	9760	hgsc.bcm.edu	37	8	59727966	59727966	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	334.0	166.0	274.0	0.0	0.497006	0	.	.	none	.	TOX	83	.	NM_014729	exon7	c.G1323A	p.M441I	CTGCTGCATGGTG	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149489048	149489048	+	Missense_Mutation	SNP	C	C	T	rs893602	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	37.0	60.0	0.0	0.480519	0	C|0.979;T|0.021	0.021	strong	.	.	.	.	NM_198455	exon35	c.C5389T	p.R1797C	AGCACCCGCCAGA	.	PASS	Atlas-SNP
NRIP1	8204	hgsc.bcm.edu	37	21	16337448	16337448	+	Silent	SNP	C	C	A	rs28707654	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	43.0	48.0	0.0	0.551282	0	C|0.978;A|0.022	0.022	strong	.	NRIP1	103	.	NM_003489	exon4	c.G3066T	p.G1022G	TCTAGACCCTGCA	.	PASS	Atlas-SNP
PCNXL4	64430	hgsc.bcm.edu	37	14	60585282	60585282	+	Missense_Mutation	SNP	G	G	A	rs144345462	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	323.0	148.0	294.0	1.0	0.458204	0.00340136	G|0.991;A|0.009	0.009	strong	.	.	.	.	NM_022495	exon6	c.G1112A	p.R371Q	TTCCCCGACCTAT	.	PASS	Atlas-SNP
KCNK17	89822	hgsc.bcm.edu	37	6	39267315	39267315	+	Missense_Mutation	SNP	C	C	T	rs2758910	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	80.0	151.0	0.0	0.484848	0	C|0.989;T|0.011	0.011	strong	KCNK17,NS,carcinoma,-1,1	KCNK17	61	1	NM_031460	exon5	c.G887A	p.R296Q	GGCTCCCGGTCAG	.	PASS	Atlas-SNP
DNAH1	25981	hgsc.bcm.edu	37	3	52365223	52365223	+	Missense_Mutation	SNP	G	G	A	rs55931436	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	91.0	150.0	0.0	0.469072	0	G|0.984;A|0.016	0.016	strong	.	DNAH1	534	.	NM_015512	exon7	c.G931A	p.D311N	GACTACGACGAGG	.	PASS	Atlas-SNP
OGFOD1	55239	hgsc.bcm.edu	37	16	56496469	56496469	+	Missense_Mutation	SNP	G	G	A	rs147797412	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	27.0	95.0	0.0	0.482143	0	G|1.000;A|0.000	0.000	weak	.	OGFOD1	31	.	NM_018233	exon4	c.G371A	p.R124Q	ATTTCCGGTCCTG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1272246	1272246	+	Silent	SNP	G	G	A	rs115045504	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	520.0	253.0	551.0	2.0	0.486538	0.00362976	G|0.988;A|0.012	0.012	strong	MUC5B,colon,carcinoma,+1,2	MUC5B	473	2	NM_002458	exon31	c.G14136A	p.T4712T	CAGCACGGCCACC	.	PASS	Atlas-SNP
ZNF799	90576	hgsc.bcm.edu	37	19	12502155	12502155	+	Missense_Mutation	SNP	T	T	G	rs201335235		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	8.0	91.0	0.0	0.0720721	0	.	.	weak	.	ZNF799	111	.	NM_001080821	exon4	c.A1057C	p.K353Q	GACTTTTCAGTGA	.	PASS	Atlas-SNP
UQCC	55245	hgsc.bcm.edu	37	20	33971876	33971876	+	Missense_Mutation	SNP	T	T	C	rs114745625	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	218.0	104.0	217.0	0.0	0.477064	0	T|0.997;C|0.003	0.003	strong	.	UQCC	41	.	NM_018244	exon3	c.A190G	p.I64V	GCTGTATGTCTAT	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44157797	44157797	+	Silent	SNP	G	G	T	rs112463030	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	49.0	81.0	0.0	0.515789	0	G|0.994;T|0.006	0.006	strong	.	LOXHD1	367	.	NM_144612	exon14	c.C1843A	p.R615R	CATTCCGCATGGT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179430224	179430224	+	Missense_Mutation	SNP	G	G	T	rs79926414	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	90.0	199.0	1.0	0.596026	0.00502513	G|0.976;T|0.024	0.024	strong	.	TTN	18412	.	NM_001267550	exon326	c.C80635A	p.Q26879K	TAGGCTGTATAGT	.	PASS	Atlas-SNP
FOXRED2	80020	hgsc.bcm.edu	37	22	36886178	36886178	+	Silent	SNP	A	A	G	rs73409777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	39.0	68.0	0.0	0.481481	0	A|0.975;G|0.025	0.025	strong	.	FOXRED2	48	.	NM_001102371	exon9	c.T1932C	p.Y644Y	GGGGGCATAGTCC	.	PASS	Atlas-SNP
IPO13	9670	hgsc.bcm.edu	37	1	44422367	44422367	+	Silent	SNP	A	A	G	rs36061711	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	83.0	129.0	0.0	0.506098	0	A|0.964;G|0.036	0.036	strong	.	IPO13	86	.	NM_014652	exon4	c.A1098G	p.T366T	GTACACACTGCAG	.	PASS	Atlas-SNP
SPAG8	26206	hgsc.bcm.edu	37	9	35811749	35811749	+	Silent	SNP	C	C	T	rs79261709	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	44.0	80.0	0.0	0.578947	0	C|0.988;T|0.012	0.012	strong	.	SPAG8	67	.	NM_001039592	exon2	c.G294A	p.A98A	GGGTCCCGCACAG	.	PASS	Atlas-SNP
CPPED1	55313	hgsc.bcm.edu	37	16	12798724	12798724	+	Missense_Mutation	SNP	C	C	T	rs145004672	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	45.0	94.0	1.0	0.542169	0.0106383	C|0.988;T|0.012	0.012	strong	CPPED1,rectum,carcinoma,0,1	CPPED1	41	1	NM_018340	exon3	c.G472A	p.V158I	ACAGGACGCCCCC	.	scavenged	Atlas-SNP
ABCB8	11194	hgsc.bcm.edu	37	7	150730712	150730712	+	Missense_Mutation	SNP	G	G	A	rs6975981	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	49.0	118.0	0.0	0.457944	0	G|0.973;A|0.027	0.027	strong	.	ABCB8	65	.	NM_007188	exon2	c.G116A	p.S39N	ACCGCAGCTCCTC	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64461914	64461914	+	Silent	SNP	A	A	G	rs34001379	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	78.0	171.0	0.0	0.493671	0	A|0.995;G|0.005	0.005	strong	SYNE2,rectum,carcinoma,+2,1	SYNE2	577	1	NM_182914	exon23	c.A2934G	p.E978E	CAAAGAACATGAG	.	PASS	Atlas-SNP
ERO1L	30001	hgsc.bcm.edu	37	14	53133134	53133134	+	Silent	SNP	A	A	G	rs34388088	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	199.0	84.0	230.0	0.0	0.422111	0	A|0.985;G|0.015	0.015	strong	.	ERO1L	35	.	NM_014584	exon7	c.T588C	p.A196A	TTTCCAAGCATCT	.	PASS	Atlas-SNP
KLC3	147700	hgsc.bcm.edu	37	19	45848946	45848946	+	Silent	SNP	G	G	A	rs114640964	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	22.0	42.0	0.0	0.52381	0	G|0.990;A|0.010	0.010	strong	.	KLC3	37	.	NM_177417	exon2	c.G147A	p.A49A	CCTGGCGGAGGCC	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	124374487	124374487	+	Silent	SNP	T	T	C	rs55750661	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	67.0	138.0	0.0	0.478571	0	T|0.998;C|0.002	0.002	strong	.	KALRN	556	.	NM_001024660	exon39	c.T5832C	p.Y1944Y	AGACTATGTCAAG	.	PASS	Atlas-SNP
KIAA0226L	80183	hgsc.bcm.edu	37	13	46919719	46919719	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	25.0	48.0	0.0	0.531915	0	.	.	none	.	KIAA0226L	63	.	NM_025113	exon13	c.G1648A	p.E550K	CCTGCTCGAACTC	.	PASS	Atlas-SNP
TREM1	54210	hgsc.bcm.edu	37	6	41243926	41243926	+	Missense_Mutation	SNP	G	G	C	rs2234245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	48.0	90.0	0.0	0.470588	0	G|0.979;C|0.021	0.021	strong	.	TREM1	38	.	NM_018643	exon4	c.C642G	p.F214L	ACTCAGGAATCCA	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536117	1536117	+	Silent	SNP	G	G	A	rs58192896	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	36.0	73.0	0.0	0.455696	0	G|0.941;A|0.059	0.059	strong	.	PTX4	46	.	NM_001013658	exon3	c.C1245T	p.F415F	CCCCACGAAGGCC	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26168333	26168333	+	Silent	SNP	C	C	T	rs185388626	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	53.0	82.0	0.0	0.56383	0	C|0.998;T|0.002	0.002	strong	.	MYO18B	322	.	NM_032608	exon7	c.C1725T	p.D575D	CGAGGACCTGGCC	.	PASS	Atlas-SNP
LTF	4057	hgsc.bcm.edu	37	3	46501308	46501308	+	Silent	SNP	T	T	C	rs61740461	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	65.0	135.0	0.0	0.541667	0	T|0.931;C|0.069	0.069	strong	.	LTF	98	.	NM_002343	exon2	c.A45G	p.G15G	ACACAGTCCTGGG	.	PASS	Atlas-SNP
ULK1	8408	hgsc.bcm.edu	37	12	132404110	132404110	+	Silent	SNP	C	C	T	rs113954208	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	41.0	90.0	0.0	0.594203	0	C|0.994;T|0.006	0.006	strong	.	ULK1	92	.	NM_003565	exon25	c.C2778T	p.L926L	CAAGCTCTGCCTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	8996460	8996460	+	Missense_Mutation	SNP	A	A	C	rs115933306	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	170.0	204.0	0.0	1	0	A|0.974;C|0.026	0.026	strong	.	MUC16	4315	.	NM_024690	exon61	c.T41112G	p.D13704E	GATGGCATCCACT	.	PASS	Atlas-SNP
CXCR2	3579	hgsc.bcm.edu	37	2	218999798	218999798	+	Silent	SNP	T	T	C	rs142747099	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	109.0	249.0	1.0	0.457983	0.00401606	T|0.999;C|0.001	0.001	strong	.	CXCR2	54	.	NM_001168298	exon4	c.T274C	p.L92L	CTAGCCTTGGCCG	.	PASS	Atlas-SNP
PPP1R3F	89801	hgsc.bcm.edu	37	X	49142987	49142987	+	Missense_Mutation	SNP	C	C	T	rs372361395		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	54.0	89.0	0.0	0.490909	0	.	.	weak	.	PPP1R3F	56	.	NM_033215	exon4	c.C1835T	p.T612M	TAGCCACGATGGG	.	PASS	Atlas-SNP
ADAMTS1	9510	hgsc.bcm.edu	37	21	28214238	28214238	+	Silent	SNP	T	T	C	rs77718820	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	67.0	146.0	0.0	0.51145	0	T|0.990;C|0.010	0.010	strong	.	ADAMTS1	131	.	NM_006988	exon3	c.A1149G	p.R383R	GCAGCTTCTGCTC	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16860001	16860001	+	Missense_Mutation	SNP	A	A	T	rs76739123	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	79.0	115.0	0.0	0.552448	0	A|0.975;T|0.025	0.025	strong	.	NWD1	303	.	NM_001007525	exon6	c.A548T	p.Q183L	GGGAACAGGGAGC	.	PASS	Atlas-SNP
ZNF286B	729288	hgsc.bcm.edu	37	17	18566386	18566386	+	Missense_Mutation	SNP	G	G	A	rs143643706	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	353.0	137.0	390.0	0.0	0.388102	0	G|0.945;A|0.055	0.055	strong	.	ZNF286B	75	.	NM_001145045	exon5	c.C433T	p.R145W	TATTCCGTGTCAG	.	PASS	Atlas-SNP
KRTAP27-1	643812	hgsc.bcm.edu	37	21	31709935	31709935	+	Missense_Mutation	SNP	G	G	A	rs149814034	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	94.0	192.0	0.0	0.445498	0	G|0.997;A|0.003	0.003	strong	.	KRTAP27-1	53	.	NM_001077711	exon1	c.C52T	p.L18F	CAGAGAGTGGTGG	.	PASS	Atlas-SNP
KRTAP19-6	337973	hgsc.bcm.edu	37	21	31914019	31914019	+	Missense_Mutation	SNP	C	C	T	rs77807247	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	43.0	94.0	0.0	0.443299	0	C|0.969;T|0.031	0.031	strong	.	KRTAP19-6	16	.	NM_181612	exon1	c.G134A	p.R45H	GATGGGCGGCAGC	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78506181	78506181	+	Silent	SNP	C	C	A	rs34813806	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	77.0	74.0	0.0	0.740385	0	C|0.990;A|0.010	0.010	strong	.	PCSK5	329	.	NM_006200	exon1	c.C84A	p.P28P	GCTCCCCGTGTGT	.	PASS	Atlas-SNP
VNN1	8876	hgsc.bcm.edu	37	6	133013576	133013576	+	Missense_Mutation	SNP	G	G	T	rs34535050	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	33.0	63.0	0.0	0.492537	0	G|0.975;T|0.025	0.025	strong	.	VNN1	69	.	NM_004666	exon5	c.C974A	p.A325E	GAGAGCGCTTCTA	.	PASS	Atlas-SNP
PDE4C	5143	hgsc.bcm.edu	37	19	18330144	18330144	+	Missense_Mutation	SNP	C	C	T	rs34503849	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	55.0	81.0	0.0	0.585106	0	C|0.982;T|0.018	0.018	strong	.	PDE4C	80	.	NM_000923	exon9	c.G866A	p.R289Q	CTGATCCGGGACA	.	PASS	Atlas-SNP
PAN3	255967	hgsc.bcm.edu	37	13	28750683	28750683	+	Silent	SNP	A	A	G	rs142608239	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	72.0	86.0	0.0	0.585366	0	A|0.995;G|0.005	0.005	strong	.	PAN3	123	.	NM_175854	exon3	c.A606G	p.P202P	CAAGCCATATTCA	.	PASS	Atlas-SNP
ECHDC3	79746	hgsc.bcm.edu	37	10	11797484	11797484	+	Silent	SNP	A	A	G	rs34878615	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	53.0	104.0	0.0	0.53	0	A|0.981;G|0.019	0.019	strong	.	ECHDC3	12	.	NM_024693	exon4	c.A468G	p.Q156Q	CTGTCAACTGGTT	.	PASS	Atlas-SNP
GPD2	2820	hgsc.bcm.edu	37	2	157425931	157425931	+	Missense_Mutation	SNP	A	A	C	rs35096779	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	55.0	85.0	0.0	0.458333	0	A|0.963;C|0.037	0.037	strong	.	GPD2	59	.	NM_001083112	exon11	c.A1357C	p.K453Q	GCTGTCAAAACTC	.	PASS	Atlas-SNP
HEPACAM	220296	hgsc.bcm.edu	37	11	124794763	124794763	+	Silent	SNP	T	T	G	rs36089266	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	57.0	127.0	0.0	0.513514	0	T|0.994;G|0.006	0.006	strong	HEPACAM,NS,carcinoma,-1,4	HEPACAM	64	4	NM_152722	exon2	c.A288C	p.R96R	ACGGTCTCGATAG	.	PASS	Atlas-SNP
BCAT1	586	hgsc.bcm.edu	37	12	25031515	25031515	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	9.0	112.0	0.0	0.0849057	0	.	.	none	.	BCAT1	44	.	NM_001178093	exon5	c.A495G	p.P165P	TGAATATGGGACC	.	PASS	Atlas-SNP
CST4	1472	hgsc.bcm.edu	37	20	23669488	23669488	+	Missense_Mutation	SNP	T	T	C	rs73902130	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	274.0	144.0	217.0	0.0	0.525547	0	T|0.964;C|0.036	0.036	strong	CST4,colon,carcinoma,-1,1	CST4	37	1	NM_001899	exon1	c.A119G	p.N40S	TCATCATTGAGGT	.	PASS	Atlas-SNP
ENPP2	5168	hgsc.bcm.edu	37	8	120575112	120575112	+	Silent	SNP	G	G	A	rs61740048	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	61.0	101.0	0.0	0.504132	0	G|0.997;A|0.003	0.003	strong	ENPP2_ENST00000522826,colon,carcinoma,0,7	ENPP2	254	7	NM_006209	exon25	c.C2562T	p.N854N	CTCCTCGTTGTCA	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29445425	29445425	+	Silent	SNP	G	G	A	rs56146053	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	57.0	125.0	0.0	0.413043	0	G|0.970;A|0.030	0.030	strong	ALK,colon,carcinoma,0,1	ALK	533	1	NM_004304	exon21	c.C3408T	p.S1136S	CATTCCGGACACC	.	PASS	Atlas-SNP
TMEM132B	114795	hgsc.bcm.edu	37	12	125900104	125900104	+	Silent	SNP	A	A	T	rs143188464	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	81.0	157.0	0.0	0.519231	0	A|0.994;T|0.006	0.006	strong	.	TMEM132B	207	.	NM_052907	exon3	c.A972T	p.I324I	GAAGATAACGGCA	.	PASS	Atlas-SNP
CYFIP2	26999	hgsc.bcm.edu	37	5	156742033	156742033	+	Silent	SNP	C	C	T	rs17054446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	49.0	116.0	0.0	0.471154	0	C|0.993;T|0.007	0.007	strong	.	CYFIP2	354	.	NM_001037332	exon13	c.C1287T	p.G429G	TCCTGGCACCGCG	.	PASS	Atlas-SNP
BTK	695	hgsc.bcm.edu	37	X	100617218	100617218	+	Silent	SNP	A	A	G	rs148358153	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	46.0	126.0	0.0	0.455446	0	A|0.993;G|0.007	0.007	strong	.	BTK	87	.	NM_000061	exon7	c.T531C	p.P177P	ACTCCCAGGTTTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513425	195513425	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	468.0	61.0	523.0	0.0	0.130342	0	.	.	none	MUC4_ENST00000463781,rectum,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G5026C	p.G1676R	CGTGACCGGTGGA	.	scavenged	Atlas-SNP
KRTAP10-12	386685	hgsc.bcm.edu	37	21	46117746	46117746	+	Silent	SNP	C	C	T	rs112431728	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	44.0	83.0	0.0	0.54321	0	C|0.994;T|0.006	0.006	strong	.	KRTAP10-12	21	.	NM_198699	exon1	c.C630T	p.P210P	CGTGCCCGTCCCC	.	PASS	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	37	5	36986297	36986297	+	Silent	SNP	A	A	G	rs1669445	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	22.0	33.0	0.0	0.488889	0	A|0.961;G|0.039	0.039	strong	.	NIPBL	513	.	NM_015384	exon10	c.A3015G	p.L1005L	TGTGCTACAAAAA	.	PASS	Atlas-SNP
KPRP	448834	hgsc.bcm.edu	37	1	152732998	152732998	+	Missense_Mutation	SNP	C	C	T	rs140912923	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	55.0	72.0	0.0	0.5	0	C|0.994;T|0.006	0.006	strong	KPRP,NS,carcinoma,0,3	KPRP	152	3	NM_001025231	exon2	c.C934T	p.R312C	CCTCGCCGCCCCA	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130095598	130095598	+	Missense_Mutation	SNP	A	A	G	rs115250607	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	73.0	165.0	0.0	0.417143	0	A|0.983;G|0.017	0.017	strong	.	COL6A5	205	.	NM_153264	exon3	c.A586G	p.S196G	GACCTCAGCACAT	.	PASS	Atlas-SNP
GPKOW	27238	hgsc.bcm.edu	37	X	48970655	48970655	+	Silent	SNP	C	C	T	rs34057359	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	207.0	102.0	231.0	0.0	0.492754	0	C|0.873;T|0.127	0.127	strong	.	GPKOW	38	.	NM_015698	exon11	c.G1335A	p.R445R	CAAAGCCCGGCTC	.	PASS	Atlas-SNP
POC5	134359	hgsc.bcm.edu	37	5	75001590	75001590	+	Missense_Mutation	SNP	T	T	A	rs77025299	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	19.0	67.0	0.0	0.345455	0	T|0.965;A|0.035	0.035	strong	.	POC5	82	.	NM_001099271	exon4	c.A246T	p.E82D	TGCAGTTTCTCTT	.	PASS	Atlas-SNP
PTGIR	5739	hgsc.bcm.edu	37	19	47124742	47124742	+	Missense_Mutation	SNP	G	G	C	rs28590598	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	59.0	114.0	0.0	0.513043	0	G|0.973;C|0.027	0.027	strong	.	PTGIR	31	.	NM_000960	exon3	c.C956G	p.S319W	GTCTGCGAGTCTC	.	PASS	Atlas-SNP
SOWAHC	65124	hgsc.bcm.edu	37	2	110372688	110372688	+	Missense_Mutation	SNP	C	C	G	rs72938294	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	40.0	68.0	0.0	0.481928	0	C|0.983;G|0.017	0.017	strong	.	.	.	.	NM_023016	exon1	c.C622G	p.L208V	CGTGACCTGGTGA	.	PASS	Atlas-SNP
UCP3	7352	hgsc.bcm.edu	37	11	73717263	73717263	+	Silent	SNP	G	G	A	rs2229706	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	39.0	66.0	0.0	0.557143	0	G|0.991;A|0.009	0.009	strong	.	UCP3	31	.	NM_003356	exon3	c.C288T	p.I96I	GAGGCCGATGCGG	.	PASS	Atlas-SNP
DPY19L4	286148	hgsc.bcm.edu	37	8	95746883	95746883	+	Silent	SNP	G	G	A	rs113391412	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	67.0	90.0	0.0	0.587719	0	G|0.988;A|0.012	0.012	strong	.	DPY19L4	60	.	NM_181787	exon3	c.G153A	p.K51K	TGCAAAGATTTTC	.	PASS	Atlas-SNP
LRRC73	221424	hgsc.bcm.edu	37	6	43475195	43475195	+	Silent	SNP	G	G	A	rs61746927	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	25.0	50.0	0.0	0.480769	0	G|0.980;A|0.020	0.020	strong	.	.	.	.	NM_001012974	exon5	c.C879T	p.S293S	CTTACCGCTGGGG	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7880585	7880585	+	Silent	SNP	A	A	T	rs17031601	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	113.0	183.0	0.0	0.530516	0	A|0.985;T|0.015	0.015	strong	.	PER3	95	.	NM_016831	exon15	c.A1818T	p.I606I	GTCCATAGACACA	.	PASS	Atlas-SNP
MARVELD2	153562	hgsc.bcm.edu	37	5	68715576	68715576	+	Missense_Mutation	SNP	G	G	A	rs140764671	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	43.0	69.0	0.0	0.488636	0	G|0.995;A|0.005	0.005	strong	.	MARVELD2	49	.	NM_001244734	exon2	c.G364A	p.A122T	TCTCCAGCAAGAC	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057943	46057943	+	Silent	SNP	C	C	T	rs77446663	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	456.0	117.0	293.0	0.0	0.256579	0	C|0.982;T|0.018	0.018	strong	KRTAP10-10,NS,carcinoma,+2,1	KRTAP10-10	37	1	NM_181688	exon1	c.C609T	p.C203C	CTGCTGCGTGCCC	.	PASS	Atlas-SNP
APP	351	hgsc.bcm.edu	37	21	27326977	27326977	+	Silent	SNP	A	A	G	rs45537238	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	81.0	140.0	0.0	0.529412	0	A|0.977;G|0.023	0.023	strong	.	APP	90	.	NM_000484	exon13	c.T1614C	p.Y538Y	GCGCTCATAAATC	.	PASS	Atlas-SNP
PCDHA5	56143	hgsc.bcm.edu	37	5	140202418	140202418	+	Missense_Mutation	SNP	C	C	A	rs61735511	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	86.0	161.0	0.0	0.511905	0	C|0.940;A|0.060	0.060	strong	PCDHA5_ENST00000529859,NS,carcinoma,-1,2	PCDHA5	361	2	NM_018908	exon1	c.C1058A	p.T353N	TAACCACCCTTTT	.	PASS	Atlas-SNP
GGN	199720	hgsc.bcm.edu	37	19	38876944	38876944	+	Missense_Mutation	SNP	C	C	T	rs151268424	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	32.0	10.0	33.0	0.0	0.3125	0	C|0.996;T|0.004	0.004	strong	.	GGN	50	.	NM_152657	exon3	c.G958A	p.E320K	ACCCTTCGCCGTC	.	PASS	Atlas-SNP
DBH	1621	hgsc.bcm.edu	37	9	136521749	136521749	+	Silent	SNP	G	G	A	rs78516399	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	31.0	18.0	52.0	0.0	0.580645	0	G|0.993;A|0.007	0.007	strong	.	DBH	86	.	NM_000787	exon10	c.G1539A	p.Q513Q	CCTGCAGAAGTAC	.	PASS	Atlas-SNP
OTOL1	131149	hgsc.bcm.edu	37	3	161221262	161221262	+	Silent	SNP	T	T	A	rs113998122	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	60.0	108.0	0.0	0.560748	0	T|0.990;A|0.010	0.010	strong	.	OTOL1	63	.	NM_001080440	exon4	c.T966A	p.T322T	CCCCACTGGGAAG	.	PASS	Atlas-SNP
PROK2	60675	hgsc.bcm.edu	37	3	71821933	71821933	+	Missense_Mutation	SNP	G	G	T	rs60239864	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	94.0	121.0	0.0	0.618421	0	G|0.994;T|0.006	0.006	strong	.	PROK2	13	.	NM_001126128	exon4	c.C332A	p.P111Q	AAGCCTGGCAGAC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103386496	103386496	+	Silent	SNP	T	T	G	rs7988702	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	263.0	129.0	227.0	0.0	0.490494	0	T|0.974;G|0.026	0.026	strong	.	.	.	.	NM_001146197	exon4	c.A16551C	p.P5517P	TGACATTGGTGAA	.	PASS	Atlas-SNP
SLC22A5	6584	hgsc.bcm.edu	37	5	131729935	131729935	+	Missense_Mutation	SNP	C	C	T	rs11568525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	55.0	168.0	0.0	0.395683	0	C|0.972;T|0.028	0.028	strong	.	SLC22A5	34	.	NM_003060	exon10	c.C1645T	p.P549S	GAAAGGCCCACAA	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228473959	228473959	+	Missense_Mutation	SNP	T	T	G	rs202022683	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	101.0	192.0	2.0	0.495098	0.0104167	.	.	weak	OBSCN_ENST00000570156,NS,haematopoietic_neoplasm,0,4	OBSCN	2142	4	NM_001271223	exon39	c.T10472G	p.V3491G	ACCACGTGCTGAC	.	scavenged	Atlas-SNP
PLK4	10733	hgsc.bcm.edu	37	4	128808620	128808620	+	Silent	SNP	A	A	T	rs112831813	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	482.0	238.0	406.0	0.0	0.493776	0	A|0.993;T|0.007	0.007	strong	.	PLK4	65	.	NM_014264	exon6	c.A1428T	p.V476V	AACCGTACAACAG	.	PASS	Atlas-SNP
MN1	4330	hgsc.bcm.edu	37	22	28193097	28193097	+	Silent	SNP	C	C	T	rs45471598	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	18.0	22.0	0.0	0.473684	0	C|0.962;T|0.038	0.038	strong	MN1,colon,carcinoma,0,1	MN1	122	1	NM_002430	exon1	c.G3435A	p.P1145P	GGGTGGCGGGGCG	.	PASS	Atlas-SNP
DPF2	5977	hgsc.bcm.edu	37	11	65113459	65113459	+	Silent	SNP	G	G	T	rs61736579	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	51.0	78.0	0.0	0.495146	0	G|0.989;T|0.011	0.011	strong	.	DPF2	54	.	NM_006268	exon8	c.G834T	p.G278G	CCTGGGGGACTCA	.	PASS	Atlas-SNP
ZNF98	148198	hgsc.bcm.edu	37	19	22575504	22575504	+	Missense_Mutation	SNP	C	C	G	rs116270361	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	287.0	152.0	280.0	0.0	0.529617	0	C|0.976;G|0.024	0.024	strong	.	ZNF98	230	.	NM_001098626	exon4	c.G533C	p.G178A	TTCTTTCCAGTAT	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	124174062	124174062	+	Silent	SNP	C	C	T	rs61747979	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	51.0	108.0	0.0	0.490385	0	C|0.969;T|0.031	0.031	strong	.	KALRN	556	.	NM_003947	exon22	c.C3585T	p.A1195A	GCTGGCCGATAGC	.	PASS	Atlas-SNP
ADARB2	105	hgsc.bcm.edu	37	10	1405835	1405835	+	Silent	SNP	G	G	A	rs35398040	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	114.0	74.0	0.0	0.991304	0	G|0.981;A|0.019	0.019	strong	.	ADARB2	95	.	NM_018702	exon3	c.C465T	p.V155V	CGCGAAGACCGGG	.	PASS	Atlas-SNP
SYNGR3	9143	hgsc.bcm.edu	37	16	2042086	2042086	+	Missense_Mutation	SNP	G	G	A	rs199784173	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	11.0	10.0	5.0	0.0	0.909091	0	G|0.994;A|0.006	0.006	strong	.	SYNGR3	10	.	NM_004209	exon2	c.G211A	p.G71S	CGCTTCGGCGTCG	.	PASS	Atlas-SNP
C17orf64	124773	hgsc.bcm.edu	37	17	58506785	58506785	+	Silent	SNP	G	G	T	rs9913666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	62.0	104.0	0.0	0.488189	0	G|0.912;T|0.088	0.088	strong	.	C17orf64	19	.	NM_181707	exon5	c.G492T	p.L164L	CAGTCTGCCCAAG	.	PASS	Atlas-SNP
ENTPD4	9583	hgsc.bcm.edu	37	8	23299225	23299225	+	Missense_Mutation	SNP	C	C	T	rs34849865	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	39.0	55.0	0.0	0.661017	0	C|0.993;T|0.007	0.007	strong	.	ENTPD4	56	.	NM_004901	exon8	c.G739A	p.V247I	CCACAACGGCCTC	.	PASS	Atlas-SNP
IPO13	9670	hgsc.bcm.edu	37	1	44424525	44424525	+	Silent	SNP	G	G	A	rs74073335	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	96.0	165.0	0.0	0.578313	0	G|0.991;A|0.009	0.009	strong	.	IPO13	86	.	NM_014652	exon11	c.G1992A	p.E664E	CCCTGAGCTTCGG	.	PASS	Atlas-SNP
BAALC	79870	hgsc.bcm.edu	37	8	104240275	104240275	+	Missense_Mutation	SNP	G	G	C	rs34542607	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	47.0	72.0	0.0	0.580247	0	G|0.971;C|0.029	0.029	strong	.	BAALC	15	.	NM_024812	exon3	c.G386C	p.S129T	CAGATAGCATCCA	.	PASS	Atlas-SNP
BHLHB9	80823	hgsc.bcm.edu	37	X	102004046	102004046	+	Silent	SNP	G	G	A	rs17003869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	412.0	145.0	322.0	0.0	0.351942	0	0|0.003;A|0.015	0.015	strong	.	BHLHB9	60	.	NM_001142530	exon2	c.G123A	p.R41R	GACCAGGGCCAAA	.	PASS	Atlas-SNP
ZBTB40	9923	hgsc.bcm.edu	37	1	22816687	22816687	+	Silent	SNP	A	A	G	rs115103344	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	62.0	107.0	0.0	0.508197	0	A|0.993;G|0.007	0.007	strong	.	ZBTB40	87	.	NM_001083621	exon3	c.A246G	p.K82K	GGGCAAACTACCT	.	PASS	Atlas-SNP
FAM124A	220108	hgsc.bcm.edu	37	13	51855114	51855114	+	Missense_Mutation	SNP	G	G	T	rs74087446	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	51.0	113.0	0.0	0.459459	0	G|0.975;T|0.026	0.026	strong	.	FAM124A	61	.	NM_145019	exon5	c.G1471T	p.A491S	CACTGGGCAGCTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179560847	179560847	+	Missense_Mutation	SNP	C	C	T	rs73038324	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	234.0	119.0	242.0	0.0	0.508547	0	C|0.968;T|0.032	0.032	strong	.	TTN	18412	.	NM_001267550	exon114	c.G30952A	p.E10318K	GTTCTTCGAAAGA	.	PASS	Atlas-SNP
UACA	55075	hgsc.bcm.edu	37	15	70968850	70968850	+	Silent	SNP	A	A	G	rs61741196	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	30.0	50.0	0.0	0.576923	0	A|0.989;G|0.011	0.011	strong	.	UACA	235	.	NM_018003	exon13	c.T1113C	p.N371N	AAATCTATTTTTC	.	PASS	Atlas-SNP
DDX60L	91351	hgsc.bcm.edu	37	4	169342926	169342926	+	Silent	SNP	G	G	A	rs73863330	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	62.0	110.0	0.0	0.584906	0	G|0.994;A|0.006	0.006	strong	DDX60L,NS,carcinoma,-1,1	DDX60L	116	1	NM_001012967	exon17	c.C2379T	p.Y793Y	TGCAACGTACACA	.	PASS	Atlas-SNP
DAW1	164781	hgsc.bcm.edu	37	2	228750106	228750106	+	Missense_Mutation	SNP	C	C	T	rs11894733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	28.0	70.0	0.0	0.41791	0	C|0.939;T|0.061	0.061	strong	.	.	.	.	NM_178821	exon2	c.C80T	p.T27I	TAAAGACTAAGTC	.	PASS	Atlas-SNP
ZBTB11	27107	hgsc.bcm.edu	37	3	101370091	101370091	+	Silent	SNP	C	C	T	rs34525894	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	221.0	95.0	209.0	0.0	0.429864	0	C|0.948;T|0.052	0.052	strong	.	ZBTB11	77	.	NM_014415	exon11	c.G3081A	p.Q1027Q	TCCTTGCTGTTGT	.	PASS	Atlas-SNP
MCF2L	23263	hgsc.bcm.edu	37	13	113729414	113729414	+	Missense_Mutation	SNP	C	C	T	rs74926660	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	41.0	81.0	0.0	0.493976	0	C|0.990;T|0.010	0.010	strong	.	MCF2L	182	.	NM_001112732	exon11	c.C1219T	p.R407W	GAGCTCCGGCACC	.	PASS	Atlas-SNP
SPHK2	56848	hgsc.bcm.edu	37	19	49132646	49132646	+	Silent	SNP	G	G	A	rs75629654	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	56.0	29.0	0.0	1	0	G|0.940;A|0.060	0.060	strong	.	SPHK2	62	.	NM_020126	exon7	c.G1581A	p.L527L	CCCGCTGCCCCCA	.	PASS	Atlas-SNP
GRIK5	2901	hgsc.bcm.edu	37	19	42560893	42560893	+	Missense_Mutation	SNP	G	G	A	rs139340543	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	54.0	126.0	0.0	0.442623	0	G|0.999;A|0.001	0.001	strong	.	GRIK5	220	.	NM_002088	exon7	c.C824T	p.P275L	TAGAAGGGGTGGG	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17087509	17087509	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	896.0	71.0	713.0	0.0	0.0792411	0	.	.	none	.	.	.	.	NM_001271733	exon2	c.G156A	p.Q52Q	ATCCTCCTGCCAA	.	PASS	Atlas-SNP
TAF1	6872	hgsc.bcm.edu	37	X	70627477	70627477	+	Silent	SNP	G	G	A	rs7050748	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	316.0	136.0	316.0	0.0	0.43038	0	0|0.003;A|0.098	0.098	strong	.	TAF1	439	.	NM_004606	exon27	c.G4221A	p.S1407S	GCTGTCGTCCATC	.	PASS	Atlas-SNP
KIT	3815	hgsc.bcm.edu	37	4	55602765	55602765	+	Silent	SNP	G	G	C	rs3733542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	31.0	106.0	0.0	0.326316	0	G|0.828;C|0.172	0.172	strong	KIT,colon,carcinoma,0,10	KIT	7396	10	NM_000222	exon18	c.G2586C	p.L862L	GGAGCTGTTCTCT	.	PASS	Atlas-SNP
ZNF74	7625	hgsc.bcm.edu	37	22	20760106	20760106	+	Silent	SNP	C	C	T	rs2229316	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	42.0	39.0	0.0	1	0	C|0.982;T|0.018	0.018	strong	.	ZNF74	54	.	NM_003426	exon5	c.C783T	p.S261S	GAGCTCCTCCCTC	.	PASS	Atlas-SNP
PLEKHA5	54477	hgsc.bcm.edu	37	12	19440471	19440471	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	83.0	175.0	0.0	0.51875	0	.	.	none	.	PLEKHA5	198	.	NM_001256470	exon13	c.A1844G	p.Q615R	GTCCCCAGAGCCT	.	PASS	Atlas-SNP
C3orf43	255798	hgsc.bcm.edu	37	3	196234777	196234777	+	Missense_Mutation	SNP	A	A	G	rs187809363	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	97.0	187.0	0.0	0.466346	0	A|0.999;G|0.001	0.001	strong	C3orf43,NS,malignant_melanoma,+1,1	C3orf43	25	1	NM_001077657	exon3	c.T626C	p.I209T	GATGGTATCAACT	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70218890	70218890	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	5.0	91.0	0.0	0.0485437	0	.	.	none	DNA2L,NS,carcinoma,-1,4	DNA2	76	4	NM_001080449	exon5	c.G690A	p.S230S	GTCAGTCGAAGTG	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37173977	37173977	+	Silent	SNP	A	A	G	rs61746147	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	43.0	85.0	0.0	0.477778	0	A|0.974;G|0.026	0.026	strong	.	C5orf42	422	.	NM_023073	exon32	c.T6051C	p.A2017A	TTGTGAAGCAACA	.	PASS	Atlas-SNP
GSN	2934	hgsc.bcm.edu	37	9	124091256	124091256	+	Missense_Mutation	SNP	G	G	T	rs9696578	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	25.0	38.0	0.0	0.510204	0	G|0.993;T|0.007	0.007	strong	.	GSN	81	.	NM_000177	exon14	c.G2003T	p.R668L	CTCCTCGCCTCTT	.	PASS	Atlas-SNP
KRT73	319101	hgsc.bcm.edu	37	12	53005004	53005004	+	Missense_Mutation	SNP	T	T	C	rs607426	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	97.0	218.0	0.0	0.459716	0	T|0.980;C|0.020	0.020	strong	.	KRT73	101	.	NM_175068	exon6	c.A1094G	p.E365G	ACACTCTCAATCT	.	PASS	Atlas-SNP
TM7SF3	51768	hgsc.bcm.edu	37	12	27148324	27148324	+	Missense_Mutation	SNP	G	G	C	rs34735713	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	61.0	80.0	0.0	0.512605	0	G|0.971;C|0.029	0.029	strong	.	TM7SF3	41	.	NM_016551	exon5	c.C536G	p.P179R	TCACATGGTGGGG	.	PASS	Atlas-SNP
SPATC1L	84221	hgsc.bcm.edu	37	21	47581508	47581508	+	Missense_Mutation	SNP	C	C	A	rs74518516	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	57.0	67.0	0.0	0.575758	0	C|0.971;A|0.029	0.029	strong	.	.	.	.	NM_001142854	exon5	c.G808T	p.V270L	GGTGCACGTCGCG	.	PASS	Atlas-SNP
SSBP3	23648	hgsc.bcm.edu	37	1	54747176	54747176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	35.0	80.0	0.0	0.333333	0	.	.	none	.	SSBP3	65	.	NM_145716	exon5	c.G301A	p.V101M	CAAGCACGGGGCT	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117129921	117129921	+	Missense_Mutation	SNP	G	G	C	rs62640865	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	32.0	72.0	0.0	0.421053	0	G|0.957;C|0.043	0.043	strong	.	AKNA	119	.	NM_030767	exon6	c.C1630G	p.L544V	ACCCCAGGGTGGG	.	PASS	Atlas-SNP
TSSK1B	83942	hgsc.bcm.edu	37	5	112770054	112770054	+	Silent	SNP	G	G	A	rs111560230	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	36.0	81.0	0.0	0.45	0	G|0.500;A|0.500	0.500	strong	.	TSSK1B	89	.	NM_032028	exon1	c.C483T	p.C161C	CCGCAGGCAGCGC	.	PASS	Atlas-SNP
MBOAT4	619373	hgsc.bcm.edu	37	8	29990075	29990075	+	Missense_Mutation	SNP	C	C	T	rs16876563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	64.0	125.0	0.0	0.470588	0	C|0.952;T|0.048	0.048	strong	MBOAT4_ENST00000320542,NS,carcinoma,+1,1	MBOAT4	31	1	NM_001100916	exon3	c.G692A	p.G231E	GTCAGTCCCGCTC	.	PASS	Atlas-SNP
MACC1	346389	hgsc.bcm.edu	37	7	20199835	20199835	+	Missense_Mutation	SNP	G	G	A	rs17142503	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	36.0	56.0	0.0	0.521739	0	G|0.982;A|0.018	0.018	strong	MACC1,colon,carcinoma,-1,1	MACC1	99	1	NM_182762	exon5	c.C149T	p.P50L	GCATCCGGCCAAT	.	PASS	Atlas-SNP
COBL	23242	hgsc.bcm.edu	37	7	51096992	51096992	+	Missense_Mutation	SNP	G	G	A	rs61737866	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	249.0	112.0	207.0	0.0	0.449799	0	G|0.974;A|0.026	0.026	strong	.	COBL	167	.	NM_015198	exon10	c.C1801T	p.H601Y	CGGGGTGCAGGGC	.	PASS	Atlas-SNP
C1orf177	163747	hgsc.bcm.edu	37	1	55272743	55272743	+	Missense_Mutation	SNP	A	A	G	rs115158797	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	78.0	157.0	0.0	0.490566	0	A|0.989;G|0.011	0.011	strong	.	C1orf177	36	.	NM_001110533	exon2	c.A179G	p.Y60C	CGCGTTATTCTAC	.	PASS	Atlas-SNP
TBC1D17	79735	hgsc.bcm.edu	37	19	50386253	50386253	+	Silent	SNP	C	C	T	rs61741174	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	62.0	99.0	0.0	0.548673	0	C|0.989;T|0.011	0.011	strong	.	TBC1D17	39	.	NM_024682	exon9	c.C951T	p.R317R	GCGGCGCGAGGCC	.	PASS	Atlas-SNP
CDK6	1021	hgsc.bcm.edu	37	7	92462572	92462572	+	Silent	SNP	G	G	A	rs189208543	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	45.0	67.0	0.0	0.478723	0	G|0.998;A|0.002	0.002	strong	.	CDK6	30	.	NM_001259	exon2	c.C66T	p.G22G	ATAGGCGCCCTCC	.	PASS	Atlas-SNP
OR8H2	390151	hgsc.bcm.edu	37	11	55873401	55873401	+	Missense_Mutation	SNP	A	A	G	rs115405120	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	61.0	121.0	0.0	0.54955	0	A|0.991;G|0.009	0.009	strong	.	OR8H2	117	.	NM_001005200	exon1	c.A883G	p.K295E	AGAAACAAAGAGG	.	PASS	Atlas-SNP
RGS14	10636	hgsc.bcm.edu	37	5	176798996	176798996	+	Missense_Mutation	SNP	G	G	A	rs149981884	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	44.0	66.0	0.0	0.55	0	G|0.995;A|0.005	0.005	strong	.	RGS14	34	.	NM_006480	exon15	c.G1621A	p.E541K	AGCTCCGAGGAGA	.	PASS	Atlas-SNP
POTEG	404785	hgsc.bcm.edu	37	14	19553494	19553494	+	Missense_Mutation	SNP	G	G	C	rs200256710	byfrequency;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	2158.0	285.0	1363.0	1.0	0.132067	0.000733676	G|0.996;A|0.004	.	alt	POTEG,NS,carcinoma,0,1	POTEG	118	1	NM_001005356	exon1	c.G78C	p.K26N	GGGCAAGTGGTGC	.	scavenged	Atlas-SNP
CLU	1191	hgsc.bcm.edu	37	8	27457507	27457507	+	Silent	SNP	G	G	C	rs9331937	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	38.0	84.0	0.0	0.44186	0	G|0.973;C|0.027	0.027	strong	.	CLU	54	.	NM_001831	exon7	c.C954G	p.P318P	CTGGGAGGGGTTG	.	PASS	Atlas-SNP
ZBTB42	100128927	hgsc.bcm.edu	37	14	105268701	105268701	+	Silent	SNP	G	G	A	rs61734768	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	50.0	89.0	0.0	0.515464	0	G|0.959;A|0.041	0.041	strong	.	ZBTB42	10	.	NM_001137601	exon2	c.G1167A	p.P389P	GAAGCCGCATGCC	.	PASS	Atlas-SNP
ZNF689	115509	hgsc.bcm.edu	37	16	30616488	30616488	+	Silent	SNP	G	G	A	rs9937653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	51.0	125.0	0.0	0.425	0	G|0.972;A|0.028	0.028	strong	.	ZNF689	48	.	NM_138447	exon3	c.C600T	p.S200S	CTCGCCGGAGTGT	.	PASS	Atlas-SNP
EXOC8	149371	hgsc.bcm.edu	37	1	231472916	231472916	+	Silent	SNP	G	G	A	rs73116365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	53.0	95.0	0.0	0.490741	0	G|0.983;A|0.017	0.017	strong	.	EXOC8	42	.	NM_175876	exon1	c.C576T	p.Y192Y	CGCATCGTATTCC	.	PASS	Atlas-SNP
MMP13	4322	hgsc.bcm.edu	37	11	102818662	102818662	+	Missense_Mutation	SNP	T	T	C	rs17860568	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	32.0	85.0	0.0	0.359551	0	T|0.991;C|0.009	0.009	strong	.	MMP13	75	.	NM_002427	exon8	c.A1169G	p.D390G	CCTGTATCCTCAA	.	PASS	Atlas-SNP
LRIT2	340745	hgsc.bcm.edu	37	10	85982075	85982075	+	Silent	SNP	A	A	G	rs7901410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	41.0	56.0	0.0	0.525641	0	A|0.945;G|0.055	0.055	strong	.	LRIT2	81	.	NM_001017924	exon3	c.T1254C	p.Y418Y	CACAGCATAAGTA	.	PASS	Atlas-SNP
MBTPS1	8720	hgsc.bcm.edu	37	16	84097021	84097021	+	Missense_Mutation	SNP	C	C	G	rs35417190	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	53.0	123.0	0.0	0.441667	0	C|0.997;G|0.003	0.003	strong	.	MBTPS1	85	.	NM_003791	exon19	c.G2461C	p.V821L	CAACAACTGCTGT	.	PASS	Atlas-SNP
MYO10	4651	hgsc.bcm.edu	37	5	16754991	16754991	+	Silent	SNP	C	C	T	rs61736777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	33.0	71.0	0.0	0.423077	0	C|0.973;T|0.027	0.027	strong	.	MYO10	198	.	NM_012334	exon19	c.G1875A	p.T625T	GCTTAGCGTTGCC	.	PASS	Atlas-SNP
PRF1	5551	hgsc.bcm.edu	37	10	72358407	72358407	+	Missense_Mutation	SNP	C	C	T	rs140787739	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	35.0	74.0	0.0	0.514706	0	C|0.999;T|0.001	0.001	strong	PRF1,caecum,carcinoma,-1,1	PRF1	64	1	NM_001083116	exon3	c.G1070A	p.R357Q	GCCTCCCGCCGCG	.	PASS	Atlas-SNP
LRRC56	115399	hgsc.bcm.edu	37	11	549949	549949	+	Missense_Mutation	SNP	G	G	A	rs371135949		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	27.0	79.0	0.0	0.36	0	.	.	weak	.	LRRC56	23	.	NM_198075	exon7	c.G374A	p.R125H	TGGCTCGCTGTGG	.	PASS	Atlas-SNP
MAGI3	260425	hgsc.bcm.edu	37	1	113933814	113933814	+	Silent	SNP	C	C	T	rs182574963	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	26.0	26.0	0.0	0.742857	0	C|0.994;T|0.006	0.006	strong	.	MAGI3	181	.	NM_152900	exon1	c.C159T	p.G53G	GCCCGGCGGGGGC	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89449168	89449168	+	Silent	SNP	T	T	A	rs59048247	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	338.0	150.0	394.0	0.0	0.443787	0	T|0.940;A|0.060	0.060	strong	.	.	.	.	NM_001162536	exon3	c.A342T	p.G114G	ACTTCCTCCTCTT	.	PASS	Atlas-SNP
IFNA4	3441	hgsc.bcm.edu	37	9	21187146	21187146	+	Missense_Mutation	SNP	C	C	T	rs201186279		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	736.0	68.0	513.0	2.0	0.0923913	0.00389864	.	.	weak	IFNA4,NS,carcinoma,0,1	IFNA4	34	1	NM_021068	exon1	c.G385A	p.V129M	CTTCCACCCCAAC	.	scavenged	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112871458	112871458	+	Silent	SNP	C	C	G	rs77052070	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	41.0	96.0	0.0	0.376147	0	C|0.984;G|0.016	0.016	strong	.	YTHDC2	118	.	NM_022828	exon7	c.C1065G	p.L355L	AAATCTCTTTATA	.	PASS	Atlas-SNP
NOL8	55035	hgsc.bcm.edu	37	9	95076833	95076833	+	Missense_Mutation	SNP	C	C	G	rs373764183		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	65.0	76.0	0.0	0.670103	0	.	.	weak	.	NOL8	118	.	NM_017948	exon7	c.G2074C	p.G692R	CAAAGCCTATGTT	.	PASS	Atlas-SNP
KRTAP9-9	81870	hgsc.bcm.edu	37	17	39412125	39412125	+	Missense_Mutation	SNP	G	G	C	rs144403228	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	263.0	129.0	262.0	1.0	0.490494	0.00381679	G|0.987;C|0.013	0.013	strong	.	KRTAP9-9	24	.	NM_030975	exon1	c.G488C	p.C163S	CCAGCTGCTGCCA	.	PASS	Atlas-SNP
IKBKE	9641	hgsc.bcm.edu	37	1	206666601	206666601	+	Silent	SNP	C	C	A	rs144382861	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	47.0	93.0	0.0	0.494737	0	C|0.999;A|0.001	0.001	strong	.	IKBKE	77	.	NM_014002	exon20	c.C1935A	p.L645L	GCAGCTCCTGGAA	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128367433	128367433	+	Missense_Mutation	SNP	G	G	A	rs61741454	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	105.0	207.0	1.0	0.517241	0.00483092	G|0.993;A|0.007	0.007	strong	.	MYO7B	359	.	NM_001080527	exon24	c.G3034A	p.V1012I	GCCCTGGTCATAT	.	PASS	Atlas-SNP
CLU	1191	hgsc.bcm.edu	37	8	27468005	27468005	+	Silent	SNP	G	G	A	rs9331892	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	53.0	116.0	0.0	0.384058	0	G|0.944;A|0.056	0.056	strong	.	CLU	54	.	NM_001831	exon2	c.C84T	p.D28D	CTCATTGTCTGAG	.	PASS	Atlas-SNP
INF2	64423	hgsc.bcm.edu	37	14	105180977	105180977	+	Missense_Mutation	SNP	G	G	A	rs9672065	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	26.0	44.0	0.0	0.666667	0	G|0.978;A|0.022	0.022	strong	.	INF2	148	.	NM_022489	exon21	c.G3478A	p.G1160S	AGCCGTGGTGCCA	.	PASS	Atlas-SNP
TTC4	7268	hgsc.bcm.edu	37	1	55197320	55197320	+	Silent	SNP	G	G	A	rs1062700	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	29.0	83.0	0.0	0.381579	0	G|0.946;A|0.054	0.054	strong	.	TTC4	21	.	NM_004623	exon7	c.G843A	p.L281L	CTTTCTGTACCCA	.	PASS	Atlas-SNP
KIAA0556	23247	hgsc.bcm.edu	37	16	27689137	27689137	+	Missense_Mutation	SNP	G	G	T	rs147094899	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	54.0	89.0	0.0	0.435484	0	G|0.993;T|0.007	0.007	strong	.	KIAA0556	348	.	NM_015202	exon7	c.G628T	p.D210Y	GAGGAAGACATAC	.	PASS	Atlas-SNP
KIT	3815	hgsc.bcm.edu	37	4	55561862	55561862	+	Silent	SNP	G	G	T	rs56411694	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	46.0	112.0	0.0	0.469388	0	G|0.981;T|0.019	0.019	strong	.	KIT	7396	.	NM_000222	exon2	c.G252T	p.T84T	GATCACGGAAAAG	.	PASS	Atlas-SNP
PSMD2	5708	hgsc.bcm.edu	37	3	184023918	184023918	+	Silent	SNP	A	A	G	rs34477849	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	362.0	189.0	284.0	1.0	0.522099	0.00352113	A|0.976;G|0.024	0.024	strong	.	PSMD2	56	.	NM_002808	exon14	c.A1779G	p.T593T	CAACACACTGGTG	.	PASS	Atlas-SNP
SLC19A2	10560	hgsc.bcm.edu	37	1	169446639	169446639	+	Silent	SNP	C	C	A	rs150548640	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	50.0	76.0	0.0	0.609756	0	C|0.996;A|0.004	0.004	strong	.	SLC19A2	35	.	NM_006996	exon2	c.G561T	p.L187L	GCTGAACAGCGAC	.	PASS	Atlas-SNP
UBAP2	55833	hgsc.bcm.edu	37	9	33927880	33927880	+	Missense_Mutation	SNP	C	C	G	rs16935295	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	88.0	140.0	0.0	0.619718	0	C|0.965;G|0.035	0.035	strong	.	UBAP2	82	.	NM_018449	exon20	c.G2286C	p.M762I	GGTGTTCATGCTA	.	PASS	Atlas-SNP
CD33	945	hgsc.bcm.edu	37	19	51738465	51738465	+	Missense_Mutation	SNP	G	G	A	rs58981829	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	224.0	121.0	212.0	0.0	0.540179	0	G|0.955;A|0.045	0.045	strong	CD33,NS,carcinoma,0,1	CD33	55	1	NM_001772	exon5	c.G799A	p.V267I	GCTGGTGTTACAG	.	PASS	Atlas-SNP
DLK1	8788	hgsc.bcm.edu	37	14	101200780	101200780	+	Silent	SNP	T	T	C	rs2295660	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	15.0	39.0	0.0	0.326087	0	T|0.981;C|0.019	0.019	strong	.	DLK1	57	.	NM_003836	exon5	c.T699C	p.C233C	CGAGTGTCTGTGC	.	PASS	Atlas-SNP
KIAA0196	9897	hgsc.bcm.edu	37	8	126079867	126079867	+	Silent	SNP	T	T	C	rs10429323	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	72.0	132.0	0.0	0.48	0	T|0.971;C|0.029	0.029	strong	.	KIAA0196	90	.	NM_014846	exon10	c.A1245G	p.L415L	AGTATCTAACAGC	.	PASS	Atlas-SNP
DMD	1756	hgsc.bcm.edu	37	X	32716110	32716110	+	Silent	SNP	C	C	T	rs1800265	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	77.0	121.0	0.0	0.513333	0	C|0.852;T|0.148	0.148	strong	.	DMD	2127	.	NM_004006	exon9	c.G837A	p.T279T	ACTGACCGTGATC	.	PASS	Atlas-SNP
GLRA4	441509	hgsc.bcm.edu	37	X	102962343	102962343	+	Missense_Mutation	SNP	T	T	C	rs61744012	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	84.0	116.0	0.0	0.617647	0	T|0.990;C|0.010	0.010	strong	.	GLRA4	86	.	NM_001024452	exon9	c.A1183G	p.I395V	TATAAATGCCAGA	.	PASS	Atlas-SNP
CXorf38	159013	hgsc.bcm.edu	37	X	40496354	40496354	+	Missense_Mutation	SNP	T	T	C	rs17145855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	323.0	155.0	319.0	0.0	0.479876	0	0|0.003;C|0.018	0.018	strong	.	CXorf38	29	.	NM_144970	exon4	c.A526G	p.T176A	GCCACGTAGAAGA	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385987	58385987	+	Missense_Mutation	SNP	C	C	G	rs111291730	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	257.0	126.0	234.0	1.0	0.490272	0.0042735	C|0.998;G|0.002	0.002	strong	.	ZNF814	93	.	NM_001144989	exon3	c.G771C	p.L257F	ATTACTCAAGCTA	.	PASS	Atlas-SNP
GAS6	2621	hgsc.bcm.edu	37	13	114526504	114526504	+	Silent	SNP	G	G	A	rs74118435	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	54.0	86.0	0.0	0.568421	0	G|0.971;A|0.029	0.029	strong	.	GAS6	75	.	NM_000820	exon13	c.C1497T	p.V499V	AGTCCCGACGTCC	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38524226	38524226	+	Silent	SNP	A	A	G	rs2835632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	105.0	193.0	0.0	0.546875	0	A|0.931;G|0.069	0.069	strong	.	TTC3	182	.	NM_001001894	exon26	c.A2310G	p.K770K	CAAAAAATTGAAG	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186057347	186057347	+	Silent	SNP	A	A	T	rs61745374	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	50.0	71.0	0.0	0.684932	0	A|0.953;T|0.047	0.047	strong	.	HMCN1	797	.	NM_031935	exon62	c.A9516T	p.T3172T	ATTAACATGTGAT	.	PASS	Atlas-SNP
ALKBH8	91801	hgsc.bcm.edu	37	11	107427616	107427616	+	Silent	SNP	C	C	G	rs17107135	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	152.0	158.0	1.0	1	0.00632911	C|0.896;G|0.104	0.104	strong	.	ALKBH8	88	.	NM_138775	exon3	c.G243C	p.P81P	TGAGTACGGCTTG	.	PASS	Atlas-SNP
RUFY4	285180	hgsc.bcm.edu	37	2	218953991	218953991	+	Missense_Mutation	SNP	T	T	G	rs201137688	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	74.0	141.0	0.0	0.404372	0	T|0.999;G|0.001	0.001	weak	.	RUFY4	59	.	NM_198483	exon12	c.T1519G	p.W507G	CGCCTGTGGCAGA	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24261518	24261518	+	Silent	SNP	G	G	A	rs61731545	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	61.0	113.0	0.0	0.504132	0	G|0.979;A|0.021	0.021	strong	.	ADAMDEC1	69	.	NM_014479	exon13	c.G1323A	p.E441E	GAAGGAGTGTACC	.	PASS	Atlas-SNP
CARD9	64170	hgsc.bcm.edu	37	9	139264827	139264827	+	Silent	SNP	C	C	T	rs115057256	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	71.0	87.0	0.0	0.78022	0	C|0.989;T|0.011	0.011	strong	CARD9,NS,NS,-1,1	CARD9	47	1	NM_052813	exon6	c.G870A	p.A290A	CCGCAGCGCCTGC	.	PASS	Atlas-SNP
ATF4	468	hgsc.bcm.edu	37	22	39918323	39918323	+	Missense_Mutation	SNP	C	C	G	rs1803323	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	329.0	178.0	303.0	0.0	0.541033	0	C|0.987;G|0.013	0.013	strong	.	ATF4	27	.	NM_001675	exon2	c.C772G	p.P258A	GCCCGTCCCAAAC	.	PASS	Atlas-SNP
SPEM1	374768	hgsc.bcm.edu	37	17	7324340	7324340	+	Missense_Mutation	SNP	G	G	A	rs61741352	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	74.0	134.0	0.0	0.448485	0	G|0.962;A|0.038	0.038	strong	.	SPEM1	41	.	NM_199339	exon3	c.G346A	p.G116S	CGTCGAGGCTCTC	.	PASS	Atlas-SNP
DIDO1	11083	hgsc.bcm.edu	37	20	61525488	61525488	+	Silent	SNP	A	A	G	rs112062101	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	39.0	82.0	0.0	0.493671	0	A|0.994;G|0.006	0.006	strong	DIDO1,NS,carcinoma,-1,1	DIDO1	321	1	NM_080797	exon12	c.T2631C	p.S877S	CTTAACAGAAGCT	.	PASS	Atlas-SNP
GPRIN3	285513	hgsc.bcm.edu	37	4	90169025	90169025	+	Missense_Mutation	SNP	C	C	T	rs17015286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	92.0	169.0	0.0	0.522727	0	C|0.933;T|0.067	0.067	strong	.	GPRIN3	90	.	NM_198281	exon2	c.G2237A	p.R746K	CTTCCTCTGAGCT	.	PASS	Atlas-SNP
GSDMC	56169	hgsc.bcm.edu	37	8	130762732	130762732	+	Missense_Mutation	SNP	T	T	C	rs76700535	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	47.0	101.0	0.0	0.401709	0	T|0.985;C|0.015	0.015	strong	.	GSDMC	71	.	NM_031415	exon11	c.A1028G	p.Y343C	ATACTGTAGAACA	.	PASS	Atlas-SNP
APOBEC3B	9582	hgsc.bcm.edu	37	22	39381957	39381957	+	Silent	SNP	C	C	T	rs150187552	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	323.0	112.0	306.0	0.0	0.346749	0	C|0.998;T|0.002	0.002	strong	.	APOBEC3B	32	.	NM_004900	exon3	c.C315T	p.A105A	GCTGGCCGAATTC	.	PASS	Atlas-SNP
CILP	8483	hgsc.bcm.edu	37	15	65496624	65496624	+	Missense_Mutation	SNP	C	C	G	rs140625947	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	75.0	137.0	0.0	0.457317	0	C|0.999;G|0.001	0.001	strong	.	CILP	124	.	NM_003613	exon6	c.G901C	p.A301P	ACTCTGCCTTGAT	.	PASS	Atlas-SNP
ELOVL5	60481	hgsc.bcm.edu	37	6	53159233	53159233	+	Silent	SNP	G	G	A	rs9474477	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	76.0	124.0	0.0	0.546763	0	G|0.973;A|0.027	0.027	strong	.	ELOVL5	25	.	NM_001242831	exon3	c.C115T	p.L39L	GCTGTAGCCATCC	.	PASS	Atlas-SNP
RFX7	64864	hgsc.bcm.edu	37	15	56387421	56387421	+	Silent	SNP	T	T	C	rs34255389	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	82.0	137.0	0.0	0.476744	0	T|0.996;C|0.004	0.004	strong	.	RFX7	170	.	NM_022841	exon9	c.A2505G	p.L835L	GCTATGTAGCTGC	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113149612	113149612	+	Missense_Mutation	SNP	T	T	C	rs114581956	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	241.0	80.0	247.0	0.0	0.33195	0	T|0.987;C|0.013	0.013	strong	.	SVEP1	326	.	NM_153366	exon42	c.A10013G	p.H3338R	GTGCAGTGTGCCT	.	PASS	Atlas-SNP
CAPN14	440854	hgsc.bcm.edu	37	2	31417290	31417290	+	Missense_Mutation	SNP	T	T	C	rs76523220	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	37.0	64.0	0.0	0.506849	0	T|0.964;C|0.036	0.036	strong	.	CAPN14	36	.	NM_001145122	exon9	c.A935G	p.N312S	CCGTCATTGTCTT	.	PASS	Atlas-SNP
FBLIM1	54751	hgsc.bcm.edu	37	1	16091700	16091700	+	Silent	SNP	G	G	A	rs61733331	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	67.0	117.0	0.0	0.544715	0	G|0.988;A|0.012	0.012	strong	.	FBLIM1	46	.	NM_001024215	exon2	c.G222A	p.P74P	AGTGCCGGCTGCA	.	PASS	Atlas-SNP
SLC16A6	9120	hgsc.bcm.edu	37	17	66267734	66267734	+	Silent	SNP	T	T	C	rs61740584	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	54.0	134.0	0.0	0.453782	0	T|0.969;C|0.031	0.031	strong	.	SLC16A6	56	.	NM_001174166	exon6	c.A567G	p.L189L	TAACTGTAGTAGG	.	PASS	Atlas-SNP
CHD1L	9557	hgsc.bcm.edu	37	1	146763171	146763171	+	Missense_Mutation	SNP	T	T	A	rs61756300	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	378.0	182.0	383.0	0.0	0.481481	0	T|0.984;A|0.016	0.016	strong	.	CHD1L	72	.	NM_004284	exon20	c.T2328A	p.S776R	CCTGAGTTTGGGA	.	PASS	Atlas-SNP
MIPEP	4285	hgsc.bcm.edu	37	13	24463414	24463414	+	Missense_Mutation	SNP	C	C	A	rs112735196	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	18.0	17.0	4.0	0.0	0.944444	0	C|0.994;A|0.006	0.006	strong	.	MIPEP	53	.	NM_005932	exon1	c.G46T	p.A16S	GCAGAGCTGCTGC	.	PASS	Atlas-SNP
FTSJ3	117246	hgsc.bcm.edu	37	17	61902011	61902011	+	Silent	SNP	C	C	T	rs9910549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	207.0	103.0	209.0	0.0	0.497585	0	C|0.976;T|0.024	0.024	strong	.	FTSJ3	63	.	NM_017647	exon10	c.G903A	p.G301G	CTTGCGCCCCAAC	.	PASS	Atlas-SNP
ZNF628	89887	hgsc.bcm.edu	37	19	55994975	55994975	+	Silent	SNP	G	G	T	rs114065657	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	50.0	72.0	0.0	0.537634	0	G|0.980;T|0.020	0.020	strong	.	ZNF628	75	.	NM_033113	exon3	c.G2415T	p.V805V	GAATGTGGGGGGT	.	PASS	Atlas-SNP
GPRASP1	9737	hgsc.bcm.edu	37	X	101912465	101912465	+	Silent	SNP	G	G	T	rs1124050	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	293.0	107.0	280.0	1.0	0.365188	0.00357143	0|0.003;A|0.000;G|0.981;T|0.016	0.016	strong	.	GPRASP1	140	.	NM_001099411	exon3	c.G3624T	p.P1208P	TTATCCGTCCTCC	.	PASS	Atlas-SNP
RBBP8NL	140893	hgsc.bcm.edu	37	20	60989243	60989243	+	Silent	SNP	T	T	C	rs34446012	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	33.0	61.0	0.0	0.507692	0	T|0.996;C|0.004	0.004	strong	.	.	.	.	NM_080833	exon10	c.A1164G	p.L388L	GACTGGTAGGGAG	.	PASS	Atlas-SNP
NT5E	4907	hgsc.bcm.edu	37	6	86195098	86195098	+	Silent	SNP	C	C	T	rs35478984	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	47.0	109.0	0.0	0.431193	0	C|0.977;T|0.023	0.023	strong	.	NT5E	56	.	NM_001204813	exon4	c.C897T	p.N299N	AGGAAACGTCATC	.	PASS	Atlas-SNP
GHITM	27069	hgsc.bcm.edu	37	10	85902479	85902479	+	Silent	SNP	A	A	T	rs146877821	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	46.0	61.0	0.0	0.474227	0	A|0.995;T|0.005	0.005	strong	.	GHITM	30	.	NM_014394	exon3	c.A198T	p.A66A	GGCAGCATTGGAA	.	PASS	Atlas-SNP
RHPN1	114822	hgsc.bcm.edu	37	8	144464073	144464073	+	Missense_Mutation	SNP	G	G	A	rs34746679	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	79.0	125.0	0.0	0.568345	0	G|0.989;A|0.011	0.011	strong	RHPN1_ENST00000289013,NS,carcinoma,-1,2	RHPN1	76	2	NM_052924	exon14	c.G1732A	p.A578T	AAGGCTGCGGGAG	.	PASS	Atlas-SNP
BPI	671	hgsc.bcm.edu	37	20	36954790	36954790	+	Missense_Mutation	SNP	G	G	A	rs5743524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	52.0	143.0	0.0	0.422764	0	G|0.949;A|0.051	0.051	strong	.	BPI	67	.	NM_001725	exon10	c.G1129A	p.V377I	TTTGCCGTCCTCC	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	133953740	133953740	+	Missense_Mutation	SNP	A	A	C	rs61744749	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	311.0	147.0	292.0	1.0	0.472669	0.00342466	A|0.964;C|0.036	0.036	strong	TG,NS,carcinoma,+1,1	TG	416	1	NM_003235	exon26	c.A5186C	p.D1729A	CATGCGACCGTGA	.	PASS	Atlas-SNP
ZNF790	388536	hgsc.bcm.edu	37	19	37309790	37309790	+	Missense_Mutation	SNP	T	T	A	rs4369791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	19.0	48.0	0.0	0.463415	0	T|0.995;A|0.005	0.005	strong	.	ZNF790	89	.	NM_206894	exon5	c.A1456T	p.T486S	AAAAGGTCTTTCC	.	PASS	Atlas-SNP
SPRYD3	84926	hgsc.bcm.edu	37	12	53467230	53467230	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	22.0	53.0	0.0	0.407407	0	.	.	none	.	SPRYD3	29	.	NM_032840	exon6	c.C533A	p.S178Y	TCTGGGGACATGG	.	PASS	Atlas-SNP
BPHL	670	hgsc.bcm.edu	37	6	3152760	3152760	+	Missense_Mutation	SNP	T	T	C	rs2231370	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	84.0	146.0	0.0	0.5	0	T|0.949;C|0.051	0.051	strong	.	BPHL	32	.	NM_004332	exon7	c.T827C	p.L276S	TGCATTTGCGTTT	.	PASS	Atlas-SNP
HOXD3	3232	hgsc.bcm.edu	37	2	177034130	177034130	+	Silent	SNP	G	G	A	rs77818566	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	56.0	141.0	0.0	0.482759	0	G|0.949;A|0.051	0.051	strong	.	HOXD3	65	.	NM_006898	exon2	c.G288A	p.G96G	CACTGGGAACAGC	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101816873	101816873	+	Missense_Mutation	SNP	A	A	G	rs35642150	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	94.0	131.0	0.0	0.701493	0	A|0.988;G|0.012	0.012	strong	.	COL15A1	211	.	NM_001855	exon32	c.A2966G	p.K989R	GAGAGAAAGGATC	.	PASS	Atlas-SNP
FTO	79068	hgsc.bcm.edu	37	16	53922838	53922838	+	Missense_Mutation	SNP	C	C	T	rs16952624	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	326.0	156.0	299.0	0.0	0.478528	0	C|0.988;T|0.012	0.012	strong	FTO,NS,carcinoma,-1,1	FTO	51	1	NM_001080432	exon7	c.C1214T	p.A405V	TGGAAGCACTGTG	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88801457	88801457	+	Silent	SNP	G	G	A	rs115016757	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	36.0	85.0	0.0	0.409091	0	G|0.966;A|0.034	0.034	strong	.	PIEZO1	79	.	NM_001142864	exon14	c.C1674T	p.P558P	CCGCGTGGGCTCT	.	PASS	Atlas-SNP
NCAPD3	23310	hgsc.bcm.edu	37	11	134048592	134048592	+	Missense_Mutation	SNP	G	G	T	rs34739733	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	66.0	106.0	0.0	0.478261	0	G|0.995;T|0.005	0.005	strong	.	NCAPD3	141	.	NM_015261	exon22	c.C2719A	p.P907T	GGGGGGGTGGCTG	.	PASS	Atlas-SNP
RGS13	6003	hgsc.bcm.edu	37	1	192628623	192628623	+	Missense_Mutation	SNP	G	G	C	rs16834603	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	94.0	156.0	0.0	0.519337	0	G|0.955;C|0.045	0.045	strong	.	RGS13	31	.	NM_002927	exon7	c.G450C	p.L150F	ACTTTTGAAAACT	.	PASS	Atlas-SNP
OR1E2	8388	hgsc.bcm.edu	37	17	3336699	3336699	+	Missense_Mutation	SNP	C	C	G	rs78339092	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	96.0	225.0	0.0	0.421053	0	C|0.987;G|0.013	0.013	strong	OR1E2,right_upper_lobe,carcinoma,+1,1	OR1E2	25	1	NM_003554	exon1	c.G437C	p.S146T	ATGGGGCTCATGA	.	PASS	Atlas-SNP
TMPRSS11B	132724	hgsc.bcm.edu	37	4	69098115	69098115	+	Silent	SNP	A	A	G	rs10018067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	80.0	114.0	0.0	0.506329	0	A|0.973;G|0.027	0.027	strong	.	TMPRSS11B	66	.	NM_182502	exon6	c.T489C	p.S163S	CATTTCAGAAGCA	.	PASS	Atlas-SNP
SNAI1	6615	hgsc.bcm.edu	37	20	48600475	48600475	+	Missense_Mutation	SNP	C	C	T	rs34261470	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	19.0	43.0	0.0	0.38	0	C|0.979;T|0.021	0.021	strong	.	SNAI1	28	.	NM_005985	exon2	c.C197T	p.A66V	TCCTGGCGCCCCA	.	PASS	Atlas-SNP
ADAM19	8728	hgsc.bcm.edu	37	5	156964944	156964944	+	Missense_Mutation	SNP	G	G	C	rs11134804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	44.0	91.0	0.0	0.483516	0	G|0.965;C|0.035	0.035	strong	.	ADAM19	216	.	NM_033274	exon4	c.C307G	p.Q103E	TGGTTTGAGGGTT	.	PASS	Atlas-SNP
NOTCH2NL	388677	hgsc.bcm.edu	37	1	145281413	145281413	+	Missense_Mutation	SNP	G	G	A	rs76765512	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1480.0	388.0	1344.0	2.0	0.262162	0.0014881	G|0.980;A|0.020	0.020	strong	.	NOTCH2NL	100	.	NM_203458	exon4	c.G343A	p.A115T	CCCTGTGCAAATG	.	PASS	Atlas-SNP
ARSK	153642	hgsc.bcm.edu	37	5	94936744	94936744	+	Silent	SNP	G	G	A	rs61733083	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	56.0	112.0	0.0	0.430769	0	G|0.990;A|0.010	0.010	strong	.	ARSK	29	.	NM_198150	exon7	c.G1290A	p.S430S	CTATTCGGATGGT	.	PASS	Atlas-SNP
GPRIN2	9721	hgsc.bcm.edu	37	10	46999385	46999385	+	Missense_Mutation	SNP	C	C	T	rs113256776	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	15.0	37.0	0.0	0.214286	0	C|0.975;T|0.025	0.025	strong	.	GPRIN2	94	.	NM_014696	exon3	c.C505T	p.P169S	CAGGCCCCTGCAG	.	PASS	Atlas-SNP
SLC2A8	29988	hgsc.bcm.edu	37	9	130162230	130162230	+	Silent	SNP	C	C	G	rs36057295	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	32.0	155.0	0.0	0.296296	0	C|0.975;G|0.025	0.025	strong	.	SLC2A8	27	.	NM_014580	exon4	c.C471G	p.L157L	GTTGCTCGGCTCC	.	PASS	Atlas-SNP
NARS2	79731	hgsc.bcm.edu	37	11	78279744	78279744	+	Silent	SNP	T	T	C	rs60510975	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	97.0	185.0	0.0	0.502591	0	T|0.960;C|0.040	0.040	strong	NARS2,lower_third,carcinoma,-2,1	NARS2	62	1	NM_024678	exon3	c.A306G	p.P102P	TTTGGATGGACTT	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90461235	90461235	+	Missense_Mutation	SNP	T	T	C	rs115558420	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	90.0	165.0	0.0	0.483871	0	T|0.997;C|0.003	0.003	strong	MDN1,NS,carcinoma,+2,1	MDN1	478	1	NM_014611	exon23	c.A3142G	p.K1048E	GCTCCTTGTCTCC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179594590	179594590	+	Silent	SNP	T	T	A	rs66523653	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	237.0	118.0	253.0	0.0	0.49789	0	T|0.984;A|0.016	0.016	strong	.	TTN	18412	.	NM_001267550	exon63	c.A18390T	p.T6130T	AGTGCCTGTTATT	.	PASS	Atlas-SNP
TJP2	9414	hgsc.bcm.edu	37	9	71851080	71851080	+	Silent	SNP	C	C	T	rs12340440	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	36.0	54.0	1.0	0.631579	0.0185185	C|0.983;T|0.017	0.017	strong	TJP2,colon,carcinoma,0,1	TJP2	120	1	NM_001170416	exon13	c.C2010T	p.D670D	GTATGACGGCAAG	.	scavenged	Atlas-SNP
ZNF598	90850	hgsc.bcm.edu	37	16	2050151	2050151	+	Silent	SNP	A	A	G	rs114023844	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	19.0	35.0	0.0	0.44186	0	A|0.978;G|0.022	0.022	strong	.	ZNF598	55	.	NM_178167	exon11	c.T1399C	p.L467L	GCGCCAACCCCAC	.	PASS	Atlas-SNP
MAP1B	4131	hgsc.bcm.edu	37	5	71489695	71489695	+	Silent	SNP	C	C	T	rs2227915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	28.0	52.0	0.0	0.571429	0	C|0.968;T|0.032	0.032	strong	.	MAP1B	243	.	NM_005909	exon5	c.C513T	p.I171I	CCAGATCGGGGAG	.	PASS	Atlas-SNP
ARL11	115761	hgsc.bcm.edu	37	13	50205165	50205165	+	Missense_Mutation	SNP	G	G	C	rs35835937	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	91.0	167.0	0.0	0.56875	0	G|0.993;C|0.007	0.007	strong	.	ARL11	26	.	NM_138450	exon2	c.G582C	p.K194N	CAGCAAGAGATCT	.	PASS	Atlas-SNP
ZPBP2	124626	hgsc.bcm.edu	37	17	38028635	38028635	+	Silent	SNP	T	T	C	rs61737283	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	48.0	76.0	0.0	0.539326	0	T|0.868;C|0.132	0.132	strong	.	ZPBP2	33	.	NM_199321	exon5	c.T519C	p.S173S	GGATAGTCTAATT	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84924783	84924783	+	Missense_Mutation	SNP	G	G	C	rs73943384	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	37.0	77.0	0.0	0.493333	0	G|0.989;C|0.011	0.011	strong	.	DNAH6	194	.	NM_001370	exon47	c.G7609C	p.E2537Q	GAACTGGAGCAGG	.	PASS	Atlas-SNP
GABRB1	2560	hgsc.bcm.edu	37	4	47408850	47408850	+	Silent	SNP	C	C	T	rs115114447	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	235.0	222.0	0.0	1	0	C|0.982;T|0.018	0.018	strong	GABRB1,colon,carcinoma,+1,1	GABRB1	107	1	NM_000812	exon8	c.C987T	p.Y329Y	AAATTACATCTTC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124417989	124417989	+	Missense_Mutation	SNP	C	C	T	rs61746561	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	43.0	76.0	0.0	0.409524	0	C|0.991;T|0.009	0.009	strong	.	DNAH10	888	.	NM_207437	exon76	c.C13054T	p.R4352C	CTGGACCGCTCCA	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057635	46057635	+	Missense_Mutation	SNP	G	G	A	rs114397261	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	273.0	120.0	204.0	0.0	0.43956	0	G|0.928;A|0.072	0.072	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.G301A	p.V101M	TGCTGTGTGCCCG	.	PASS	Atlas-SNP
UNC5B	219699	hgsc.bcm.edu	37	10	73039594	73039594	+	Silent	SNP	C	C	T	rs80333477	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	177.0	97.0	147.0	0.0	0.548023	0	C|0.987;T|0.013	0.013	strong	.	UNC5B	123	.	NM_001244889	exon2	c.C96T	p.S32S	TGGCAGCGAGGTG	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37245935	37245935	+	Missense_Mutation	SNP	C	C	T	rs73750959	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	36.0	87.0	0.0	0.486486	0	C|0.980;T|0.020	0.020	strong	.	C5orf42	422	.	NM_023073	exon3	c.G94A	p.V32I	GAAAAACGGCTTC	.	PASS	Atlas-SNP
N4BP2	55728	hgsc.bcm.edu	37	4	40122377	40122377	+	Missense_Mutation	SNP	G	G	A	rs78767806	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	240.0	104.0	250.0	0.0	0.433333	0	G|0.975;A|0.025	0.025	strong	.	N4BP2	166	.	NM_018177	exon9	c.G2646A	p.M882I	CATTATGGGTGAC	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89857880	89857880	+	Silent	SNP	C	C	T	rs1800332	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	37.0	86.0	0.0	0.385417	0	C|0.967;T|0.033	0.033	strong	FANCA,NS,lymphoid_neoplasm,-1,1	FANCA	99	1	NM_000135	exon14	c.G1290A	p.A430A	CAGGAACGCAGTG	.	PASS	Atlas-SNP
COL28A1	340267	hgsc.bcm.edu	37	7	7571420	7571420	+	Silent	SNP	T	T	C	rs17168526	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	318.0	131.0	283.0	0.0	0.41195	0	T|0.969;C|0.031	0.031	strong	.	COL28A1	113	.	NM_001037763	exon3	c.A240G	p.Q80Q	AGTCAATTGGAAA	.	PASS	Atlas-SNP
FAM214A	56204	hgsc.bcm.edu	37	15	52901887	52901887	+	Silent	SNP	A	A	G	rs75512966	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	29.0	47.0	0.0	0.5	0	A|0.981;G|0.019	0.019	strong	.	.	.	.	NM_019600	exon6	c.T1224C	p.L408L	CCGGAAAAGTTTT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134622046	134622046	+	Missense_Mutation	SNP	C	C	T	rs73387072	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	72.0	94.0	0.0	0.585366	0	C|0.975;T|0.025	0.025	strong	.	TTC40	100	.	NM_001200049	exon58	c.G8027A	p.R2676H	CCCCGACGCAGAC	.	PASS	Atlas-SNP
OR2K2	26248	hgsc.bcm.edu	37	9	114089883	114089883	+	Silent	SNP	G	G	A	rs61748722	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	123.0	167.0	0.0	0.719298	0	G|0.982;A|0.018	0.018	strong	.	OR2K2	77	.	NM_205859	exon1	c.C831T	p.Y277Y	CACTCCGTAAAGC	.	PASS	Atlas-SNP
ATP10A	57194	hgsc.bcm.edu	37	15	25928508	25928508	+	Silent	SNP	C	C	T	rs142960034	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	73.0	142.0	0.0	0.493243	0	C|0.996;T|0.004	0.004	strong	.	ATP10A	270	.	NM_024490	exon17	c.G3417A	p.G1139G	CAGCACCCCAGTC	.	PASS	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	37	5	140209429	140209429	+	Missense_Mutation	SNP	C	C	G	rs60309716	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	274.0	141.0	210.0	0.0	0.514599	0	C|0.940;G|0.060	0.060	strong	.	PCDHA6	442	.	NM_018909	exon1	c.C1753G	p.L585V	CGGTCACTGGGTG	.	PASS	Atlas-SNP
EIF4G3	8672	hgsc.bcm.edu	37	1	21177800	21177800	+	Missense_Mutation	SNP	A	A	T	rs2230572	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	101.0	172.0	0.0	0.51269	0	A|0.995;T|0.005	0.005	strong	EIF4G3_ENST00000374937,NS,carcinoma,-2,2	EIF4G3	300	2	NM_001198801	exon26	c.T3663A	p.D1221E	CTCCACATCCACA	.	PASS	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45750725	45750725	+	Missense_Mutation	SNP	G	G	A	rs148023924	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	79.0	166.0	0.0	0.49375	0	G|0.997;A|0.003	0.003	strong	.	C21orf2	10	.	NM_004928	exon6	c.C623T	p.S208L	CTGCTCGAGGCAT	.	PASS	Atlas-SNP
SEC14L5	9717	hgsc.bcm.edu	37	16	5050678	5050678	+	Silent	SNP	C	C	T	rs61745575	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	50.0	125.0	0.0	0.480769	0	C|0.975;T|0.025	0.025	strong	SEC14L5,NS,carcinoma,+2,1	SEC14L5	79	1	NM_014692	exon9	c.C993T	p.L331L	CATCCTCCGCCTG	.	PASS	Atlas-SNP
TRIM67	440730	hgsc.bcm.edu	37	1	231298970	231298970	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	17.0	5.0	11.0	0.0	0.294118	0	.	.	none	.	TRIM67	160	.	NM_001004342	exon1	c.T255C	p.A85A	TGCAGCTGGCGGC	.	PASS	Atlas-SNP
SGMS2	166929	hgsc.bcm.edu	37	4	108816880	108816880	+	Silent	SNP	G	G	A	rs150784082	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	52.0	101.0	0.0	0.530612	0	G|0.996;A|0.004	0.004	strong	.	SGMS2	39	.	NM_001136257	exon2	c.G171A	p.P57P	GTACCCGGACTAT	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24259600	24259600	+	Missense_Mutation	SNP	C	C	T	rs76707982	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	39.0	53.0	0.0	0.639344	0	C|0.983;T|0.017	0.017	strong	ADAMDEC1_ENST00000256412,NS,malignant_melanoma,-1,1	ADAMDEC1	69	1	NM_014479	exon12	c.C1315T	p.P439S	GGCTCTCCTAAGG	.	PASS	Atlas-SNP
AMN	81693	hgsc.bcm.edu	37	14	103395212	103395212	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	54.0	45.0	0.0	0.580645	0	.	.	none	.	AMN	13	.	NM_030943	exon5	c.G413T	p.R138L	CCTGCCGCCACGA	.	PASS	Atlas-SNP
ROGDI	79641	hgsc.bcm.edu	37	16	4849726	4849726	+	Missense_Mutation	SNP	G	G	C	rs143095485	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	59.0	119.0	0.0	0.457364	0	G|0.980;C|0.020	0.020	strong	.	ROGDI	11	.	NM_024589	exon6	c.C393G	p.D131E	GCTCTGGTCCCGG	.	PASS	Atlas-SNP
HOXB8	3218	hgsc.bcm.edu	37	17	46690623	46690623	+	Missense_Mutation	SNP	G	G	C	rs112046402	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	65.0	143.0	0.0	0.460993	0	G|0.977;C|0.023	0.023	strong	.	HOXB8	26	.	NM_024016	exon2	c.C673G	p.L225V	GCTCCAGCTTCTG	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	37	15	27222266	27222266	+	Silent	SNP	A	A	G	rs35752220	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	53.0	105.0	0.0	0.434426	0	A|0.970;G|0.030	0.030	strong	.	GABRG3	115	.	NM_001270873	exon2	c.A171G	p.E57E	AAGAGAATATGAT	.	PASS	Atlas-SNP
KIAA1199	57214	hgsc.bcm.edu	37	15	81172064	81172064	+	Silent	SNP	G	G	A	rs35541581	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	62.0	112.0	0.0	0.496	0	G|0.928;A|0.072	0.072	strong	.	KIAA1199	118	.	NM_018689	exon4	c.G249A	p.L83L	CAAGCTGGTCATT	.	PASS	Atlas-SNP
CYB561	1534	hgsc.bcm.edu	37	17	61513509	61513509	+	Silent	SNP	C	C	T	rs35447397	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	85.0	0.0	0.460526	0	C|0.989;T|0.011	0.011	strong	.	CYB561	15	.	NM_001915	exon3	c.G207A	p.L69L	AACCAGCAGGGCT	.	PASS	Atlas-SNP
ATF6B	1388	hgsc.bcm.edu	37	6	32093922	32093922	+	Silent	SNP	G	G	A	rs204894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	70.0	120.0	0.0	0.530303	0	G|0.945;A|0.055	0.055	strong	.	ATF6B	40	.	NM_004381	exon5	c.C450T	p.N150N	GATAACGTTGATC	.	PASS	Atlas-SNP
CDK12	51755	hgsc.bcm.edu	37	17	37682200	37682200	+	Missense_Mutation	SNP	A	A	G	rs61747430	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	239.0	106.0	202.0	0.0	0.443515	0	A|0.989;G|0.011	0.011	strong	.	CDK12	161	.	NM_016507	exon13	c.A3391G	p.I1131V	CTGAGCATCCCTC	.	PASS	Atlas-SNP
NR1I2	8856	hgsc.bcm.edu	37	3	119530546	119530546	+	Silent	SNP	T	T	C	rs12721611	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	48.0	83.0	0.0	0.539326	0	T|0.981;C|0.019	0.019	strong	.	NR1I2	44	.	NM_022002	exon4	c.T609C	p.T203T	TGACACTACCTTC	.	PASS	Atlas-SNP
PCDHB2	56133	hgsc.bcm.edu	37	5	140475514	140475514	+	Missense_Mutation	SNP	C	C	A	rs73793576	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	72.0	135.0	0.0	0.521739	0	C|0.991;A|0.009	0.009	strong	.	PCDHB2	163	.	NM_018936	exon1	c.C1140A	p.N380K	AGACAACGGAAGG	.	PASS	Atlas-SNP
KIF5C	3800	hgsc.bcm.edu	37	2	149861927	149861927	+	Silent	SNP	G	G	A	rs184488465	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	44.0	69.0	0.0	0.666667	0	G|0.999;A|0.001	0.001	strong	.	KIF5C	166	.	NM_004522	exon22	c.G2394A	p.L798L	GACACTGCACAAC	.	PASS	Atlas-SNP
BRD7	29117	hgsc.bcm.edu	37	16	50368670	50368670	+	Missense_Mutation	SNP	C	C	A	rs113038433	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	59.0	136.0	0.0	0.307292	0	C|0.988;A|0.012	0.012	strong	.	BRD7	61	.	NM_013263	exon7	c.G839T	p.G280V	GCATCTCCAGAGT	.	PASS	Atlas-SNP
PPP1R12C	54776	hgsc.bcm.edu	37	19	55607447	55607447	+	Silent	SNP	G	G	A	rs35641913	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	20.0	29.0	0.0	0.5	0	G|0.976;A|0.024	0.024	strong	PPP1R12C,NS,carcinoma,0,1	PPP1R12C	46	1	NM_017607	exon8	c.C1125T	p.D375D	ATCCTCGTCCTGG	.	PASS	Atlas-SNP
ANGPT4	51378	hgsc.bcm.edu	37	20	854973	854973	+	Silent	SNP	T	T	G	rs62641668	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	103.0	176.0	0.0	0.476852	0	T|0.983;G|0.017	0.017	strong	ANGPT4,bladder,carcinoma,-1,1	ANGPT4	77	1	NM_015985	exon8	c.A1305C	p.S435S	GTTGTCTGAGTCA	.	PASS	Atlas-SNP
ARHGEF10	9639	hgsc.bcm.edu	37	8	1808343	1808343	+	Silent	SNP	C	C	T	rs147914724	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	41.0	67.0	0.0	0.431579	0	C|0.999;T|0.001	0.001	strong	ARHGEF10_ENST00000398564,colon,carcinoma,0,1	ARHGEF10	255	1	NM_014629	exon4	c.C474T	p.D158D	CCTGGACGAAGAA	.	PASS	Atlas-SNP
CCNG2	901	hgsc.bcm.edu	37	4	78079768	78079768	+	Missense_Mutation	SNP	A	A	G	rs4150051	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	61.0	132.0	0.0	0.488	0	A|0.996;G|0.004	0.004	strong	.	CCNG2	27	.	NM_004354	exon2	c.A83G	p.E28G	AACAAGAAGAGAG	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43922535	43922535	+	Missense_Mutation	SNP	C	C	T	rs116482551	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	47.0	84.0	0.0	0.54023	0	C|0.995;T|0.005	0.005	strong	.	.	.	.	NM_175882	exon1	c.C263T	p.P88L	AGCGGCCCCTCCG	.	PASS	Atlas-SNP
GBGT1	26301	hgsc.bcm.edu	37	9	136029474	136029474	+	Silent	SNP	C	C	T	rs35808997	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	69.0	88.0	0.0	0.584746	0	C|0.934;T|0.066	0.066	strong	.	GBGT1	25	.	NM_021996	exon7	c.G534A	p.E178E	GGATGTCTCCTCC	.	PASS	Atlas-SNP
SYT8	90019	hgsc.bcm.edu	37	11	1858076	1858076	+	Missense_Mutation	SNP	C	C	T	rs115217397	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	21.0	55.0	0.0	0.368421	0	C|0.991;T|0.009	0.009	strong	.	SYT8	29	.	NM_138567	exon7	c.C817T	p.R273C	GGCCTGCGTCCAG	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11094903	11094903	+	Missense_Mutation	SNP	G	G	A	rs145867502	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	36.0	58.0	0.0	0.473684	0	G|0.999;A|0.001	0.001	strong	.	SMARCA4	502	.	NM_003072	exon2	c.G76A	p.A26T	CCTGGAGCCATGC	.	PASS	Atlas-SNP
TSSK2	23617	hgsc.bcm.edu	37	22	19118992	19118992	+	Missense_Mutation	SNP	A	A	G	rs3747052	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	60.0	107.0	0.0	0.631579	0	A|0.959;G|0.041	0.041	strong	.	TSSK2	29	.	NM_053006	exon1	c.A80G	p.K27R	AAGTCAAATCTGC	.	PASS	Atlas-SNP
DHRS2	10202	hgsc.bcm.edu	37	14	24114490	24114490	+	Silent	SNP	G	G	A	rs7150155	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	39.0	61.0	1.0	0.549296	0.0163934	G|0.966;A|0.034	0.034	strong	DHRS2_ENST00000344777,NS,carcinoma,+1,1	DHRS2	78	1	NM_182908	exon9	c.G882A	p.V294V	AGCTGTGGTCCCA	.	scavenged	Atlas-SNP
GFM1	85476	hgsc.bcm.edu	37	3	158372389	158372389	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	62.0	110.0	0.0	0.488189	0	.	.	none	.	GFM1	83	.	NM_024996	exon8	c.A1052C	p.H351P	ATTCCCACCCATT	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84778261	84778261	+	Silent	SNP	G	G	A	rs77170713	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	77.0	119.0	0.0	0.531034	0	G|0.997;A|0.003	0.003	strong	.	USP10	51	.	NM_001272075	exon5	c.G186A	p.E62E	AATTGAGTTTGGT	.	PASS	Atlas-SNP
NUP88	4927	hgsc.bcm.edu	37	17	5291126	5291126	+	Missense_Mutation	SNP	T	T	C	rs149760662	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	61.0	86.0	0.0	0.512605	0	T|0.998;C|0.002	0.002	strong	.	NUP88	47	.	NM_002532	exon12	c.A1742G	p.D581G	GCCAAGTCCTGTT	.	PASS	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	37	16	10527404	10527404	+	Missense_Mutation	SNP	G	G	A	rs141089693	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	81.0	152.0	0.0	0.509434	0	G|0.999;A|0.001	0.001	strong	.	ATF7IP2	40	.	NM_024997	exon4	c.G858A	p.M286I	GAGGATGTTTTCA	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27356271	27356271	+	Silent	SNP	T	T	C	rs112497527	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	50.0	127.0	0.0	0.45045	0	T|0.988;C|0.012	0.012	strong	.	IL4R	70	.	NM_000418	exon5	c.T291C	p.D97D	TGCGGATAACTAT	.	PASS	Atlas-SNP
MRPL28	10573	hgsc.bcm.edu	37	16	417691	417691	+	Missense_Mutation	SNP	C	C	G	rs114486517	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	69.0	119.0	0.0	0.514925	0	C|0.937;G|0.063	0.063	strong	.	MRPL28	15	.	NM_006428	exon6	c.G755C	p.R252T	CTGGCTCTCTTCT	.	PASS	Atlas-SNP
EIF3M	10480	hgsc.bcm.edu	37	11	32622233	32622233	+	Splice_Site	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	12.0	86.0	0.0	0.111111	0	.	.	none	.	EIF3M	37	.	NM_006360	exon9	c.800-2A>T	.	TTTTCTAGGCCTG	.	PASS	Atlas-SNP
TMEM232	642987	hgsc.bcm.edu	37	5	109904249	109904249	+	Missense_Mutation	SNP	C	C	T	rs61734250	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	97.0	213.0	0.0	0.482587	0	C|0.977;T|0.023	0.023	strong	TMEM232_ENST00000455884,rectum,carcinoma,0,2	TMEM232	57	2	NM_001039763	exon11	c.G1354A	p.E452K	GTTCTTCGTCTCC	.	PASS	Atlas-SNP
LHFPL2	10184	hgsc.bcm.edu	37	5	77784810	77784810	+	Silent	SNP	A	A	C	rs35110604	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	83.0	163.0	0.0	0.497006	0	A|0.982;C|0.018	0.018	strong	.	LHFPL2	9	.	NM_005779	exon5	c.T597G	p.A199A	GAAGACAGCACAG	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133761001	133761001	+	Silent	SNP	A	A	G	rs1056171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	122.0	141.0	1.0	1	0.0070922	A|0.391;G|0.609	0.609	strong	ABL1,scalp,carcinoma,+2,1	ABL1	1632	1	NM_007313	exon11	c.A3381G	p.P1127P	TGGTCCAGCGGCC	.	PASS	Atlas-SNP
AKTIP	64400	hgsc.bcm.edu	37	16	53526366	53526366	+	Silent	SNP	T	T	C	rs16952272	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	87.0	180.0	0.0	0.472826	0	T|0.990;C|0.010	0.010	strong	.	AKTIP	16	.	NM_022476	exon10	c.A837G	p.S279S	CTGTACTGAGCCA	.	PASS	Atlas-SNP
SLC9A4	389015	hgsc.bcm.edu	37	2	103148868	103148868	+	Silent	SNP	G	G	A	rs59687519	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	59.0	80.0	0.0	0.578431	0	G|0.981;A|0.019	0.019	strong	.	SLC9A4	115	.	NM_001011552	exon12	c.G2118A	p.E706E	GCAAGAGGCACAA	.	PASS	Atlas-SNP
TRPS1	7227	hgsc.bcm.edu	37	8	116631902	116631902	+	Silent	SNP	C	C	A	rs7823278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	110.0	97.0	0.0	1	0	C|0.873;A|0.127	0.127	strong	TRPS1_ENST00000395715,NS,carcinoma,-1,2	TRPS1	516	2	NM_014112	exon3	c.G423T	p.P141P	TCTTTGCGGAGAC	.	PASS	Atlas-SNP
PIDD	55367	hgsc.bcm.edu	37	11	800186	800186	+	Missense_Mutation	SNP	C	C	T	rs148849040	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	41.0	61.0	0.0	0.683333	0	C|1.000;T|0.000	0.000	weak	.	PIDD	76	.	NM_145886	exon14	c.G2219A	p.R740Q	CTCTGCCGGGCAG	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39265558	39265558	+	Silent	SNP	T	T	A	rs41292757	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	61.0	101.0	0.0	0.476562	0	T|0.972;A|0.028	0.028	strong	.	FREM2	385	.	NM_207361	exon1	c.T4077A	p.G1359G	TACTGGTGCCTTT	.	PASS	Atlas-SNP
C4orf22	255119	hgsc.bcm.edu	37	4	81866010	81866010	+	Missense_Mutation	SNP	A	A	C	rs201959026	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	328.0	148.0	282.0	1.0	0.451219	0.0035461	.	.	weak	.	C4orf22	35	.	NM_001206997	exon6	c.A574C	p.N192H	AGTCCCAACTATC	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225152298	225152298	+	Missense_Mutation	SNP	A	A	T	rs79645812	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	47.0	134.0	0.0	0.484536	0	A|0.995;T|0.005	0.005	strong	.	DNAH14	300	.	NM_144989	exon5	c.A485T	p.K162M	TTCAGAAGATTAC	.	PASS	Atlas-SNP
PEPD	5184	hgsc.bcm.edu	37	19	33968991	33968991	+	Missense_Mutation	SNP	T	T	A	rs61748998	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	80.0	194.0	0.0	0.509554	0	T|0.978;A|0.022	0.022	strong	.	PEPD	48	.	NM_000285	exon7	c.A509T	p.E170V	TTGACTTCGAACC	.	PASS	Atlas-SNP
LRGUK	136332	hgsc.bcm.edu	37	7	133881794	133881794	+	Silent	SNP	T	T	C	rs35258804	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	54.0	135.0	0.0	0.55102	0	T|0.963;C|0.037	0.037	strong	.	LRGUK	113	.	NM_144648	exon13	c.T1482C	p.N494N	ATTAAATAGGGAC	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42179424	42179424	+	Missense_Mutation	SNP	C	C	T	rs890499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	274.0	140.0	231.0	0.0	0.510949	0	C|0.929;T|0.071	0.071	strong	.	SPTBN5	171	.	NM_016642	exon6	c.G770A	p.R257K	AGTCTCCTCTGGA	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229783361	229783361	+	Silent	SNP	C	C	T	rs137900306	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	74.0	168.0	0.0	0.521127	0	C|0.999;T|0.001	0.001	strong	.	URB2	152	.	NM_014777	exon7	c.C4011T	p.I1337I	GGCCATCGGCAAC	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32032689	32032689	+	Silent	SNP	C	C	T	rs35206129	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	64.0	128.0	0.0	0.481203	0	C|0.995;T|0.005	0.005	strong	.	TNXB	553	.	NM_019105	exon19	c.G6750A	p.S2250S	CAGGCCCGAGATG	.	PASS	Atlas-SNP
RXRB	6257	hgsc.bcm.edu	37	6	33162507	33162507	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	42.0	60.0	0.0	0.466667	0	.	.	none	RXRB,colon,carcinoma,0,1	RXRB	34	1	NM_001270401	exon10	c.C1566T	p.I522I	GGTGTCGATGGGG	.	PASS	Atlas-SNP
NSFL1C	55968	hgsc.bcm.edu	37	20	1433171	1433171	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	34.0	99.0	0.0	0.354167	0	.	.	none	.	NSFL1C	38	.	NM_016143	exon7	c.A752G	p.K251R	AAGGCTTTGAAGG	.	PASS	Atlas-SNP
AP4E1	23431	hgsc.bcm.edu	37	15	51233881	51233881	+	Missense_Mutation	SNP	A	A	G	rs58909326	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	62.0	114.0	0.0	0.484375	0	A|0.982;G|0.018	0.018	strong	.	AP4E1	78	.	NM_007347	exon10	c.A1085G	p.Y362C	TTACCTATGTTAT	.	PASS	Atlas-SNP
SLCO4A1	28231	hgsc.bcm.edu	37	20	61292475	61292475	+	Missense_Mutation	SNP	C	C	T	rs201057493	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	25.0	40.0	0.0	0.403226	0	C|1.000;T|0.000	0.000	strong	SLCO4A1,uveal_tract,malignant_melanoma,0,1	SLCO4A1	65	1	NM_016354	exon5	c.C1069T	p.R357C	AGCAGCCGTGGGG	.	PASS	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127230864	127230864	+	Missense_Mutation	SNP	G	G	A	rs7854446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	119.0	174.0	1.0	0.983471	0.00574713	G|0.967;A|0.033	0.033	strong	.	GPR144	33	.	NM_001161808	exon14	c.G2221A	p.V741M	ATGCTGGTGGAGG	.	PASS	Atlas-SNP
CASP4	837	hgsc.bcm.edu	37	11	104819333	104819333	+	Missense_Mutation	SNP	C	C	A	rs55901059	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	86.0	147.0	0.0	0.609929	0	C|0.979;A|0.021	0.021	strong	.	CASP4	57	.	NM_001225	exon6	c.G852T	p.E284D	TAGGTTCTCAGAT	.	PASS	Atlas-SNP
BRDT	676	hgsc.bcm.edu	37	1	92445179	92445179	+	Missense_Mutation	SNP	G	G	A	rs114276662	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	92.0	195.0	0.0	0.446602	0	G|0.995;A|0.005	0.005	strong	.	BRDT	133	.	NM_001242806	exon8	c.G1164A	p.M388I	GAGTATGCCTTTA	.	PASS	Atlas-SNP
UBA5	79876	hgsc.bcm.edu	37	3	132384704	132384704	+	Missense_Mutation	SNP	G	G	A	rs61748106	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	44.0	102.0	0.0	0.444444	0	G|0.999;A|0.001	0.001	strong	UBA5,colon,carcinoma,0,1	UBA5	33	1	NM_024818	exon2	c.G199A	p.D67N	GTAAGCGACTATG	.	PASS	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	37	8	52321293	52321293	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	54.0	106.0	0.0	0.524272	0	.	.	none	.	PXDNL	414	.	NM_144651	exon17	c.A2891T	p.H964L	GCCAGATGCTCGT	.	PASS	Atlas-SNP
ND4L	0	hgsc.bcm.edu	37	MT	10688	10688	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	9.0	11.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361335	exon1	c.G219A	p.V73V	AGCGGTGGGCCTA	.	PASS	Atlas-SNP
PKMYT1	9088	hgsc.bcm.edu	37	16	3023185	3023185	+	Missense_Mutation	SNP	G	G	A	rs150931982	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	48.0	65.0	0.0	0.444444	0	G|0.995;A|0.005	0.005	strong	.	PKMYT1	23	.	NM_004203	exon8	c.C1342T	p.R448W	CAGTCCGGGCCAG	.	PASS	Atlas-SNP
IGF2R	3482	hgsc.bcm.edu	37	6	160482929	160482929	+	Missense_Mutation	SNP	C	C	G	rs8191844	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	73.0	156.0	0.0	0.480263	0	C|0.991;G|0.009	0.009	strong	.	IGF2R	251	.	NM_000876	exon25	c.C3551G	p.T1184S	TCTCCACCAGGAT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13841066	13841066	+	Silent	SNP	G	G	A	rs6880264	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	63.0	127.0	0.0	0.446809	0	G|0.985;A|0.015	0.015	strong	.	DNAH5	868	.	NM_001369	exon34	c.C5658T	p.Y1886Y	AGTCTCGTATTTC	.	PASS	Atlas-SNP
LRRFIP2	9209	hgsc.bcm.edu	37	3	37154417	37154417	+	Missense_Mutation	SNP	T	T	C	rs34902788	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	16.0	43.0	0.0	0.347826	0	T|0.987;C|0.013	0.013	strong	.	LRRFIP2	71	.	NM_006309	exon9	c.A427G	p.K143E	GGTCTTTATGAGA	.	PASS	Atlas-SNP
NR1D1	9572	hgsc.bcm.edu	37	17	38253469	38253469	+	Silent	SNP	G	G	A	rs9905506	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	84.0	153.0	0.0	0.477273	0	G|0.979;A|0.021	0.021	strong	.	NR1D1	45	.	NM_021724	exon2	c.C219T	p.P73P	CAGGCTGGGTGGA	.	PASS	Atlas-SNP
DDX51	317781	hgsc.bcm.edu	37	12	132625884	132625884	+	Missense_Mutation	SNP	C	C	T	rs142395492	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	18.0	13.0	0.0	0.642857	0	C|0.992;T|0.008	0.008	strong	.	DDX51	33	.	NM_175066	exon8	c.G1186A	p.E396K	GGTCCTCGCTCTG	.	PASS	Atlas-SNP
NCAM2	4685	hgsc.bcm.edu	37	21	22790831	22790831	+	Silent	SNP	T	T	C	rs986371	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	290.0	139.0	237.0	0.0	0.47931	0	T|0.992;C|0.008	0.008	strong	.	NCAM2	220	.	NM_004540	exon11	c.T1422C	p.N474N	CTATAATTGCACA	.	PASS	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3674170	3674170	+	Silent	SNP	G	G	A	rs61734520	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	69.0	130.0	0.0	0.579832	0	G|0.980;A|0.020	0.020	strong	.	SIGLEC1	210	.	NM_023068	exon13	c.C3432T	p.A1144A	GGAGGTGGCATCC	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20070349	20070349	+	Silent	SNP	C	C	T	rs78806867	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	76.0	141.0	0.0	0.490323	0	C|0.988;T|0.012	0.012	strong	.	NAV2	255	.	NM_001244963	exon16	c.C4047T	p.S1349S	CATCTCCAATCCT	.	PASS	Atlas-SNP
ANKRD16	54522	hgsc.bcm.edu	37	10	5920244	5920244	+	Missense_Mutation	SNP	T	T	C	rs61729846	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	30.0	33.0	0.0	0.638298	0	T|0.928;C|0.072	0.072	strong	.	ANKRD16	32	.	NM_001009941	exon7	c.A935G	p.H312R	GCCAGATGCAGGG	.	PASS	Atlas-SNP
FASTKD1	79675	hgsc.bcm.edu	37	2	170403106	170403106	+	Silent	SNP	G	G	A	rs16857030	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	70.0	228.0	0.0	0.404624	0	G|0.902;A|0.098	0.098	strong	.	FASTKD1	86	.	NM_024622	exon8	c.C1323T	p.A441A	TAAAACGGCTTCA	.	PASS	Atlas-SNP
MTMR3	8897	hgsc.bcm.edu	37	22	30403307	30403307	+	Silent	SNP	C	C	T	rs146523702	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	64.0	63.0	0.0	1	0	C|0.997;T|0.003	0.003	strong	MTMR3_ENST00000401950,NS,lymphoid_neoplasm,+2,1	MTMR3	106	1	NM_021090	exon10	c.C876T	p.F292F	GGAGTTCGGTAAG	.	PASS	Atlas-SNP
CYP4F11	57834	hgsc.bcm.edu	37	19	16024605	16024605	+	Silent	SNP	C	C	G	rs75284625	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	81.0	130.0	0.0	0.54	0	C|0.990;G|0.010	0.010	strong	.	CYP4F11	83	.	NM_001128932	exon13	c.G1512C	p.L504L	CAATATCAGCTCG	.	PASS	Atlas-SNP
TMEM203	94107	hgsc.bcm.edu	37	9	140099675	140099675	+	Silent	SNP	G	G	A	rs113235610	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	56.0	77.0	0.0	0.7	0	G|0.992;A|0.008	0.008	strong	TMEM203,NS,carcinoma,0,1	TMEM203	8	1	NM_053045	exon1	c.C192T	p.T64T	GATGGTGGTGAAG	.	PASS	Atlas-SNP
CAAP1	79886	hgsc.bcm.edu	37	9	26842506	26842506	+	Silent	SNP	G	G	A	rs10967558	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	295.0	140.0	289.0	0.0	0.474576	0	G|0.941;A|0.059	0.059	strong	.	.	.	.	NM_024828	exon6	c.C879T	p.D293D	CTCCAGGTCATCT	.	PASS	Atlas-SNP
BPTF	2186	hgsc.bcm.edu	37	17	65914911	65914911	+	Silent	SNP	T	T	C	rs80201495	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	76.0	153.0	0.0	0.513514	0	T|0.981;C|0.019	0.019	strong	.	BPTF	415	.	NM_004459	exon14	c.T5763C	p.D1921D	GGATGATATGGCG	.	PASS	Atlas-SNP
GOLGA3	2802	hgsc.bcm.edu	37	12	133398638	133398638	+	Missense_Mutation	SNP	G	G	A	rs141852501	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	58.0	112.0	0.0	0.522523	0	G|0.997;A|0.003	0.003	strong	.	GOLGA3	234	.	NM_001172557	exon2	c.C77T	p.A26V	AGTGGGGCCTCGG	.	PASS	Atlas-SNP
KRTAP13-4	284827	hgsc.bcm.edu	37	21	31802621	31802621	+	Missense_Mutation	SNP	T	T	A	rs73899382	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	102.0	206.0	0.0	0.428571	0	T|0.992;A|0.008	0.008	strong	.	KRTAP13-4	46	.	NM_181600	exon1	c.T28A	p.F10I	AGAAACTTCTCCT	.	PASS	Atlas-SNP
ATPAF2	91647	hgsc.bcm.edu	37	17	17924447	17924447	+	Missense_Mutation	SNP	T	T	C	rs34607655	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	56.0	81.0	0.0	0.523364	0	T|0.996;C|0.004	0.004	strong	.	ATPAF2	15	.	NM_145691	exon7	c.A722G	p.E241G	TACTCCTCCTCCA	.	PASS	Atlas-SNP
LYST	1130	hgsc.bcm.edu	37	1	235933535	235933535	+	Missense_Mutation	SNP	C	C	G	rs6665568	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	74.0	172.0	0.0	0.480519	0	C|0.943;G|0.057	0.057	strong	.	LYST	370	.	NM_000081	exon20	c.G5847C	p.Q1949H	CATCTGCTGGTGG	.	PASS	Atlas-SNP
ABCA9	10350	hgsc.bcm.edu	37	17	67031882	67031882	+	Silent	SNP	A	A	G	rs16973534	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	430.0	196.0	435.0	0.0	0.455814	0	A|0.970;G|0.030	0.030	strong	.	ABCA9	192	.	NM_080283	exon7	c.T861C	p.L287L	TACAATAAGAGCC	.	PASS	Atlas-SNP
ASH1L	55870	hgsc.bcm.edu	37	1	155451343	155451343	+	Missense_Mutation	SNP	A	A	C	rs114218266	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	77.0	137.0	0.0	0.430168	0	A|0.981;C|0.019	0.019	strong	.	ASH1L	279	.	NM_018489	exon3	c.T1318G	p.C440G	TACTACAAGAAGC	.	PASS	Atlas-SNP
PLCD4	84812	hgsc.bcm.edu	37	2	219483526	219483526	+	Missense_Mutation	SNP	G	G	C	rs200863393	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	48.0	88.0	0.0	0.475248	0	G|1.000;C|0.000	0.000	strong	.	PLCD4	51	.	NM_032726	exon4	c.G406C	p.D136H	CGCCTGGACCAGT	.	PASS	Atlas-SNP
TENM3	55714	hgsc.bcm.edu	37	4	183594275	183594275	+	Missense_Mutation	SNP	T	T	C	rs201144002	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	100.0	210.0	1.0	0.512821	0.0047619	.	.	weak	.	.	.	.	NM_001080477	exon6	c.T1229C	p.I410T	TCTTCATTGATCA	.	PASS	Atlas-SNP
CTXN3	613212	hgsc.bcm.edu	37	5	126993262	126993262	+	Missense_Mutation	SNP	G	G	A	rs61743797	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	49.0	68.0	0.0	0.590361	0	G|0.998;A|0.002	0.002	strong	.	CTXN3	19	.	NM_001048252	exon3	c.G49A	p.E17K	GGGAACGAATCAG	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46777896	46777896	+	Missense_Mutation	SNP	C	C	G	rs7287089	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	12.0	15.0	0.0	0.413793	0	C|0.985;G|0.015	0.015	strong	.	CELSR1	242	.	NM_014246	exon21	c.G6935C	p.R2312P	CCCGGGCGCGTGG	.	PASS	Atlas-SNP
DHX8	1659	hgsc.bcm.edu	37	17	41570819	41570819	+	Silent	SNP	G	G	A	rs146528228	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	60.0	109.0	0.0	0.472441	0	G|0.998;A|0.002	0.002	strong	.	DHX8	98	.	NM_004941	exon7	c.G870A	p.R290R	GAAGCGGTGGGAA	.	PASS	Atlas-SNP
CLEC12B	387837	hgsc.bcm.edu	37	12	10163381	10163381	+	Missense_Mutation	SNP	C	C	T	rs11833101	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	28.0	67.0	0.0	0.363636	0	C|0.976;T|0.024	0.024	strong	.	CLEC12B	25	.	NM_001129998	exon1	c.C23T	p.A8V	CCTACGCGACACT	.	PASS	Atlas-SNP
ZNF444	55311	hgsc.bcm.edu	37	19	56669889	56669889	+	Silent	SNP	G	G	A	rs61736530	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	214.0	214.0	0.0	1	0	G|0.981;A|0.019	0.019	strong	.	ZNF444	15	.	NM_001253792	exon4	c.G324A	p.S108S	TGGGTCGTCAGCA	.	PASS	Atlas-SNP
BLZF1	8548	hgsc.bcm.edu	37	1	169345883	169345883	+	Missense_Mutation	SNP	A	A	G	rs112226207	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	71.0	143.0	0.0	0.493056	0	A|0.997;G|0.003	0.003	strong	.	BLZF1	57	.	NM_003666	exon3	c.A134G	p.H45R	AGCATCATAGTCT	.	PASS	Atlas-SNP
CSF1	1435	hgsc.bcm.edu	37	1	110466776	110466776	+	Silent	SNP	C	C	T	rs3208449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	51.0	69.0	0.0	0.53125	0	C|0.996;T|0.004	0.004	strong	.	CSF1	40	.	NM_000757	exon6	c.C1533T	p.A511A	GCTGGCCGTCGGA	.	PASS	Atlas-SNP
PASK	23178	hgsc.bcm.edu	37	2	242065635	242065635	+	Missense_Mutation	SNP	A	A	G	rs77674262	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	74.0	126.0	0.0	0.517483	0	A|0.979;G|0.021	0.021	strong	.	PASK	230	.	NM_015148	exon10	c.T2695C	p.Y899H	GATGGTAGCAGCT	.	PASS	Atlas-SNP
USP46	64854	hgsc.bcm.edu	37	4	53494283	53494283	+	Silent	SNP	G	G	A	rs115007179	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	101.0	102.0	0.0	0.990196	0	G|0.997;A|0.003	0.003	strong	.	USP46	38	.	NM_022832	exon3	c.C165T	p.F55F	ACGGCAGAAGTAC	.	PASS	Atlas-SNP
TTC17	55761	hgsc.bcm.edu	37	11	43413028	43413028	+	Missense_Mutation	SNP	A	A	C	rs12099204	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	203.0	195.0	1.0	1	0.00512821	A|0.883;C|0.117	0.117	strong	.	TTC17	112	.	NM_018259	exon4	c.A433C	p.I145L	GATTATATAGACA	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18499629	18499629	+	Missense_Mutation	SNP	A	A	T	rs77656456	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	73.0	119.0	0.0	0.489933	0	A|0.998;T|0.002	0.002	strong	.	PIK3C2G	315	.	NM_004570	exon11	c.A1484T	p.N495I	TAATCAATGTCTA	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16860685	16860685	+	Missense_Mutation	SNP	C	C	T	rs61998161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	42.0	70.0	0.0	0.494118	0	C|0.979;T|0.021	0.021	strong	.	NWD1	303	.	NM_001007525	exon6	c.C1232T	p.T411I	CCCACACCAGGGT	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149499254	149499254	+	Missense_Mutation	SNP	G	G	A	rs59522380	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	21.0	26.0	0.0	0.477273	0	G|0.945;A|0.055	0.055	strong	.	.	.	.	NM_198455	exon51	c.G7622A	p.R2541Q	GTGACCGGTTCCG	.	PASS	Atlas-SNP
PTPRA	5786	hgsc.bcm.edu	37	20	2969015	2969015	+	Silent	SNP	C	C	G	rs61742610	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	80.0	133.0	0.0	0.551724	0	C|0.977;G|0.023	0.023	strong	.	PTPRA	75	.	NM_002836	exon13	c.C633G	p.S211S	CAGATCCCCAAGC	.	PASS	Atlas-SNP
MS4A14	84689	hgsc.bcm.edu	37	11	60183401	60183401	+	Missense_Mutation	SNP	G	G	T	rs376669252		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	77.0	168.0	0.0	0.469512	0	.	.	weak	.	MS4A14	120	.	NM_001261828	exon6	c.G1059T	p.L353F	AGACTTGCCATCC	.	PASS	Atlas-SNP
LBP	3929	hgsc.bcm.edu	37	20	36982785	36982785	+	Missense_Mutation	SNP	C	C	G	rs2232586	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	32.0	66.0	0.0	0.571429	0	C|0.994;G|0.006	0.006	strong	.	LBP	60	.	NM_004139	exon4	c.C470G	p.S157C	CTGCCTCCAGCTG	.	PASS	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7436151	7436151	+	Silent	SNP	T	T	C	rs61738663	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	22.0	66.0	0.0	0.431373	0	T|0.963;C|0.037	0.037	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.A456G	p.P152P	GGAGAGTGGCCTC	.	PASS	Atlas-SNP
USP2	9099	hgsc.bcm.edu	37	11	119243912	119243912	+	Silent	SNP	C	C	T	rs79464246	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	50.0	73.0	0.0	0.555556	0	C|0.991;T|0.009	0.009	strong	.	USP2	71	.	NM_004205	exon2	c.G279A	p.E93E	CTGGCTCTCTGCC	.	PASS	Atlas-SNP
GPRC5D	55507	hgsc.bcm.edu	37	12	13103196	13103196	+	Silent	SNP	G	G	A	rs150759739	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	48.0	74.0	0.0	0.685714	0	G|0.997;A|0.003	0.003	strong	.	GPRC5D	23	.	NM_018654	exon1	c.C123T	p.L41L	TGCTAAGAGTAGC	.	PASS	Atlas-SNP
DVL1	1855	hgsc.bcm.edu	37	1	1277183	1277183	+	Missense_Mutation	SNP	C	C	T	rs61735963	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	50.0	88.0	0.0	0.46729	0	C|0.931;T|0.069	0.069	strong	.	DVL1	36	.	NM_004421	exon5	c.G469A	p.A157T	TCCGGGCGGCTGT	.	PASS	Atlas-SNP
KRTAP4-9	100132386	hgsc.bcm.edu	37	17	39262103	39262103	+	Missense_Mutation	SNP	A	A	T	rs374629799		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	42.0	125.0	0.0	0.225806	0	.	.	weak	KRTAP4-9_ENST00000377734,NS,carcinoma,0,2	KRTAP4-9	110	2	NM_001146041	exon1	c.A463T	p.S155C	AGCTGCAGCATCT	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43536047	43536047	+	Silent	SNP	C	C	T	rs141581454	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	233.0	116.0	212.0	0.0	0.497854	0	C|0.998;T|0.002	0.002	strong	.	UMODL1	186	.	NM_173568	exon13	c.C2811T	p.N937N	TCGCAACGCAAGC	.	PASS	Atlas-SNP
NDNL2	56160	hgsc.bcm.edu	37	15	29561467	29561467	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	58.0	111.0	0.0	0.5	0	.	.	none	.	NDNL2	19	.	NM_138704	exon1	c.A443C	p.K148T	TTGCTCTTGGGTT	.	PASS	Atlas-SNP
TRANK1	9881	hgsc.bcm.edu	37	3	36898699	36898699	+	Silent	SNP	G	G	A	rs187740236	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	35.0	54.0	0.0	0.472973	0	G|0.998;A|0.002	0.002	strong	.	TRANK1	398	.	NM_014831	exon12	c.C2382T	p.C794C	TGAAGTGCACTCG	.	PASS	Atlas-SNP
GRM5	2915	hgsc.bcm.edu	37	11	88338074	88338074	+	Silent	SNP	G	G	A	rs61745770	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	40.0	65.0	0.0	0.56338	0	G|0.971;A|0.029	0.029	strong	.	GRM5	414	.	NM_000842	exon5	c.C1206T	p.N402N	GATGGCGTTGATC	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48452147	48452147	+	Silent	SNP	G	G	A	rs369363967		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	85.0	121.0	0.0	0.559211	0	.	.	weak	.	ABCA13	1192	.	NM_152701	exon41	c.G12426A	p.T4142T	CCTGACGGGCTAT	.	PASS	Atlas-SNP
CEP55	55165	hgsc.bcm.edu	37	10	95262980	95262980	+	Silent	SNP	C	C	T	rs62642530	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	43.0	102.0	0.0	0.52439	0	C|0.996;T|0.004	0.004	strong	.	CEP55	35	.	NM_018131	exon3	c.C294T	p.T98T	TACTACCACATTG	.	PASS	Atlas-SNP
MYH1	4619	hgsc.bcm.edu	37	17	10404766	10404766	+	Silent	SNP	C	C	T	rs61730793	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	86.0	144.0	0.0	0.5375	0	C|0.994;T|0.006	0.006	strong	.	MYH1	403	.	NM_005963	exon27	c.G3399A	p.R1133R	TTTGGCCCGGGAG	.	PASS	Atlas-SNP
POP5	51367	hgsc.bcm.edu	37	12	121019009	121019009	+	Silent	SNP	G	G	C	rs74750729	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	45.0	88.0	0.0	0.529412	0	G|0.998;C|0.002	0.002	strong	.	POP5	14	.	NM_198202	exon2	c.C72G	p.L24L	GTCATCGAGGCTT	.	PASS	Atlas-SNP
LILRA2	11027	hgsc.bcm.edu	37	19	55098742	55098742	+	Missense_Mutation	SNP	G	G	T	rs73939008	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	253.0	109.0	227.0	0.0	0.43083	0	G|0.991;T|0.009	0.009	strong	LILRA2,right_upper_lobe,carcinoma,0,1	LILRA2	99	1	NM_001130917	exon8	c.G1381T	p.V461L	GTCCTGGTGGTCC	.	PASS	Atlas-SNP
DMD	1756	hgsc.bcm.edu	37	X	32466654	32466654	+	Silent	SNP	G	G	A	rs143628111	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	258.0	127.0	269.0	0.0	0.492248	0	G|0.983;A|0.017	0.017	strong	.	DMD	2127	.	NM_004006	exon27	c.C3705T	p.A1235A	TTTTAAGGCCTCT	.	PASS	Atlas-SNP
TICRR	90381	hgsc.bcm.edu	37	15	90167610	90167610	+	Missense_Mutation	SNP	G	G	T	rs115865608	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	34.0	63.0	0.0	0.566667	0	G|0.996;T|0.004	0.004	strong	.	.	.	.	NM_152259	exon20	c.G4069T	p.V1357F	TGCCCTGTTCCCT	.	PASS	Atlas-SNP
C1orf112	55732	hgsc.bcm.edu	37	1	169796859	169796859	+	Silent	SNP	A	A	C	rs149832132	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	26.0	67.0	0.0	0.342105	0	A|0.997;C|0.003	0.003	strong	.	C1orf112	74	.	NM_018186	exon12	c.A1005C	p.P335P	CCTGCCATGTGAA	.	PASS	Atlas-SNP
C16orf82	162083	hgsc.bcm.edu	37	16	27078705	27078705	+	Missense_Mutation	SNP	T	T	C	rs115398674	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	26.0	66.0	0.0	0.351351	0	T|0.980;C|0.020	0.020	strong	.	.	.	.	NM_001145545	exon1	c.T389C	p.I130T	GCTCCATAGACCC	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52493996	52493996	+	Missense_Mutation	SNP	C	C	T	rs28507587	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	51.0	70.0	0.0	0.476636	0	C|0.979;T|0.021	0.021	strong	NID2,NS,carcinoma,-1,1	NID2	201	1	NM_007361	exon12	c.G2597A	p.R866Q	ACACACCGGGCCT	.	PASS	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	37	19	12800597	12800597	+	Missense_Mutation	SNP	T	T	C	rs73921601	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	29.0	85.0	0.0	0.345238	0	T|0.944;C|0.056	0.056	strong	FBXW9_ENST00000393261,caecum,carcinoma,+1,3	FBXW9	30	3	NM_032301	exon7	c.A1124G	p.N375S	CAGCCGTTGCGGT	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19451090	19451090	+	Missense_Mutation	SNP	T	T	C	rs183578825	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	79.0	164.0	0.0	0.473054	0	T|0.999;C|0.001	0.001	strong	UBR4,NS,carcinoma,0,1	UBR4	415	1	NM_020765	exon65	c.A9533G	p.N3178S	CGAGAATTGGTGT	.	PASS	Atlas-SNP
ZDHHC19	131540	hgsc.bcm.edu	37	3	195935346	195935346	+	Missense_Mutation	SNP	C	C	T	rs75505676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	244.0	116.0	242.0	0.0	0.47541	0	C|0.996;T|0.004	0.004	strong	.	ZDHHC19	25	.	NM_001039617	exon4	c.G494A	p.C165Y	TAGAGGCACAGGG	.	PASS	Atlas-SNP
WDR4	10785	hgsc.bcm.edu	37	21	44273691	44273691	+	Silent	SNP	G	G	A	rs146863277	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	43.0	61.0	0.0	0.623188	0	G|0.995;A|0.005	0.005	strong	.	WDR4	35	.	NM_018669	exon9	c.C963T	p.G321G	CTGGTCGCCCACA	.	PASS	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	37	21	40590176	40590176	+	Silent	SNP	G	G	T	rs76171323	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	66.0	114.0	0.0	0.589286	0	G|0.984;T|0.016	0.016	strong	BRWD1_ENST00000333229,NS,lymphoid_neoplasm,0,2	BRWD1	325	2	NM_018963	exon31	c.C3561A	p.G1187G	AACAGGGCCTGCA	.	PASS	Atlas-SNP
ZNF780A	284323	hgsc.bcm.edu	37	19	40580426	40580426	+	Silent	SNP	A	A	G	rs399405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	268.0	268.0	247.0	0.0	1	0	A|0.899;G|0.101	0.101	strong	.	ZNF780A	156	.	NM_001142577	exon6	c.T1926C	p.S642S	CATTCAAGATGCC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152285188	152285188	+	Missense_Mutation	SNP	G	G	A	rs80233522		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	274.0	272.0	243.0	1.0	0.992701	0.00411523	.	.	weak	.	FLG	900	.	NM_002016	exon3	c.C2174T	p.T725I	TGCCCAGTGCCTG	.	PASS	Atlas-SNP
EFEMP1	2202	hgsc.bcm.edu	37	2	56145110	56145110	+	Silent	SNP	G	G	T	rs12292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	122.0	248.0	0.0	0.532751	0	G|0.951;T|0.049	0.049	strong	.	EFEMP1	81	.	NM_001039349	exon4	c.C207A	p.L69L	AAGGCAGAGGTAT	.	PASS	Atlas-SNP
APPBP2	10513	hgsc.bcm.edu	37	17	58603185	58603185	+	Silent	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	73.0	134.0	0.0	0.544776	0	.	.	none	.	APPBP2	48	.	NM_006380	exon1	c.C108G	p.P36P	GTTCTCGGGCAAG	.	PASS	Atlas-SNP
AEBP1	165	hgsc.bcm.edu	37	7	44146151	44146151	+	Missense_Mutation	SNP	C	C	T	rs75107445	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	19.0	40.0	0.0	0.413043	0	C|0.999;T|0.001	0.001	strong	AEBP1,larynx,carcinoma,-1,1	AEBP1	102	1	NM_001129	exon2	c.C260T	p.P87L	TGCCTCCGGAAAA	.	PASS	Atlas-SNP
PKMYT1	9088	hgsc.bcm.edu	37	16	3026956	3026956	+	Silent	SNP	T	T	C	rs4149786	bycluster;byfrequency;byhapmap	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	21.0	76.0	0.0	0.323077	0	T|0.993;C|0.007	0.007	strong	.	PKMYT1	23	.	NM_182687	exon3	c.A87G	p.P29P	GTAGGCTGGGACT	.	PASS	Atlas-SNP
LILRA3	11026	hgsc.bcm.edu	37	19	54803141	54803141	+	Missense_Mutation	SNP	C	C	T	rs147561158	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	346.0	167.0	315.0	2.0	0.482659	0.00634921	C|0.998;T|0.002	0.002	strong	LILRA3,right_upper_lobe,carcinoma,0,2	LILRA3	65	2	NM_006865	exon4	c.G536A	p.R179Q	ATGGCCCGGGATG	.	scavenged	Atlas-SNP
OTC	5009	hgsc.bcm.edu	37	X	38260570	38260570	+	Silent	SNP	T	T	C	rs145777402	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	74.0	229.0	0.0	0.413408	0	T|0.994;C|0.006	0.006	strong	.	OTC	60	.	NM_000531	exon5	c.T429C	p.Y143Y	AGTGTATAAACAA	.	PASS	Atlas-SNP
ODF1	4956	hgsc.bcm.edu	37	8	103573024	103573024	+	Missense_Mutation	SNP	G	G	A	rs111689913	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	42.0	145.0	0.0	0.396226	0	G|0.893;A|0.107	0.107	strong	.	ODF1	55	.	NM_024410	exon2	c.G665A	p.S222N	CCTGCAGCCCCTG	.	PASS	Atlas-SNP
TSC22D2	9819	hgsc.bcm.edu	37	3	150176316	150176316	+	Missense_Mutation	SNP	C	C	A	rs149526922	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	275.0	129.0	272.0	0.0	0.469091	0	C|0.999;A|0.001	0.001	strong	.	TSC22D2	42	.	NM_014779	exon4	c.C2236A	p.P746T	CAACTCCCAACCC	.	PASS	Atlas-SNP
FAM207A	85395	hgsc.bcm.edu	37	21	46380068	46380068	+	Missense_Mutation	SNP	G	G	A	rs141593051	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	47.0	114.0	0.0	0.494737	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_058190	exon3	c.G337A	p.E113K	AGGCGTGAGCAAT	.	PASS	Atlas-SNP
LEFTY1	10637	hgsc.bcm.edu	37	1	226076598	226076598	+	Missense_Mutation	SNP	C	C	T	rs35273824	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	103.0	187.0	0.0	0.530928	0	C|0.956;T|0.044	0.044	strong	.	LEFTY1	30	.	NM_020997	exon1	c.G169A	p.V57M	CCCTCACGTGGGT	.	PASS	Atlas-SNP
FGF4	2249	hgsc.bcm.edu	37	11	69588798	69588798	+	Silent	SNP	A	A	G	rs61738964	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	83.0	131.0	0.0	0.477012	0	A|0.994;G|0.006	0.006	strong	.	FGF4	13	.	NM_002007	exon2	c.T438C	p.Y146Y	CGAGCCATAGAGC	.	PASS	Atlas-SNP
APC2	10297	hgsc.bcm.edu	37	19	1469078	1469078	+	Silent	SNP	G	G	A	rs79021820	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	19.0	11.0	0.0	0.655172	0	G|0.949;A|0.051	0.051	strong	.	APC2	50	.	NM_005883	exon15	c.G5778A	p.S1926S	GAGATCGCCCGTG	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79351542	79351542	+	Missense_Mutation	SNP	C	C	T	rs34271211	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	38.0	100.0	0.0	0.44186	0	C|0.992;T|0.008	0.008	strong	.	FRAS1	779	.	NM_001166133	exon37	c.C4940T	p.T1647I	AGCATACAGCTGA	.	PASS	Atlas-SNP
CAAP1	79886	hgsc.bcm.edu	37	9	26861106	26861106	+	Missense_Mutation	SNP	C	C	T	rs12342214	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	72.0	175.0	0.0	0.423529	0	C|0.939;T|0.061	0.061	strong	.	.	.	.	NM_024828	exon5	c.G697A	p.V233M	CTCTCACGGATGA	.	PASS	Atlas-SNP
TXNDC5	81567	hgsc.bcm.edu	37	6	7883386	7883386	+	Silent	SNP	G	G	A	rs9502656	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	25.0	67.0	0.0	0.384615	0	G|0.920;A|0.080	0.080	strong	.	TXNDC5	33	.	NM_030810	exon10	c.C1290T	p.D430D	AAGTTCGTCTTTC	.	PASS	Atlas-SNP
PGAM2	5224	hgsc.bcm.edu	37	7	44104805	44104805	+	Silent	SNP	C	C	T	rs112828964	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	280.0	131.0	256.0	0.0	0.467857	0	C|0.968;T|0.032	0.032	strong	.	PGAM2	20	.	NM_000290	exon1	c.G324A	p.G108G	CTCCTCCCCGTGC	.	PASS	Atlas-SNP
PUM2	23369	hgsc.bcm.edu	37	2	20508156	20508156	+	Silent	SNP	C	C	T	rs34057700	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	85.0	177.0	0.0	0.472222	0	C|0.974;T|0.026	0.026	strong	.	PUM2	91	.	NM_015317	exon5	c.G708A	p.Q236Q	GTCAAACTGTAAG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187542432	187542432	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	264.0	125.0	244.0	0.0	0.473485	0	.	.	none	.	FAT1	500	.	NM_005245	exon10	c.T5308C	p.Y1770H	CTGTATATTCTGC	.	PASS	Atlas-SNP
RNF207	388591	hgsc.bcm.edu	37	1	6278425	6278425	+	Missense_Mutation	SNP	G	G	A	rs61746089	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	51.0	91.0	0.0	0.53125	0	G|0.991;A|0.009	0.009	strong	.	RNF207	45	.	NM_207396	exon17	c.G1729A	p.A577T	GCCTCAGCCAGGT	.	PASS	Atlas-SNP
ANKRD36B	57730	hgsc.bcm.edu	37	2	98206012	98206012	+	Missense_Mutation	SNP	G	G	A	rs185401750	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	124.0	292.0	1.0	0.478764	0.00342466	G|0.989;A|0.011	0.011	strong	.	.	.	.	NM_025190	exon1	c.C137T	p.A46V	TTATTGGCGTCAT	.	PASS	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	37	7	83035289	83035289	+	Silent	SNP	A	A	G	rs28505908	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	51.0	89.0	0.0	0.490385	0	A|0.987;G|0.013	0.013	strong	.	SEMA3E	125	.	NM_012431	exon8	c.T900C	p.N300N	AATTCCATTCATT	.	PASS	Atlas-SNP
HYI	81888	hgsc.bcm.edu	37	1	43917098	43917098	+	Missense_Mutation	SNP	C	C	G	rs79439514	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	18.0	37.0	0.0	0.428571	0	C|0.974;G|0.026	0.026	strong	.	HYI	23	.	NM_001190880	exon7	c.G743C	p.C248S	TACTCACAGCCCA	.	PASS	Atlas-SNP
SMARCA2	6595	hgsc.bcm.edu	37	9	2039776	2039776	+	Silent	SNP	A	A	G	rs13296987	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	52.0	90.0	1.0	0.52	0.0111111	A|0.750;G|0.250	0.250	strong	SMARCA2_ENST00000349721,NS,carcinoma,0,2	SMARCA2	313	2	NM_139045	exon4	c.A666G	p.Q222Q	GCAGCAACAGCAG	.	scavenged	Atlas-SNP
UBA1	7317	hgsc.bcm.edu	37	X	47070468	47070468	+	Missense_Mutation	SNP	A	A	C	rs143044923	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	69.0	128.0	0.0	0.482517	0	A|0.994;C|0.006	0.006	strong	.	UBA1	89	.	NM_153280	exon20	c.A2308C	p.N770H	GCTGCCAACCTGT	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103540	53103540	+	Missense_Mutation	SNP	C	C	G	rs78135827	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	33.0	57.0	0.0	0.423077	0	C|0.965;G|0.035	0.035	strong	POM121L12,NS,carcinoma,0,1	POM121L12	146	1	NM_182595	exon1	c.C176G	p.T59S	CCCTGACTCAGAG	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27804691	27804691	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	13.0	169.0	0.0	0.0828025	0	.	.	none	.	C2orf16	357	.	NM_032266	exon1	c.A5252G	p.H1751R	GACATCACAGTCC	.	PASS	Atlas-SNP
HSD17B13	345275	hgsc.bcm.edu	37	4	88243832	88243832	+	Silent	SNP	A	A	G	rs137887488	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	89.0	173.0	0.0	0.478495	0	A|0.996;G|0.004	0.004	strong	.	HSD17B13	27	.	NM_178135	exon1	c.T162C	p.Y54Y	AAATTCATAAGTA	.	PASS	Atlas-SNP
SPHK2	56848	hgsc.bcm.edu	37	19	49131317	49131317	+	Silent	SNP	G	G	T	rs116785119	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	37.0	61.0	0.0	0.569231	0	G|0.996;T|0.004	0.004	strong	.	SPHK2	62	.	NM_020126	exon5	c.G747T	p.L249L	CGGGCTGCTCCAT	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113169816	113169816	+	Silent	SNP	T	T	C	rs116159392	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	75.0	151.0	0.0	0.635593	0	T|0.959;C|0.041	0.041	strong	SVEP1,NS,carcinoma,0,1	SVEP1	326	1	NM_153366	exon38	c.A8064G	p.G2688G	TTCATATCCTGGA	.	PASS	Atlas-SNP
MYO10	4651	hgsc.bcm.edu	37	5	16701717	16701717	+	Silent	SNP	C	C	T	rs149110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	46.0	90.0	0.0	0.494624	0	C|0.928;T|0.072	0.072	strong	.	MYO10	198	.	NM_012334	exon25	c.G2787A	p.R929R	CTCCAGCCTGCGG	.	PASS	Atlas-SNP
CAP2	10486	hgsc.bcm.edu	37	6	17507504	17507504	+	Silent	SNP	C	C	G	rs146710056	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	66.0	134.0	0.0	0.515625	0	C|0.998;G|0.002	0.002	strong	.	CAP2	61	.	NM_006366	exon5	c.C405G	p.A135A	TTCGGCCGTCAGC	.	PASS	Atlas-SNP
ATP8B1	5205	hgsc.bcm.edu	37	18	55334339	55334339	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	4.0	91.0	0.0	0.0421053	0	.	.	none	.	ATP8B1	126	.	NM_005603	exon20	c.A2270G	p.Y757C	TCCCCATAGCAGA	.	PASS	Atlas-SNP
CT47B1	643311	hgsc.bcm.edu	37	X	120008932	120008932	+	Missense_Mutation	SNP	T	T	C	rs193289998	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	22.0	94.0	0.0	0.285714	0	T|0.985;C|0.015	0.015	strong	.	CT47B1	67	.	NM_001145718	exon1	c.A593G	p.E198G	GCGGCCTCCTGGA	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	37	17	48734136	48734136	+	Missense_Mutation	SNP	G	G	A	rs35777968	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	51.0	115.0	0.0	0.481132	0	G|0.987;A|0.013	0.013	strong	.	ABCC3	138	.	NM_003786	exon3	c.G296A	p.R99Q	ATGGCCGGGCCCC	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49433356	49433356	+	Silent	SNP	G	G	A	rs116686402	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	17.0	30.0	0.0	0.395349	0	G|0.986;A|0.014	0.014	strong	.	MLL2	1173	.	NM_003482	exon32	c.C8091T	p.R2697R	GGTGTTGCGCTGG	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49969522	49969522	+	Silent	SNP	C	C	T	rs116631301	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	16.0	34.0	0.0	0.470588	0	C|0.992;T|0.008	0.008	strong	.	ALDH16A1	54	.	NM_153329	exon14	c.C1920T	p.A640A	GCAGGCCCAAGGC	.	PASS	Atlas-SNP
SOX10	6663	hgsc.bcm.edu	37	22	38379543	38379543	+	Silent	SNP	G	G	A	rs73415876	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	65.0	84.0	0.0	0.541667	0	A|0.044;G|0.956	0.044	strong	.	SOX10	48	.	NM_006941	exon2	c.C249T	p.Y83Y	CCAGTCGTAGCCG	.	PASS	Atlas-SNP
CLCN6	1185	hgsc.bcm.edu	37	1	11884586	11884586	+	Silent	SNP	G	G	A	rs60602304	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	53.0	105.0	0.0	0.535354	0	G|0.970;A|0.030	0.030	strong	.	CLCN6	77	.	NM_001286	exon8	c.G624A	p.S208S	TGGTTCGGTGGTG	.	PASS	Atlas-SNP
RAPGEF3	10411	hgsc.bcm.edu	37	12	48134768	48134768	+	Missense_Mutation	SNP	A	A	T	rs80097705	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	61.0	118.0	0.0	0.455224	0	A|0.965;T|0.035	0.035	strong	.	RAPGEF3	98	.	NM_001098531	exon20	c.T1979A	p.L660Q	CTCACCAGGTCCA	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109384665	109384665	+	Missense_Mutation	SNP	A	A	G	rs79989901		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	378.0	186.0	369.0	0.0	0.492063	0	.	.	weak	.	RANBP2	488	.	NM_006267	exon20	c.A7670G	p.N2557S	GTAACAATAGTGA	.	PASS	Atlas-SNP
PALD1	27143	hgsc.bcm.edu	37	10	72294192	72294192	+	Missense_Mutation	SNP	C	C	T	rs141167395	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	40.0	93.0	0.0	0.434783	0	C|0.999;T|0.001	0.001	strong	.	.	.	.	NM_014431	exon9	c.C1034T	p.T345M	CCCCCACGCAGGC	.	PASS	Atlas-SNP
SLC43A2	124935	hgsc.bcm.edu	37	17	1494660	1494660	+	Silent	SNP	G	G	A	rs73976240	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	48.0	74.0	0.0	0.578313	0	G|0.971;A|0.029	0.029	strong	.	SLC43A2	37	.	NM_152346	exon8	c.C834T	p.S278S	CCTCATGGAGCTG	.	PASS	Atlas-SNP
APLNR	187	hgsc.bcm.edu	37	11	57003581	57003581	+	Missense_Mutation	SNP	C	C	T	rs7943508	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	86.0	124.0	0.0	0.565789	0	C|0.986;T|0.014	0.014	strong	APLNR,caecum,carcinoma,0,2	APLNR	62	2	NM_005161	exon1	c.G898A	p.V300I	TGTTGACGTAGCT	.	PASS	Atlas-SNP
SLC4A8	9498	hgsc.bcm.edu	37	12	51855009	51855009	+	Silent	SNP	T	T	G	rs150970094	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	78.0	151.0	0.0	0.47561	0	T|0.997;G|0.003	0.003	strong	SLC4A8,back,malignant_melanoma,+2,1	SLC4A8	292	1	NM_001039960	exon9	c.T1035G	p.G345G	ATTGGGTCCAGTA	.	PASS	Atlas-SNP
DLG5	9231	hgsc.bcm.edu	37	10	79556301	79556301	+	Missense_Mutation	SNP	A	A	G	rs74140333	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	98.0	249.0	0.0	0.464455	0	A|0.989;G|0.011	0.011	strong	.	DLG5	154	.	NM_004747	exon28	c.T5216C	p.L1739P	GGCCTCAGAGCGG	.	PASS	Atlas-SNP
SPECC1L	23384	hgsc.bcm.edu	37	22	24761502	24761502	+	Silent	SNP	G	G	A	rs139166286	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	36.0	67.0	0.0	0.5	0	A|0.002;G|0.998	0.002	strong	.	SPECC1L	85	.	NM_001145468	exon12	c.G2886A	p.S962S	AGCGTCGCCAGCC	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45214623	45214623	+	Missense_Mutation	SNP	G	G	A	rs75637741	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	8.0	25.0	0.0	0.222222	0	.	.	weak	CDC27_ENST00000531206,rectum,carcinoma,0,2	CDC27	337	2	NM_001114091	exon14	c.C1826T	p.A609V	GTATAGGCATAAG	.	scavenged	Atlas-SNP
ATP6V1C1	528	hgsc.bcm.edu	37	8	104054603	104054603	+	Silent	SNP	T	T	C	rs7009365	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	82.0	201.0	0.0	0.522293	0	T|0.922;C|0.078	0.078	strong	.	ATP6V1C1	33	.	NM_001695	exon3	c.T168C	p.D56D	GTCAGATGAACTG	.	PASS	Atlas-SNP
PCDHB6	56130	hgsc.bcm.edu	37	5	140530534	140530534	+	Missense_Mutation	SNP	G	G	C	rs10076554	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	53.0	103.0	0.0	0.490741	0	G|0.986;C|0.014	0.014	strong	.	PCDHB6	161	.	NM_018939	exon1	c.G696C	p.L232F	GGTTTTGGACATC	.	PASS	Atlas-SNP
DBNL	28988	hgsc.bcm.edu	37	7	44096482	44096482	+	Missense_Mutation	SNP	G	G	A	rs61735009	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	45.0	66.0	0.0	0.432692	0	A|0.013;C|0.000;G|0.987	0.013	strong	.	DBNL	26	.	NM_001122956	exon5	c.G454A	p.V152M	CAGGACGTGGGAC	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39263422	39263422	+	Silent	SNP	C	C	T	rs41292751	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	49.0	92.0	0.0	0.515789	0	C|0.973;T|0.027	0.027	strong	.	FREM2	385	.	NM_207361	exon1	c.C1941T	p.D647D	GCAGGACATAACA	.	PASS	Atlas-SNP
VWCE	220001	hgsc.bcm.edu	37	11	61048322	61048322	+	Silent	SNP	G	G	C	rs61744427	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	36.0	51.0	0.0	0.537313	0	G|0.971;C|0.029	0.029	strong	.	VWCE	84	.	NM_152718	exon8	c.C1173G	p.A391A	ATGCATGGCTCCC	.	PASS	Atlas-SNP
MFAP3L	9848	hgsc.bcm.edu	37	4	170912685	170912685	+	Silent	SNP	T	T	C	rs61740817	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	105.0	168.0	0.0	0.492958	0	T|0.933;C|0.067	0.067	strong	MFAP3L,NS,carcinoma,-2,1	MFAP3L	59	1	NM_021647	exon3	c.A1074G	p.E358E	AGAAGGTTCTGCA	.	PASS	Atlas-SNP
RAI14	26064	hgsc.bcm.edu	37	5	34814745	34814745	+	Missense_Mutation	SNP	T	T	C	rs150350937	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	291.0	150.0	318.0	0.0	0.515464	0	T|1.000;C|0.000	0.000	weak	RAI14,scalp,malignant_melanoma,-1,1	RAI14	100	1	NM_001145525	exon14	c.T919C	p.S307P	AAGGAATCGGTAT	.	PASS	Atlas-SNP
ZNF808	388558	hgsc.bcm.edu	37	19	53057031	53057031	+	Missense_Mutation	SNP	A	A	G	rs116132766	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	53.0	162.0	0.0	0.350993	0	A|0.996;G|0.004	0.004	strong	.	ZNF808	81	.	NM_001039886	exon5	c.A862G	p.K288E	CCTTACAAGTGTA	.	PASS	Atlas-SNP
FBXO34	55030	hgsc.bcm.edu	37	14	55818514	55818514	+	Missense_Mutation	SNP	C	C	T	rs59719421	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	97.0	200.0	0.0	0.434978	0	C|0.979;T|0.021	0.021	strong	.	FBXO34	61	.	NM_017943	exon2	c.C1406T	p.S469F	AGCCTTCCATTTT	.	PASS	Atlas-SNP
DHX36	170506	hgsc.bcm.edu	37	3	154002774	154002774	+	Silent	SNP	G	G	A	rs114098462	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	75.0	155.0	0.0	0.436047	0	G|0.992;A|0.008	0.008	strong	.	DHX36	98	.	NM_020865	exon18	c.C2034T	p.N678N	CAAAGCGTTCTGT	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38129311	38129311	+	Silent	SNP	C	C	T	rs200990219	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	80.0	171.0	0.0	0.470588	0	C|0.998;T|0.002	0.002	strong	.	TRIOBP	262	.	NM_001039141	exon8	c.C3954T	p.S1318S	GAAGTCCGAGGCA	.	PASS	Atlas-SNP
PRIMA1	145270	hgsc.bcm.edu	37	14	94187816	94187816	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	29.0	65.0	0.0	0.42029	0	.	.	none	.	PRIMA1	21	.	NM_178013	exon5	c.G436C	p.V146L	CGTCTACTCCTTT	.	PASS	Atlas-SNP
KIAA1984	84960	hgsc.bcm.edu	37	9	139698977	139698977	+	Silent	SNP	G	G	A	rs11145892	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	27.0	31.0	0.0	0.675	0	G|0.993;A|0.007	0.007	strong	.	KIAA1984	39	.	NM_001039374	exon7	c.G690A	p.A230A	GGAGGCGTCCTTC	.	PASS	Atlas-SNP
CSF1R	1436	hgsc.bcm.edu	37	5	149460544	149460544	+	Silent	SNP	G	G	A	rs41424646	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	94.0	136.0	1.0	0.505376	0.00735294	T|0.000;G|0.999;A|0.001	0.001	strong	CSF1R_ENST00000286301,caecum,carcinoma,-1,2	CSF1R	250	2	NM_005211	exon3	c.C93T	p.V31V	CTTCACGACCAGC	.	scavenged	Atlas-SNP
ZNF765	91661	hgsc.bcm.edu	37	19	53901281	53901281	+	Missense_Mutation	SNP	C	C	G	rs141876832	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	68.0	0.0	0.468354	0	C|0.962;G|0.038	0.038	strong	ZNF765_ENST00000396408,NS,carcinoma,-2,1	ZNF765	61	1	NM_001040185	exon2	c.C13G	p.Q5E	CTTCCTCAGGTGA	.	PASS	Atlas-SNP
NEUROG1	4762	hgsc.bcm.edu	37	5	134871280	134871280	+	Missense_Mutation	SNP	C	C	T	rs34137563	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	30.0	13.0	23.0	0.0	0.433333	0	C|0.993;T|0.007	0.007	strong	.	NEUROG1	18	.	NM_006161	exon1	c.G101A	p.R34K	TGGAGTCTGGCAC	.	PASS	Atlas-SNP
INMT	11185	hgsc.bcm.edu	37	7	30793532	30793532	+	Missense_Mutation	SNP	G	G	A	rs76338133	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	71.0	0.0	0.460526	0	G|0.984;A|0.016	0.016	strong	.	INMT	38	.	NM_006774	exon2	c.G340A	p.A114T	AAATTCGCCTGTG	.	PASS	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	37	12	56815717	56815717	+	Missense_Mutation	SNP	T	T	C	rs61733875	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	57.0	71.0	0.0	0.5	0	T|0.947;C|0.053	0.053	strong	.	TIMELESS	107	.	NM_003920	exon21	c.A2608G	p.M870V	GTCCCATCTGTAC	.	PASS	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	37	1	158517099	158517099	+	Missense_Mutation	SNP	C	C	A	rs113154921	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	68.0	152.0	0.0	0.478873	0	A|0.018;C|0.982;G|0.000	0.018	strong	.	OR6Y1	73	.	NM_001005189	exon1	c.G797T	p.R266L	TTGGGACGGGCAT	.	PASS	Atlas-SNP
RPE65	6121	hgsc.bcm.edu	37	1	68904645	68904645	+	Silent	SNP	C	C	A	rs61752907	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	72.0	128.0	0.0	0.503497	0	C|0.998;A|0.002	0.002	strong	.	RPE65	87	.	NM_000329	exon9	c.G978T	p.V326V	GAGATCCACAATC	.	PASS	Atlas-SNP
C8orf31	286122	hgsc.bcm.edu	37	8	144126087	144126087	+	Missense_Mutation	SNP	C	C	A	rs73717943	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	33.0	57.0	0.0	0.559322	0	C|0.973;A|0.027	0.027	strong	.	C8orf31	18	.	NM_173687	exon4	c.C208A	p.P70T	CTGGCACCCCAGG	.	PASS	Atlas-SNP
C2CD4C	126567	hgsc.bcm.edu	37	19	408200	408200	+	Silent	SNP	G	G	C	rs7252178	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	98.0	150.0	0.0	0.544444	0	G|0.971;C|0.029	0.029	strong	C2CD4C,NS,carcinoma,0,1	C2CD4C	13	1	NM_001136263	exon2	c.C162G	p.P54P	CAGCTTGGGGGGG	.	PASS	Atlas-SNP
PIP4K2B	8396	hgsc.bcm.edu	37	17	36936846	36936846	+	Silent	SNP	C	C	T	rs16968328	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	33.0	71.0	0.0	0.423077	0	C|0.931;T|0.069	0.069	strong	.	PIP4K2B	35	.	NM_003559	exon4	c.G366A	p.T122T	GCTGCGCGTCACT	.	PASS	Atlas-SNP
DPP8	54878	hgsc.bcm.edu	37	15	65793060	65793060	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	62.0	190.0	0.0	0.346369	0	.	.	none	DPP8,colon,carcinoma,+1,1	DPP8	78	1	NM_197960	exon5	c.C478T	p.R160C	CAATGCGTTTTCT	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81960783	81960783	+	Silent	SNP	G	G	A	rs115583707	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	39.0	81.0	0.0	0.527027	0	G|0.984;A|0.016	0.016	strong	.	PLCG2	276	.	NM_002661	exon23	c.G2514A	p.Q838Q	AAAGCAGGTGAGT	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113169116	113169116	+	Missense_Mutation	SNP	T	T	C	rs16914996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	52.0	66.0	0.0	0.702703	0	T|0.943;C|0.057	0.057	strong	.	SVEP1	326	.	NM_153366	exon38	c.A8764G	p.I2922V	GCAAGATGTAGCC	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	19735325	19735325	+	Silent	SNP	C	C	A	rs11828836	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	28.0	18.0	0.0	0.736842	0	C|0.975;A|0.025	0.025	strong	.	NAV2	255	.	NM_145117	exon1	c.C84A	p.P28P	CGTGCCCCCGGCC	.	PASS	Atlas-SNP
JPH3	57338	hgsc.bcm.edu	37	16	87717863	87717863	+	Missense_Mutation	SNP	C	C	T	rs138328691	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	218.0	121.0	192.0	0.0	0.555046	0	C|0.999;T|0.001	0.001	strong	JPH3,NS,carcinoma,-2,1	JPH3	95	1	NM_020655	exon3	c.C1276T	p.R426W	CAGCACCGGGAAA	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12420145	12420145	+	Silent	SNP	T	T	C	rs146236000	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	42.0	47.0	0.0	0.552632	0	T|0.994;C|0.006	0.006	strong	VWDE_ENST00000275358,NS,carcinoma,-2,1	VWDE	123	1	NM_001135924	exon5	c.A756G	p.E252E	ATCAAGTTCTAAA	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	37	19	23556550	23556550	+	Missense_Mutation	SNP	G	G	A	rs148956643	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	58.0	132.0	0.0	0.453125	0	G|0.992;A|0.008	0.008	strong	.	ZNF91	349	.	NM_003430	exon3	c.C247T	p.P83S	CTGTGGGTTCATC	.	PASS	Atlas-SNP
PPP1R3A	5506	hgsc.bcm.edu	37	7	113519267	113519267	+	Missense_Mutation	SNP	C	C	T	rs35067467	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	121.0	253.0	0.0	0.508403	0	C|0.959;T|0.041	0.041	strong	.	PPP1R3A	317	.	NM_002711	exon4	c.G1880A	p.R627K	TCATTCCTCAAAA	.	PASS	Atlas-SNP
FAM71B	153745	hgsc.bcm.edu	37	5	156589937	156589937	+	Missense_Mutation	SNP	G	G	A	rs115938677	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	24.0	78.0	0.0	0.375	0	G|0.995;A|0.005	0.005	strong	FAM71B,NS,carcinoma,0,1	FAM71B	145	1	NM_130899	exon2	c.C1339T	p.R447C	CCTTGCGGTGATG	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5410814	5410814	+	Silent	SNP	G	G	C	rs114987874	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	33.0	79.0	0.0	0.39759	0	G|0.984;C|0.016	0.016	strong	.	TNRC18	311	.	NM_001080495	exon11	c.C3411G	p.P1137P	CTTGGAGGGGGAC	.	PASS	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	37	5	140209593	140209593	+	Silent	SNP	A	A	G	rs61730636	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	72.0	140.0	1.0	0.489796	0.00714286	A|0.940;G|0.060	0.060	strong	PCDHA6_ENST00000529310,NS,carcinoma,+2,6	PCDHA6	442	6	NM_018909	exon1	c.A1917G	p.E639E	GGACGAAGCGGAC	.	scavenged	Atlas-SNP
CIT	11113	hgsc.bcm.edu	37	12	120139701	120139701	+	Silent	SNP	T	T	G	rs34140357	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	60.0	107.0	0.0	0.425532	0	T|0.947;G|0.053	0.053	strong	.	CIT	535	.	NM_001206999	exon42	c.A5367C	p.G1789G	ATTGGTTCCAATG	.	PASS	Atlas-SNP
C19orf21	126353	hgsc.bcm.edu	37	19	757354	757354	+	Silent	SNP	G	G	A	rs35090443	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	61.0	95.0	0.0	0.484127	0	G|0.982;A|0.018	0.018	strong	.	C19orf21	56	.	NM_173481	exon2	c.G408A	p.L136L	GAGGCTGTGTGAC	.	PASS	Atlas-SNP
CCNB2	9133	hgsc.bcm.edu	37	15	59406674	59406674	+	Missense_Mutation	SNP	T	T	C	rs16941036	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	61.0	102.0	0.0	0.484127	0	T|0.994;C|0.006	0.006	strong	.	CCNB2	23	.	NM_004701	exon4	c.T299C	p.M100T	TCTCCATGAAGGA	.	PASS	Atlas-SNP
ARID1B	57492	hgsc.bcm.edu	37	6	157505478	157505478	+	Silent	SNP	G	G	A	rs61745451	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	75.0	150.0	0.0	0.462963	0	G|0.989;A|0.011	0.011	strong	.	ARID1B	320	.	NM_020732	exon13	c.G3459A	p.E1153E	CTTTGAGTGCAAG	.	PASS	Atlas-SNP
STH	246744	hgsc.bcm.edu	37	17	44076711	44076711	+	Silent	SNP	G	G	A	rs73317018	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	90.0	164.0	0.0	0.5	0	A|0.027;C|0.000;G|0.972;T|0.000	0.027	strong	.	STH	14	.	NM_001007532	exon1	c.G66A	p.P22P	GTGGCCGGCCCTC	.	PASS	Atlas-SNP
WSB2	55884	hgsc.bcm.edu	37	12	118474238	118474238	+	Silent	SNP	G	G	A	rs34253698	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	59.0	140.0	0.0	0.44697	0	G|0.985;A|0.015	0.015	strong	.	WSB2	32	.	NM_018639	exon6	c.C738T	p.D246D	GGAGAAGTCACAA	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	846012	846012	+	Silent	SNP	C	C	T	rs114461038	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	40.0	92.0	0.0	0.444444	0	C|0.979;T|0.021	0.021	strong	.	CHTF18	52	.	NM_022092	exon18	c.C2391T	p.L797L	GATGCTCGCTTAC	.	PASS	Atlas-SNP
CXorf27	25763	hgsc.bcm.edu	37	X	37850385	37850385	+	Missense_Mutation	SNP	C	C	T	rs61737321	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	209.0	105.0	152.0	0.0	0.502392	0	C|0.994;T|0.006	0.006	strong	.	CXorf27	14	.	NM_012274	exon1	c.C293T	p.A98V	ACAGCGCTGAGAG	.	PASS	Atlas-SNP
CHMP6	79643	hgsc.bcm.edu	37	17	78972902	78972902	+	Silent	SNP	C	C	T	rs35687235	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	52.0	93.0	0.0	0.58427	0	C|0.968;T|0.032	0.032	strong	.	CHMP6	16	.	NM_024591	exon8	c.C555T	p.N185N	AGAAAACGTCCCT	.	PASS	Atlas-SNP
TBC1D4	9882	hgsc.bcm.edu	37	13	75861001	75861001	+	Missense_Mutation	SNP	A	A	G	rs557337	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	333.0	166.0	312.0	0.0	0.498498	0	A|0.827;G|0.173	0.173	strong	.	TBC1D4	142	.	NM_014832	exon21	c.T3824C	p.V1275A	CAATTGACTAGAG	.	PASS	Atlas-SNP
DENND1C	79958	hgsc.bcm.edu	37	19	6480013	6480013	+	Missense_Mutation	SNP	C	C	T	rs10416003	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	77.0	102.0	0.0	0.531034	0	C|0.991;T|0.009	0.009	strong	.	DENND1C	93	.	NM_024898	exon2	c.G67A	p.A23T	GGGAGGCAGGGCA	.	PASS	Atlas-SNP
SEC62	7095	hgsc.bcm.edu	37	3	169700525	169700525	+	Silent	SNP	C	C	G	rs35176867	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	98.0	176.0	0.0	0.502564	0	C|0.983;G|0.017	0.017	strong	.	SEC62	27	.	NM_003262	exon4	c.C282G	p.A94A	CCGAGCCCTAAAA	.	PASS	Atlas-SNP
PRKCG	5582	hgsc.bcm.edu	37	19	54410114	54410114	+	Missense_Mutation	SNP	A	A	G	rs73937614	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	89.0	180.0	0.0	0.427885	0	A|0.993;G|0.007	0.007	strong	.	PRKCG	246	.	NM_002739	exon18	c.A2059G	p.S687G	GCCCGCAGCCCCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505863	195505863	+	Silent	SNP	G	G	A	rs113561118		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	297.0	15.0	198.0	0.0	0.050505	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C12588T	p.T4196T	AGTGTCGGTGACA	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179428061	179428061	+	Missense_Mutation	SNP	C	C	T	rs11896637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	115.0	198.0	0.0	0.483193	0	C|0.965;T|0.035	0.035	strong	.	TTN	18412	.	NM_001267550	exon326	c.G82798A	p.A27600T	CAGGTGCGCCACC	.	PASS	Atlas-SNP
EGR4	1961	hgsc.bcm.edu	37	2	73518716	73518716	+	Missense_Mutation	SNP	C	C	T	rs141733943		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	99.0	146.0	0.0	0.5625	0	C|1.000;T|0.000	0.000	weak	.	EGR4	52	.	NM_001965	exon2	c.G1639A	p.G547S	GGCGGCCGCACAC	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32041621	32041621	+	Missense_Mutation	SNP	G	G	A	rs6910390	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	100.0	182.0	0.0	0.526316	0	G|0.992;A|0.008	0.008	strong	.	TNXB	553	.	NM_019105	exon12	c.C4484T	p.T1495I	GGGACTGTCCAGG	.	PASS	Atlas-SNP
SPINK1	6690	hgsc.bcm.edu	37	5	147207605	147207605	+	Silent	SNP	G	G	A	rs35737774	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	41.0	42.0	0.0	1	0	G|0.956;A|0.044	0.044	strong	.	SPINK1	9	.	NM_003122	exon3	c.C174T	p.C58C	TAACACGCATTCA	.	PASS	Atlas-SNP
CSNK2A3	283106	hgsc.bcm.edu	37	11	11373631	11373631	+	Missense_Mutation	SNP	C	C	T	rs74507390	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	50.0	126.0	0.0	0.5	0	C|0.965;T|0.035	0.035	strong	.	.	.	.	NM_001256686	exon1	c.G1036A	p.V346I	TGCTGACGGGCGT	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36678816	36678816	+	Silent	SNP	C	C	A	rs80050551	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	26.0	28.0	0.0	0.619048	0	C|0.969;A|0.031	0.031	strong	MYH9,NS,NS,0,1	MYH9	225	1	NM_002473	exon41	c.G5781T	p.P1927P	GACAAACGGCAGG	.	PASS	Atlas-SNP
KRTAP10-4	386672	hgsc.bcm.edu	37	21	45993990	45993990	+	Missense_Mutation	SNP	T	T	C	rs79601471	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	530.0	140.0	575.0	0.0	0.264151	0	T|0.955;C|0.045	0.045	strong	.	KRTAP10-4	44	.	NM_198687	exon1	c.T355C	p.C119R	ACTGTCTGCTGCA	.	PASS	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3670646	3670646	+	Silent	SNP	C	C	T	rs8115679	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	75.0	178.0	0.0	0.421348	0	C|0.974;T|0.026	0.026	strong	.	SIGLEC1	210	.	NM_023068	exon18	c.G4857A	p.L1619L	AGAGCCCAGGACA	.	PASS	Atlas-SNP
RAI14	26064	hgsc.bcm.edu	37	5	34687817	34687817	+	Missense_Mutation	SNP	T	T	C	rs10521016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	180.0	150.0	0.0	0.994475	0	T|0.955;C|0.045	0.045	strong	.	RAI14	100	.	NM_001145523	exon1	c.T2C	p.M1T	ATTAGATGGAAGC	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155219373	155219373	+	Silent	SNP	A	A	G	rs17031391	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	98.0	199.0	0.0	0.457944	0	A|0.913;G|0.087	0.087	strong	.	DCHS2	594	.	NM_017639	exon18	c.T4728C	p.V1576V	GTCATTAACATCA	.	PASS	Atlas-SNP
OR5B2	390190	hgsc.bcm.edu	37	11	58190228	58190228	+	Silent	SNP	G	G	A	rs77952368	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	43.0	60.0	0.0	0.597222	0	G|0.993;A|0.007	0.007	strong	OR5B2,NS,carcinoma,-1,1	OR5B2	75	1	NM_001005566	exon1	c.C507T	p.S169S	CAGATTGGATTTA	.	PASS	Atlas-SNP
IFNA5	3442	hgsc.bcm.edu	37	9	21305048	21305048	+	Missense_Mutation	SNP	G	G	C	rs138121530	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	288.0	138.0	332.0	0.0	0.479167	0	G|0.984;C|0.016	0.016	strong	.	IFNA5	21	.	NM_002169	exon1	c.C208G	p.Q70E	GGAACTGGTTGCC	.	PASS	Atlas-SNP
CD33	945	hgsc.bcm.edu	37	19	51729594	51729594	+	Missense_Mutation	SNP	T	T	C	rs11882250	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	56.0	94.0	0.0	0.518519	0	T|0.958;C|0.042	0.042	strong	.	CD33	55	.	NM_001772	exon4	c.T727C	p.F243L	GGTATCTTTCCAG	.	PASS	Atlas-SNP
PDE3A	5139	hgsc.bcm.edu	37	12	20522487	20522487	+	Missense_Mutation	SNP	A	A	G	rs372953537		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	34.0	68.0	0.0	0.459459	0	.	.	weak	.	PDE3A	184	.	NM_000921	exon1	c.A269G	p.E90G	ACCTGGAGCAGTG	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26774089	26774089	+	Missense_Mutation	SNP	T	T	G	rs2230373	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	281.0	139.0	254.0	1.0	0.494662	0.00393701	T|0.944;G|0.056	0.056	strong	.	ITPR2	270	.	NM_002223	exon26	c.A3429C	p.E1143D	TTGACTTTCCCCT	.	PASS	Atlas-SNP
PLA2G4E	123745	hgsc.bcm.edu	37	15	42289456	42289456	+	Missense_Mutation	SNP	G	G	C	rs79040960	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	53.0	125.0	0.0	0.5	0	G|0.982;C|0.018	0.018	strong	.	PLA2G4E	60	.	NM_001206670	exon11	c.C976G	p.P326A	TCTCAGGGCTGGA	.	PASS	Atlas-SNP
ZP4	57829	hgsc.bcm.edu	37	1	238049143	238049143	+	Missense_Mutation	SNP	G	G	A	rs34811980	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	51.0	73.0	0.0	0.542553	0	G|0.973;A|0.027	0.027	strong	.	ZP4	161	.	NM_021186	exon7	c.C883T	p.P295S	TGATTGGGAGAGA	.	PASS	Atlas-SNP
PHPT1	29085	hgsc.bcm.edu	37	9	139745012	139745012	+	Missense_Mutation	SNP	G	G	T	rs149543778	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	36.0	50.0	0.0	0.590164	0	G|0.996;T|0.004	0.004	strong	.	PHPT1	14	.	NM_001135861	exon3	c.G340T	p.G114C	CATCAAGGTTTGC	.	PASS	Atlas-SNP
PRSS35	167681	hgsc.bcm.edu	37	6	84233325	84233325	+	Silent	SNP	G	G	A	rs147168330	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	84.0	209.0	0.0	0.424242	0	G|0.997;A|0.003	0.003	strong	.	PRSS35	60	.	NM_153362	exon2	c.G165A	p.K55K	TGCTAAGATGATG	.	PASS	Atlas-SNP
SLC5A9	200010	hgsc.bcm.edu	37	1	48697713	48697713	+	Missense_Mutation	SNP	C	C	T	rs140292897	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	233.0	232.0	248.0	0.0	0.995708	0	C|0.998;T|0.002	0.002	strong	.	SLC5A9	82	.	NM_001135181	exon8	c.C862T	p.R288W	CTCCCACGGCCCG	.	PASS	Atlas-SNP
FER	2241	hgsc.bcm.edu	37	5	108294979	108294979	+	Silent	SNP	T	T	C	rs34869483	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	44.0	122.0	0.0	0.392857	0	T|0.988;C|0.012	0.012	strong	.	FER	100	.	NM_005246	exon13	c.T1587C	p.D529D	TATAGATCATCAC	.	PASS	Atlas-SNP
ADAM8	101	hgsc.bcm.edu	37	10	135077265	135077265	+	Missense_Mutation	SNP	A	A	G	rs3008319	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	22.0	58.0	0.0	0.423077	0	A|0.917;G|0.083	0.083	strong	ADAM8,NS,carcinoma,0,1	ADAM8	41	1	NM_001109	exon22	c.T2324C	p.I775T	GGCTTGATGACCT	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160737717	160737717	+	Silent	SNP	G	G	A	rs79199281	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	23.0	88.0	0.0	0.258427	0	G|0.994;A|0.006	0.006	strong	.	LY75	151	.	NM_002349	exon8	c.C1281T	p.N427N	GTTTATGTTCTTA	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11164	11164	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	10.0	10.0	15.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.A405G	p.R135R	CACCCGATGAGGC	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7246994	7246994	+	Silent	SNP	C	C	T	rs187908583	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	16.0	10.0	14.0	0.0	0.625	0	C|0.993;T|0.007	0.007	strong	.	RREB1	242	.	NM_001003699	exon12	c.C4311T	p.G1437G	GGCAGGCGCCGGG	.	PASS	Atlas-SNP
LRRIQ3	127255	hgsc.bcm.edu	37	1	74575141	74575141	+	Silent	SNP	G	G	A	rs182798407	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	59.0	98.0	0.0	0.491667	0	G|0.997;A|0.003	0.003	strong	LRRIQ3,right_upper_lobe,carcinoma,-1,1	LRRIQ3	146	1	NM_001105659	exon5	c.C804T	p.L268L	CTTAAGGAGCTTA	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16248791	16248791	+	Missense_Mutation	SNP	C	C	T	rs57695665	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	58.0	115.0	0.0	0.537037	0	C|0.994;T|0.006	0.006	strong	.	ABCC6	110	.	NM_001171	exon28	c.G3980A	p.G1327E	GGGACCCCGTCGA	.	PASS	Atlas-SNP
RBBP4	5928	hgsc.bcm.edu	37	1	33134865	33134865	+	Silent	SNP	A	A	C	rs11551266	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	94.0	236.0	1.0	0.437209	0.00423729	A|0.925;C|0.075	0.075	strong	.	RBBP4	38	.	NM_005610	exon7	c.A795C	p.P265P	CAAACCAAGCCAC	.	PASS	Atlas-SNP
MAST1	22983	hgsc.bcm.edu	37	19	12978556	12978556	+	Silent	SNP	C	C	G	rs202159363	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	33.0	61.0	0.0	0.532258	0	C|0.995;G|0.005	0.005	strong	.	MAST1	214	.	NM_014975	exon20	c.C2331G	p.S777S	ATTCTCCGCGTCC	.	PASS	Atlas-SNP
NEDD9	4739	hgsc.bcm.edu	37	6	11190859	11190859	+	Missense_Mutation	SNP	G	G	A	rs61755989	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	51.0	95.0	0.0	0.485714	0	G|0.981;A|0.019	0.019	strong	.	NEDD9	191	.	NM_001142393	exon6	c.C1243T	p.R415W	GGAGCCGCTGAAG	.	PASS	Atlas-SNP
KCNK18	338567	hgsc.bcm.edu	37	10	118969353	118969353	+	Missense_Mutation	SNP	C	C	T	rs363360	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	56.0	110.0	1.0	0.466667	0.00909091	A|0.000;C|0.963;T|0.037	0.037	strong	KCNK18,colon,carcinoma,0,1	KCNK18	70	1	NM_181840	exon3	c.C698T	p.A233V	CTCATGCGCTAGA	.	scavenged	Atlas-SNP
RSF1	51773	hgsc.bcm.edu	37	11	77413223	77413223	+	Missense_Mutation	SNP	T	T	C	rs78433827	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	288.0	162.0	256.0	1.0	0.5625	0.00390625	T|0.992;C|0.008	0.008	strong	RSF1,caecum,carcinoma,+2,1	RSF1	105	1	NM_016578	exon6	c.A1051G	p.I351V	ATTCGATCCTTTC	.	PASS	Atlas-SNP
TSHZ3	57616	hgsc.bcm.edu	37	19	31768491	31768491	+	Silent	SNP	G	G	A	rs139947200	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	27.0	63.0	0.0	0.409091	0	G|0.999;A|0.001	0.001	strong	.	TSHZ3	549	.	NM_020856	exon2	c.C2208T	p.A736A	CTTGGCGGCCTTG	.	PASS	Atlas-SNP
FBXO44	93611	hgsc.bcm.edu	37	1	11721321	11721321	+	Missense_Mutation	SNP	G	G	A	rs12057383	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	66.0	128.0	0.0	0.468085	0	G|0.924;A|0.076	0.076	strong	.	FBXO44	20	.	NM_183412	exon5	c.G634A	p.A212T	GCCCCCGCTGCCC	.	PASS	Atlas-SNP
CCDC17	149483	hgsc.bcm.edu	37	1	46086588	46086588	+	Missense_Mutation	SNP	T	T	C	rs16832629	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	57.0	128.0	0.0	0.407143	0	T|0.993;C|0.007	0.007	strong	.	CCDC17	54	.	NM_001114938	exon11	c.A1586G	p.N529S	ATCCCATTCAGCT	.	PASS	Atlas-SNP
ENOX1	55068	hgsc.bcm.edu	37	13	43987003	43987003	+	Missense_Mutation	SNP	C	C	G	rs7338624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	49.0	96.0	0.0	0.526882	0	C|0.955;G|0.045	0.045	strong	.	ENOX1	158	.	NM_017993	exon4	c.G48C	p.E16D	AGGAAGCTCCTGG	.	PASS	Atlas-SNP
CGN	57530	hgsc.bcm.edu	37	1	151493098	151493098	+	Silent	SNP	C	C	T	rs141884525	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	101.0	192.0	0.0	0.515306	0	C|0.997;T|0.003	0.003	strong	.	CGN	106	.	NM_020770	exon5	c.C1071T	p.A357A	TAAGGCCGTGGCA	.	PASS	Atlas-SNP
UNC5A	90249	hgsc.bcm.edu	37	5	176305523	176305523	+	Silent	SNP	C	C	T	rs146460064	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	222.0	116.0	223.0	1.0	0.522523	0.00448431	C|0.996;T|0.004	0.004	strong	.	UNC5A	76	.	NM_133369	exon13	c.C2067T	p.H689H	CTTGCACTGCACC	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50532155	50532155	+	Missense_Mutation	SNP	T	T	G	rs61453891	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	45.0	82.0	0.0	0.511364	0	T|0.977;G|0.023	0.023	strong	.	C10orf71	179	.	NM_001135196	exon3	c.T1565G	p.V522G	TGAAAGTGCTTGA	.	PASS	Atlas-SNP
HIST3H3	8290	hgsc.bcm.edu	37	1	228612934	228612934	+	Silent	SNP	A	A	G	rs61740979	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	24.0	93.0	0.0	0.375	0	A|0.981;G|0.019	0.019	strong	.	HIST3H3	20	.	NM_003493	exon1	c.T93C	p.P31P	AGTGGCAGGTGCG	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	37	11	55999879	55999879	+	Silent	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	94.0	197.0	1.0	0.429224	0.00507614	.	.	none	OR5T2,NS,carcinoma,0,1	OR5T2	107	1	NM_001004746	exon1	c.G783T	p.L261L	GGCCAACAGAATC	.	scavenged	Atlas-SNP
GRHL1	29841	hgsc.bcm.edu	37	2	10101289	10101289	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	80.0	177.0	0.0	0.441989	0	.	.	none	.	GRHL1	95	.	NM_198182	exon4	c.C393T	p.G131G	GCTGGGCATTGAT	.	PASS	Atlas-SNP
MYO19	80179	hgsc.bcm.edu	37	17	34856697	34856697	+	Missense_Mutation	SNP	A	A	G	rs56919948	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	26.0	73.0	0.0	0.361111	0	A|0.996;G|0.004	0.004	strong	.	MYO19	130	.	NM_001163735	exon24	c.T2350C	p.W784R	CCCGCCACTGCCG	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33588874	33588874	+	Silent	SNP	G	G	A	rs76931580	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	85.0	198.0	0.0	0.442708	0	G|0.996;A|0.004	0.004	strong	.	MYH7B	145	.	NM_020884	exon41	c.G5514A	p.T1838T	GCAGACGGTGCGC	.	PASS	Atlas-SNP
SCN5A	6331	hgsc.bcm.edu	37	3	38592356	38592356	+	Missense_Mutation	SNP	A	A	G	rs45563942	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	37.0	72.0	0.0	0.513889	0	A|0.999;G|0.001	0.001	strong	.	SCN5A	634	.	NM_198056	exon28	c.T5507C	p.I1836T	ATGTTGATGAGGC	.	PASS	Atlas-SNP
SIDT1	54847	hgsc.bcm.edu	37	3	113285272	113285272	+	Silent	SNP	A	A	C	rs61734094	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	72.0	133.0	0.0	0.517986	0	A|0.978;C|0.022	0.022	strong	.	SIDT1	99	.	NM_017699	exon2	c.A228C	p.T76T	GGTGACAGCCGTG	.	PASS	Atlas-SNP
FURIN	5045	hgsc.bcm.edu	37	15	91419098	91419098	+	Missense_Mutation	SNP	C	C	T	rs16944971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	57.0	59.0	0.0	1	0	C|0.968;T|0.032	0.032	strong	.	FURIN	85	.	NM_002569	exon2	c.C128T	p.A43V	GCCCAGCGGTGGC	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104089586	104089586	+	Silent	SNP	C	C	T	rs17034395	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	52.0	142.0	0.0	0.422764	0	C|0.930;T|0.070	0.070	strong	.	STAB2	370	.	NM_017564	exon33	c.C3546T	p.I1182I	TGCCATCGAGAAT	.	PASS	Atlas-SNP
MAPK13	5603	hgsc.bcm.edu	37	6	36104468	36104468	+	Silent	SNP	C	C	G	rs115013068	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	98.0	169.0	0.0	0.524064	0	C|0.990;G|0.010	0.010	strong	.	MAPK13	65	.	NM_002754	exon7	c.C531G	p.A177A	AGACGCCGAGATG	.	PASS	Atlas-SNP
DEFB136	613210	hgsc.bcm.edu	37	8	11831557	11831557	+	Silent	SNP	G	G	A	rs73538682	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	141.0	173.0	1.0	1	0.00578035	G|0.980;A|0.020	0.020	strong	.	DEFB136	16	.	NM_001033018	exon2	c.C126T	p.F42F	ACACCCGAAGAAA	.	PASS	Atlas-SNP
EMX2	2018	hgsc.bcm.edu	37	10	119305282	119305282	+	Silent	SNP	C	C	A	rs424112	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	95.0	159.0	0.0	0.533708	0	C|0.962;A|0.038	0.038	strong	.	EMX2	25	.	NM_004098	exon2	c.C546A	p.A182A	GGGCGCCGAAAGG	.	PASS	Atlas-SNP
TET1	80312	hgsc.bcm.edu	37	10	70406747	70406747	+	Missense_Mutation	SNP	A	A	G	rs144156611	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	54.0	140.0	0.0	0.425197	0	A|0.995;G|0.005	0.005	strong	.	TET1	255	.	NM_030625	exon4	c.A4261G	p.T1421A	CTGCCCACCTGCA	.	PASS	Atlas-SNP
SERPINB2	5055	hgsc.bcm.edu	37	18	61565014	61565014	+	Silent	SNP	C	C	T	rs6106	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	106.0	212.0	0.0	0.495327	0	C|0.933;T|0.067	0.067	strong	.	SERPINB2	63	.	NM_002575	exon5	c.C471T	p.D157D	AGTAGACTTCCTA	.	PASS	Atlas-SNP
ERCC4	2072	hgsc.bcm.edu	37	16	14038659	14038659	+	Missense_Mutation	SNP	T	T	C	rs2020955	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	61.0	168.0	0.0	0.458647	0	T|0.934;C|0.066	0.066	strong	.	ERCC4	100	.	NM_005236	exon10	c.T1984C	p.S662P	ACAGCATCTGCAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507060	195507060	+	Missense_Mutation	SNP	G	G	T	rs202129071	byfrequency;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	15.0	159.0	0.0	0.0955414	0	G|0.956;A|0.044	.	alt	MUC4_ENST00000463781,NS,carcinoma,-2,1	MUC4	1505	1	NM_018406	exon2	c.C11391A	p.D3797E	GGAAGTGTCGGTG	.	scavenged	Atlas-SNP
CATSPER3	347732	hgsc.bcm.edu	37	5	134343766	134343766	+	Missense_Mutation	SNP	T	T	G	rs3896260	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	303.0	145.0	249.0	0.0	0.478548	0	T|0.860;G|0.140	0.140	strong	.	CATSPER3	38	.	NM_178019	exon4	c.T612G	p.N204K	AGACAATGGTGAC	.	PASS	Atlas-SNP
SMYD1	150572	hgsc.bcm.edu	37	2	88396213	88396213	+	Silent	SNP	G	G	A	rs13403507	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	58.0	156.0	0.0	0.504348	0	G|0.992;A|0.008	0.008	strong	.	SMYD1	95	.	NM_198274	exon6	c.G798A	p.L266L	GCAGCTGAAGAAG	.	PASS	Atlas-SNP
GSDMC	56169	hgsc.bcm.edu	37	8	130762324	130762324	+	Silent	SNP	A	A	G	rs35085916	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	67.0	102.0	0.0	0.603604	0	A|0.981;G|0.019	0.019	strong	.	GSDMC	71	.	NM_031415	exon12	c.T1125C	p.G375G	GATGGCACCACCA	.	PASS	Atlas-SNP
CDK12	51755	hgsc.bcm.edu	37	17	37619038	37619038	+	Silent	SNP	G	G	A	rs35896550	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	29.0	45.0	0.0	0.508772	0	G|0.933;A|0.067	0.067	strong	CDK12,NS,carcinoma,+1,1	CDK12	161	1	NM_016507	exon1	c.G714A	p.S238S	CCCCTCGGGAGCT	.	PASS	Atlas-SNP
ETV7	51513	hgsc.bcm.edu	37	6	36341251	36341251	+	Missense_Mutation	SNP	G	G	A	rs9470262	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	63.0	130.0	0.0	0.443662	0	G|0.988;A|0.012	0.012	strong	.	ETV7	31	.	NM_001207035	exon4	c.C412T	p.H138Y	GAGAGTGCTGGGT	.	PASS	Atlas-SNP
SEMA6C	10500	hgsc.bcm.edu	37	1	151107277	151107277	+	Missense_Mutation	SNP	C	C	T	rs149398166	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	107.0	178.0	0.0	0.519417	0	C|0.995;T|0.005	0.005	strong	.	SEMA6C	70	.	NM_001178061	exon16	c.G1655A	p.G552D	TACCCACCAGATC	.	PASS	Atlas-SNP
INCENP	3619	hgsc.bcm.edu	37	11	61906397	61906397	+	Missense_Mutation	SNP	A	A	G	rs138049815	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	68.0	64.0	0.0	0.548387	0	A|0.996;G|0.004	0.004	strong	.	INCENP	122	.	NM_001040694	exon7	c.A1211G	p.N404S	CCCACAATGACAC	.	PASS	Atlas-SNP
CCR2	729230	hgsc.bcm.edu	37	3	46401243	46401243	+	Silent	SNP	A	A	G	rs3918386	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	32.0	87.0	0.0	0.432432	0	A|0.940;G|0.060	0.060	strong	.	CCR2	103	.	NM_001123041	exon3	c.A1017G	p.P339P	GAGACCAGGAAAG	.	PASS	Atlas-SNP
CLEC14A	161198	hgsc.bcm.edu	37	14	38724043	38724043	+	Silent	SNP	G	G	A	rs78287081	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	38.0	72.0	0.0	0.5	0	G|0.992;A|0.008	0.008	strong	.	CLEC14A	83	.	NM_175060	exon1	c.C1185T	p.S395S	GGCAGAGGAGGAG	.	PASS	Atlas-SNP
KRTAP4-4	84616	hgsc.bcm.edu	37	17	39316482	39316482	+	Missense_Mutation	SNP	C	C	G	rs366700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	251.0	250.0	218.0	0.0	0.996016	0	C|0.938;G|0.062	0.062	strong	.	KRTAP4-4	21	.	NM_032524	exon1	c.G462C	p.R154S	GTAGCACCTGGAC	.	PASS	Atlas-SNP
DSE	29940	hgsc.bcm.edu	37	6	116758004	116758004	+	Silent	SNP	C	C	T	rs367781233		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	64.0	113.0	0.0	0.450704	0	.	.	weak	.	DSE	98	.	NM_001080976	exon6	c.C2373T	p.D791D	CATTGACAGGATT	.	PASS	Atlas-SNP
CIAPIN1	57019	hgsc.bcm.edu	37	16	57468110	57468110	+	Silent	SNP	G	G	A	rs77773186	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	56.0	122.0	0.0	0.583333	0	G|0.993;A|0.007	0.007	strong	.	CIAPIN1	17	.	NM_020313	exon5	c.C402T	p.P134P	GGTTAGGGGCTCC	.	PASS	Atlas-SNP
C1orf127	148345	hgsc.bcm.edu	37	1	11008594	11008594	+	Missense_Mutation	SNP	A	A	T	rs1281016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	86.0	199.0	0.0	0.480447	0	A|0.922;T|0.078	0.078	strong	.	C1orf127	134	.	NM_001170754	exon12	c.T1598A	p.V533D	CCTGAGACCAGAA	.	PASS	Atlas-SNP
ZBTB24	9841	hgsc.bcm.edu	37	6	109787596	109787596	+	Missense_Mutation	SNP	C	C	T	rs2232448	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	77.0	112.0	0.0	0.583333	0	C|0.918;T|0.082	0.082	strong	.	ZBTB24	64	.	NM_014797	exon7	c.G1552A	p.A518T	CTGAAGCATGCTT	.	PASS	Atlas-SNP
ENDOG	2021	hgsc.bcm.edu	37	9	131584649	131584649	+	Silent	SNP	C	C	T	rs55985529	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	66.0	105.0	0.0	0.616822	0	C|0.970;T|0.030	0.030	strong	.	ENDOG	8	.	NM_004435	exon3	c.C654T	p.I218I	GGTCATCGGCAAG	.	PASS	Atlas-SNP
LRRTM1	347730	hgsc.bcm.edu	37	2	80529706	80529706	+	Silent	SNP	A	A	G	rs35054232	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	13.0	33.0	0.0	0.351351	0	A|0.958;G|0.042	0.042	strong	.	LRRTM1	251	.	NM_178839	exon2	c.T1239C	p.L413L	GCCTGGAAGAGCC	.	PASS	Atlas-SNP
SEMG1	6406	hgsc.bcm.edu	37	20	43836237	43836237	+	Missense_Mutation	SNP	T	T	A	rs61729393	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	92.0	157.0	0.0	0.476684	0	T|0.988;A|0.012	0.012	strong	.	SEMG1	71	.	NM_003007	exon2	c.T299A	p.L100Q	GACATCTAGGTGG	.	PASS	Atlas-SNP
AGT	183	hgsc.bcm.edu	37	1	230846305	230846305	+	Missense_Mutation	SNP	C	C	T	rs11568032	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	86.0	193.0	0.0	0.469945	0	C|0.994;T|0.006	0.006	strong	.	AGT	62	.	NM_000029	exon2	c.G292A	p.E98K	TGTCTTCGGTGTC	.	PASS	Atlas-SNP
ARHGEF2	9181	hgsc.bcm.edu	37	1	155931630	155931630	+	Silent	SNP	G	G	A	rs143812169	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	95.0	201.0	0.0	0.502645	0	G|0.995;A|0.005	0.005	strong	.	ARHGEF2	81	.	NM_001162383	exon11	c.C1290T	p.D430D	ACCCTCGTCCACA	.	PASS	Atlas-SNP
SPOCK1	6695	hgsc.bcm.edu	37	5	136448208	136448208	+	Silent	SNP	A	A	G	rs17170968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	25.0	75.0	0.0	0.403226	0	A|0.924;G|0.076	0.076	strong	.	SPOCK1	58	.	NM_004598	exon5	c.T390C	p.P130P	ATTCGAAGGTCCA	.	PASS	Atlas-SNP
ABHD2	11057	hgsc.bcm.edu	37	15	89738475	89738475	+	Missense_Mutation	SNP	A	A	C	rs147106119	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	55.0	115.0	0.0	0.478261	0	A|0.999;C|0.001	0.001	strong	.	ABHD2	55	.	NM_007011	exon15	c.A1099C	p.M367L	AACGTCATGTTTG	.	PASS	Atlas-SNP
UNC5B	219699	hgsc.bcm.edu	37	10	73051440	73051440	+	Missense_Mutation	SNP	G	G	A	rs10509332	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	45.0	75.0	0.0	0.517241	0	G|0.960;A|0.040	0.040	strong	.	UNC5B	123	.	NM_170744	exon10	c.G1546A	p.A516T	GATTTCGCCCGGG	.	PASS	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	37	2	1647186	1647186	+	Silent	SNP	G	G	A	rs111450110	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	31.0	65.0	0.0	0.43662	0	G|0.992;A|0.008	0.008	strong	.	PXDN	255	.	NM_012293	exon19	c.C3906T	p.D1302D	GATCTCGTCACAG	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140603248	140603248	+	Silent	SNP	G	G	A	rs7713000	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	106.0	188.0	0.0	0.517073	0	G|0.975;A|0.025	0.025	strong	.	PCDHB14	132	.	NM_018934	exon1	c.G171A	p.E57E	GGTGGAGGAGCTG	.	PASS	Atlas-SNP
CCT5	22948	hgsc.bcm.edu	37	5	10262607	10262607	+	Silent	SNP	G	G	A	rs113262482	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	68.0	120.0	0.0	0.475524	0	G|0.992;A|0.008	0.008	strong	.	CCT5	49	.	NM_012073	exon9	c.G1194A	p.A398A	GGAGGCGAAACGA	.	PASS	Atlas-SNP
GALNT10	55568	hgsc.bcm.edu	37	5	153792453	153792453	+	Missense_Mutation	SNP	G	G	A	rs142635658	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	31.0	17.0	41.0	0.0	0.548387	0	G|0.997;A|0.003	0.003	strong	.	GALNT10	70	.	NM_198321	exon10	c.G1391A	p.R464Q	AGATCCGAAATGT	.	PASS	Atlas-SNP
CEP78	84131	hgsc.bcm.edu	37	9	80881357	80881357	+	Splice_Site	SNP	G	G	C	rs146563928	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	10.0	34.0	0.0	0.344828	0	G|0.999;C|0.001	0.001	strong	.	CEP78	79	.	NM_001098802	exon16	c.1849-1G>C	.	CTTCTAGTTTCAG	.	PASS	Atlas-SNP
AGMO	392636	hgsc.bcm.edu	37	7	15458194	15458194	+	Missense_Mutation	SNP	T	T	A	rs146442781	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	81.0	140.0	1.0	0.5	0.00714286	T|0.997;A|0.003	0.003	strong	AGMO,NS,carcinoma,0,1	AGMO	98	1	NM_001004320	exon5	c.A598T	p.I200F	TATGGATCCAAAA	.	scavenged	Atlas-SNP
DEFB1	1672	hgsc.bcm.edu	37	8	6728298	6728298	+	Missense_Mutation	SNP	C	C	T	rs2738047	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	71.0	122.0	0.0	0.554688	0	T|0.041;C|0.959	0.041	strong	.	DEFB1	4	.	NM_005218	exon2	c.G112A	p.V38I	TGCTGACGCAATT	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149498945	149498945	+	Missense_Mutation	SNP	C	C	T	rs73727615	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	44.0	105.0	0.0	0.564103	0	C|0.982;T|0.018	0.018	strong	.	.	.	.	NM_198455	exon50	c.C7397T	p.P2466L	GTTCCCCGAGCCA	.	PASS	Atlas-SNP
ALPI	248	hgsc.bcm.edu	37	2	233323000	233323000	+	Silent	SNP	C	C	T	rs10195208	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	266.0	128.0	240.0	1.0	0.481203	0.00416667	C|0.950;T|0.050	0.050	strong	ALPI,NS,carcinoma,+2,1	ALPI	64	1	NM_001631	exon9	c.C1065T	p.D355D	CGACGACGCCATT	.	PASS	Atlas-SNP
ADIPOQ	9370	hgsc.bcm.edu	37	3	186570951	186570951	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	241.0	128.0	235.0	1.0	0.53112	0.00425532	.	.	none	.	ADIPOQ	35	.	NM_001177800	exon3	c.C104T	p.A35V	AGGGGGCCTGCAC	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149486726	149486726	+	Silent	SNP	T	T	C	rs855695	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	77.0	140.0	0.0	0.606299	0	T|0.974;C|0.026	0.026	strong	.	.	.	.	NM_198455	exon31	c.T4500C	p.V1500V	CTGTGTTGATGGC	.	PASS	Atlas-SNP
JMJD7-PLA2G4B	8681	hgsc.bcm.edu	37	15	42138572	42138572	+	Missense_Mutation	SNP	C	C	T	rs36126315	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	55.0	114.0	0.0	0.491071	0	C|0.985;T|0.015	0.015	strong	.	JMJD7-PLA2G4B	90	.	NM_005090	exon22	c.C2465T	p.T822I	TCTCCACATGGAA	.	PASS	Atlas-SNP
SRRM2	23524	hgsc.bcm.edu	37	16	2813177	2813177	+	Missense_Mutation	SNP	C	C	G	rs17136053	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	21.0	47.0	0.0	0.428571	0	C|0.969;G|0.031	0.031	strong	.	SRRM2	263	.	NM_016333	exon11	c.C2648G	p.S883C	TGAAATCTAGGAC	.	PASS	Atlas-SNP
HSPB8	26353	hgsc.bcm.edu	37	12	119631654	119631654	+	Silent	SNP	C	C	T	rs4628742	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	74.0	156.0	0.0	0.4625	0	C|0.917;T|0.083	0.083	strong	.	HSPB8	45	.	NM_014365	exon3	c.C582T	p.T194T	AGTCACCTGTACC	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46058043	46058043	+	Missense_Mutation	SNP	C	C	T	rs77109703	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	380.0	84.0	218.0	0.0	0.221053	0	C|0.966;T|0.034	0.034	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.C709T	p.R237C	TGCTCCCGCCCTG	.	PASS	Atlas-SNP
SOGA3	387104	hgsc.bcm.edu	37	6	127797389	127797389	+	Silent	SNP	C	C	T	rs61741826	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	38.0	89.0	0.0	0.447059	0	C|0.999;T|0.001	0.001	strong	.	.	.	.	NM_001012279	exon6	c.G1782A	p.V594V	TTCCTCCACCAGC	.	PASS	Atlas-SNP
TRIM41	90933	hgsc.bcm.edu	37	5	180661274	180661274	+	Missense_Mutation	SNP	C	C	G	rs78013120	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	28.0	40.0	0.0	0.56	0	C|0.995;G|0.005	0.005	strong	.	TRIM41	96	.	NM_201627	exon6	c.C1392G	p.D464E	TGCTGACCATCCC	.	PASS	Atlas-SNP
TMEM204	79652	hgsc.bcm.edu	37	16	1584294	1584294	+	Silent	SNP	C	C	T	rs79579867	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	98.0	182.0	0.0	0.485149	0	C|0.979;T|0.021	0.021	strong	.	TMEM204	29	.	NM_024600	exon1	c.C18T	p.L6L	GAGACTCGTGGCC	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71248046	71248046	+	Silent	SNP	A	A	G	rs9455152	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	96.0	204.0	0.0	0.551724	0	A|0.974;G|0.026	0.026	strong	.	FAM135A	181	.	NM_001162529	exon18	c.A4170G	p.T1390T	GCTGACATGTCGA	.	PASS	Atlas-SNP
HEATR5B	54497	hgsc.bcm.edu	37	2	37280711	37280711	+	Silent	SNP	T	T	C	rs10202107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	101.0	221.0	0.0	0.515306	0	T|0.989;C|0.011	0.011	strong	.	HEATR5B	185	.	NM_019024	exon17	c.A2439G	p.Q813Q	TTTAGCTTGTTTA	.	PASS	Atlas-SNP
DLK1	8788	hgsc.bcm.edu	37	14	101201219	101201219	+	Missense_Mutation	SNP	G	G	C	rs115349979	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	20.0	10.0	26.0	0.0	0.5	0	G|0.988;C|0.012	0.012	strong	DLK1,NS,carcinoma,-2,2	DLK1	57	2	NM_003836	exon5	c.G1138C	p.D380H	GCCGGCGACGAGG	.	PASS	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	37	4	84350870	84350870	+	Silent	SNP	A	A	G	rs59255439	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	42.0	84.0	0.0	0.512195	0	A|0.908;G|0.092	0.092	strong	.	HELQ	95	.	NM_133636	exon12	c.T2325C	p.H775H	CATGAAATGATAG	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057636	46057636	+	Missense_Mutation	SNP	T	T	A	rs115298124	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	273.0	120.0	205.0	0.0	0.43956	0	T|0.928;A|0.072	0.072	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.T302A	p.V101E	GCTGTGTGCCCGT	.	PASS	Atlas-SNP
ALDH7A1	501	hgsc.bcm.edu	37	5	125928395	125928395	+	Silent	SNP	A	A	G	rs60720055	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	63.0	118.0	0.0	0.5	0	A|0.941;G|0.059	0.059	strong	.	ALDH7A1	57	.	NM_001202404	exon3	c.T354C	p.T118T	CTTTACAGTTTCT	.	PASS	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	37	6	138584014	138584014	+	Missense_Mutation	SNP	C	C	G	rs116596107	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	65.0	142.0	0.0	0.532787	0	C|0.998;G|0.002	0.002	strong	.	KIAA1244	236	.	NM_020340	exon12	c.C1394G	p.A465G	ATGGGGCTGAGTG	.	PASS	Atlas-SNP
ARHGAP17	55114	hgsc.bcm.edu	37	16	24965975	24965975	+	Silent	SNP	C	C	G	rs111986765	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	43.0	91.0	0.0	0.494253	0	C|0.999;G|0.001	0.001	strong	.	ARHGAP17	138	.	NM_001006634	exon10	c.G801C	p.L267L	AATGGGCAGCGCA	.	PASS	Atlas-SNP
ATP8	0	hgsc.bcm.edu	37	MT	8468	8468	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	6.0	6.0	4.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361851	exon1	c.C103T	p.L35L	TACCACCTACCTC	.	PASS	Atlas-SNP
UQCC	55245	hgsc.bcm.edu	37	20	33981906	33981906	+	Missense_Mutation	SNP	G	G	C	rs75909303	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	35.0	77.0	0.0	0.466667	0	G|0.994;C|0.006	0.006	strong	UQCC,NS,carcinoma,0,1	UQCC	41	1	NM_018244	exon2	c.C118G	p.R40G	AAGTGCGAGACAG	.	PASS	Atlas-SNP
PNPO	55163	hgsc.bcm.edu	37	17	46023295	46023295	+	Silent	SNP	C	C	G	rs35974730	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	30.0	71.0	0.0	0.555556	0	C|0.980;G|0.020	0.020	strong	.	PNPO	18	.	NM_018129	exon5	c.C486G	p.P162P	CCGCCCCAAGAGC	.	PASS	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117810651	117810651	+	Silent	SNP	G	G	A	rs146504512	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	68.0	0.0	0.468354	0	G|0.996;A|0.004	0.004	strong	.	TNC	282	.	NM_002160	exon16	c.C4740T	p.T1580T	CCTCTGGGTTCCT	.	PASS	Atlas-SNP
AQP8	343	hgsc.bcm.edu	37	16	25228566	25228566	+	Silent	SNP	G	G	A	rs139992979	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	111.0	233.0	0.0	0.466387	0	G|0.993;A|0.007	0.007	strong	.	AQP8	75	.	NM_001169	exon2	c.G60A	p.P20P	GGAGCCGAGCGTG	.	PASS	Atlas-SNP
OR3A2	4995	hgsc.bcm.edu	37	17	3181677	3181677	+	Missense_Mutation	SNP	G	G	C	rs73977611	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	295.0	140.0	274.0	1.0	0.474576	0.00364964	G|0.991;C|0.009	0.009	strong	.	OR3A2	36	.	NM_002551	exon1	c.C553G	p.H185D	AGAAGTGATTGAC	.	PASS	Atlas-SNP
SLC26A11	284129	hgsc.bcm.edu	37	17	78199666	78199666	+	Missense_Mutation	SNP	C	C	G	rs115961261	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	65.0	116.0	0.0	0.496183	0	C|0.990;G|0.010	0.010	strong	SLC26A11,NS,carcinoma,-1,2	SLC26A11	60	2	NM_173626	exon6	c.C544G	p.P182A	CCCAGGCCGTTCT	.	PASS	Atlas-SNP
BUB1B	701	hgsc.bcm.edu	37	15	40498503	40498503	+	Missense_Mutation	SNP	T	T	C	rs1801528	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	86.0	167.0	0.0	0.488636	0	T|0.917;C|0.083	0.083	strong	BUB1B,NS,carcinoma,+1,1	BUB1B	71	1	NM_001211	exon15	c.T1853C	p.V618A	GTTTTGTATCCAC	.	PASS	Atlas-SNP
MTFR2	113115	hgsc.bcm.edu	37	6	136570221	136570221	+	Missense_Mutation	SNP	T	T	C	rs147085272	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	16.0	47.0	0.0	0.380952	0	T|0.988;C|0.012	0.012	strong	.	.	.	.	NM_138419	exon2	c.A17G	p.N6S	AAGATATTCAGTA	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16860087	16860087	+	Missense_Mutation	SNP	G	G	A	rs61750949	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	51.0	87.0	0.0	0.504951	0	G|0.983;A|0.017	0.017	strong	.	NWD1	303	.	NM_001007525	exon6	c.G634A	p.A212T	CGGCTCGCGGATG	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124360032	124360032	+	Silent	SNP	C	C	T	rs11834289	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	48.0	91.0	0.0	0.475248	0	C|0.924;T|0.076	0.076	strong	.	DNAH10	888	.	NM_207437	exon46	c.C7839T	p.H2613H	AGGCCACACCTCG	.	PASS	Atlas-SNP
CRISP2	7180	hgsc.bcm.edu	37	6	49666100	49666100	+	Missense_Mutation	SNP	T	T	C	rs34457011	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	59.0	113.0	0.0	0.430657	0	T|0.991;C|0.009	0.009	strong	.	CRISP2	53	.	NM_001142408	exon7	c.A392G	p.N131S	ACTGCATTGGGAC	.	PASS	Atlas-SNP
USP44	84101	hgsc.bcm.edu	37	12	95927087	95927087	+	Missense_Mutation	SNP	C	C	G	rs7305024	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	31.0	60.0	0.0	0.484375	0	C|0.955;G|0.045	0.045	strong	.	USP44	83	.	NM_032147	exon2	c.G946C	p.E316Q	TCTTCTCGCTAGC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124323011	124323011	+	Silent	SNP	T	T	C	rs116167096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	35.0	51.0	0.0	0.486111	0	T|0.983;C|0.017	0.017	strong	.	DNAH10	888	.	NM_207437	exon28	c.T4557C	p.G1519G	CATGGGTGAGACC	.	PASS	Atlas-SNP
PCDHA2	56146	hgsc.bcm.edu	37	5	140176840	140176840	+	Missense_Mutation	SNP	C	C	T	rs6858913	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	305.0	143.0	269.0	0.0	0.468852	0	C|0.982;T|0.018	0.018	strong	.	PCDHA2	404	.	NM_031495	exon1	c.C2291T	p.P764L	AGGACCCCCCCAA	.	PASS	Atlas-SNP
ZBTB22	9278	hgsc.bcm.edu	37	6	33283945	33283945	+	Missense_Mutation	SNP	C	C	G	rs35663442	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	25.0	60.0	0.0	0.347222	0	C|0.989;G|0.011	0.011	strong	.	ZBTB22	48	.	NM_001145338	exon2	c.G749C	p.G250A	GCCCCTCCACTGC	.	PASS	Atlas-SNP
GJA4	2701	hgsc.bcm.edu	37	1	35260760	35260760	+	Missense_Mutation	SNP	G	G	A	rs140949366	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	25.0	43.0	0.0	0.490196	0	G|0.989;A|0.011	0.011	strong	.	GJA4	25	.	NM_002060	exon2	c.G946A	p.G316S	CAGAATGGCCAAA	.	PASS	Atlas-SNP
FRMPD1	22844	hgsc.bcm.edu	37	9	37745562	37745562	+	Missense_Mutation	SNP	C	C	T	rs62640016	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	41.0	75.0	0.0	0.525641	0	C|0.986;T|0.014	0.014	strong	FRMPD1,scalp,carcinoma,+1,1	FRMPD1	237	1	NM_014907	exon16	c.C3533T	p.P1178L	ATCCCCCTAGAGA	.	PASS	Atlas-SNP
MTERFD1	51001	hgsc.bcm.edu	37	8	97263180	97263180	+	Missense_Mutation	SNP	T	T	G	rs112357919	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	82.0	169.0	0.0	0.503067	0	T|0.958;G|0.042	0.042	strong	.	MTERFD1	50	.	NM_015942	exon4	c.A631C	p.K211Q	GATTTTTTGTCAG	.	PASS	Atlas-SNP
ZNF813	126017	hgsc.bcm.edu	37	19	53994083	53994083	+	Silent	SNP	T	T	C	rs150664026	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	248.0	119.0	249.0	0.0	0.479839	0	T|0.999;C|0.001	0.001	strong	ZNF813_ENST00000396403,NS,carcinoma,+1,1	ZNF813	81	1	NM_001004301	exon4	c.T597C	p.S199S	GAATTCTTCGTTA	.	PASS	Atlas-SNP
VN1R4	317703	hgsc.bcm.edu	37	19	53770846	53770846	+	Missense_Mutation	SNP	C	C	G	rs148896466	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	394.0	192.0	332.0	0.0	0.48731	0	C|0.953;G|0.047	0.047	strong	.	VN1R4	65	.	NM_173857	exon1	c.G73C	p.V25L	GAAGAACAGAGAA	.	PASS	Atlas-SNP
DPY19L1	23333	hgsc.bcm.edu	37	7	34978926	34978926	+	Silent	SNP	G	G	A	rs377307859		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	71.0	113.0	0.0	0.514493	0	.	.	weak	.	DPY19L1	56	.	NM_015283	exon20	c.C1707T	p.P569P	CACAATGGGCCGA	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85403104	85403104	+	Missense_Mutation	SNP	G	G	A	rs114686452	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	46.0	102.0	0.0	0.446602	0	G|0.998;A|0.002	0.002	strong	.	ALPK3	289	.	NM_020778	exon8	c.G4669A	p.A1557T	GGCTCGGCCTCCA	.	PASS	Atlas-SNP
HDGFRP2	0	hgsc.bcm.edu	37	19	4488718	4488718	+	Missense_Mutation	SNP	G	G	A	rs147061912	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	16.0	27.0	0.0	0.571429	0	G|0.994;A|0.006	0.006	strong	.	.	.	.	NM_032631	exon4	c.G334A	p.D112N	CCCGCCGACGGCA	.	PASS	Atlas-SNP
TSKS	60385	hgsc.bcm.edu	37	19	50248556	50248556	+	Missense_Mutation	SNP	C	C	T	rs34082111	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	38.0	26.0	0.0	0.622951	0	C|0.991;T|0.009	0.009	strong	.	TSKS	97	.	NM_021733	exon7	c.G1090A	p.G364S	GGAAGCCGTCGAC	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47575279	47575279	+	Silent	SNP	G	G	C	rs76187449	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	56.0	131.0	0.0	0.523364	0	.	.	weak	.	ZC3H4	96	.	NM_015168	exon13	c.C1902G	p.P634P	CATGTCGGGGTGC	.	PASS	Atlas-SNP
MBOAT2	129642	hgsc.bcm.edu	37	2	8998971	8998971	+	Silent	SNP	T	T	C	rs35943010	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	45.0	130.0	0.0	0.424528	0	T|0.994;C|0.006	0.006	strong	.	MBOAT2	36	.	NM_138799	exon13	c.A1401G	p.K467K	TTGAGTTTTTTTC	.	PASS	Atlas-SNP
GBX1	2636	hgsc.bcm.edu	37	7	150846188	150846188	+	Missense_Mutation	SNP	C	C	T	rs11975799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	15.0	21.0	0.0	0.625	0	C|0.979;T|0.021	0.021	strong	.	GBX1	21	.	NM_001098834	exon2	c.G580A	p.A194T	CTGATGCCTCCAG	.	PASS	Atlas-SNP
SHISA6	388336	hgsc.bcm.edu	37	17	11461483	11461483	+	Silent	SNP	C	C	T	rs148413919	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	28.0	61.0	0.0	0.411765	0	C|0.994;T|0.006	0.006	strong	.	SHISA6	44	.	NM_207386	exon6	c.C1518T	p.Y506Y	CTCATACGCCACC	.	PASS	Atlas-SNP
FBN2	2201	hgsc.bcm.edu	37	5	127624905	127624905	+	Missense_Mutation	SNP	T	T	A	rs149071226	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	43.0	82.0	0.0	0.390909	0	T|0.998;A|0.002	0.002	strong	.	FBN2	858	.	NM_001999	exon52	c.A6551T	p.N2184I	TGACCATTTGAAC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228560181	228560181	+	Silent	SNP	G	G	A	rs62640372	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	44.0	94.0	0.0	0.478261	0	G|0.996;A|0.004	0.004	strong	.	OBSCN	2142	.	NM_001271223	exon105	c.G24573A	p.S8191S	CCAGTCGGAGGAG	.	PASS	Atlas-SNP
TCN2	6948	hgsc.bcm.edu	37	22	31011350	31011350	+	Missense_Mutation	SNP	C	C	T	rs35838082	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	208.0	183.0	0.0	1	0	C|0.925;T|0.075	0.075	strong	.	TCN2	44	.	NM_000355	exon5	c.C643T	p.R215W	CCTGGTCGGAGAC	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100683156	100683156	+	Missense_Mutation	SNP	C	C	T	rs79046921	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	77.0	117.0	1.0	0.538462	0.00854701	A|0.000;C|0.960;T|0.040	0.040	strong	MUC17,colon,carcinoma,-1,2	MUC17	804	2	NM_001040105	exon3	c.C8459T	p.T2820M	ACCACACGCCAGT	.	scavenged	Atlas-SNP
LPP	4026	hgsc.bcm.edu	37	3	188326955	188326955	+	Missense_Mutation	SNP	A	A	G	rs35417432	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	46.0	86.0	0.0	0.422018	0	A|0.939;G|0.061	0.061	strong	.	LPP	72	.	NM_005578	exon6	c.A436G	p.T146A	AGCTCCACTGGTT	.	PASS	Atlas-SNP
C10orf12	26148	hgsc.bcm.edu	37	10	98742088	98742088	+	Missense_Mutation	SNP	T	T	C	rs7082522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	36.0	96.0	0.0	0.439024	0	T|0.994;C|0.006	0.006	strong	.	C10orf12	94	.	NM_015652	exon1	c.T941C	p.L314P	CTCACCTTCCTGA	.	PASS	Atlas-SNP
PPP1R10	5514	hgsc.bcm.edu	37	6	30570374	30570374	+	Silent	SNP	G	G	A	rs35689098	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	13.0	20.0	0.0	0.5	0	G|0.970;A|0.030	0.030	strong	.	PPP1R10	60	.	NM_002714	exon19	c.C2052T	p.G684G	AGGGTCGCCCGGG	.	PASS	Atlas-SNP
KRTAP26-1	388818	hgsc.bcm.edu	37	21	31691993	31691993	+	Missense_Mutation	SNP	C	C	T	rs77018583	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	77.0	106.0	0.0	0.513333	0	C|0.989;T|0.011	0.011	strong	KRTAP26-1,colon,carcinoma,+1,1	KRTAP26-1	58	1	NM_203405	exon1	c.G361A	p.G121S	GACAGCCGCTGGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515126	195515126	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	353.0	37.0	167.0	0.0	0.104816	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.G3325T	p.D1109Y	AAGTGTCGGTGAC	.	PASS	Atlas-SNP
GRB10	2887	hgsc.bcm.edu	37	7	50672017	50672017	+	Silent	SNP	G	G	A	rs200886440	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	63.0	115.0	0.0	0.473684	0	G|0.999;A|0.001	0.001	strong	.	GRB10	155	.	NM_005311	exon13	c.C1447T	p.L483L	TACTTAGGGTAGA	.	PASS	Atlas-SNP
GPR110	266977	hgsc.bcm.edu	37	6	46976924	46976924	+	Silent	SNP	G	G	A	rs45511696	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	69.0	126.0	0.0	0.511111	0	G|0.952;A|0.048	0.048	strong	.	GPR110	102	.	NM_153840	exon11	c.C2247T	p.V749V	TGCAGGGACAACA	.	PASS	Atlas-SNP
KANK2	25959	hgsc.bcm.edu	37	19	11289129	11289129	+	Missense_Mutation	SNP	G	G	A	rs114414326	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	39.0	64.0	0.0	0.4875	0	G|0.990;A|0.010	0.010	strong	.	KANK2	47	.	NM_015493	exon4	c.C1436T	p.P479L	CCTGGAGGGGAGG	.	PASS	Atlas-SNP
GAPVD1	26130	hgsc.bcm.edu	37	9	128099784	128099784	+	Missense_Mutation	SNP	C	C	T	rs62637637	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	33.0	119.0	0.0	0.242647	0	C|0.993;T|0.007	0.007	strong	.	GAPVD1	124	.	NM_015635	exon16	c.C2872T	p.P958S	CTCCCTCCAGCTG	.	PASS	Atlas-SNP
NRIP1	8204	hgsc.bcm.edu	37	21	16338814	16338814	+	Missense_Mutation	SNP	T	T	C	rs9975169	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	232.0	118.0	223.0	1.0	0.508621	0.00448431	T|0.973;C|0.027	0.027	strong	.	NRIP1	103	.	NM_003489	exon4	c.A1700G	p.N567S	GAGAGATTGATGG	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157931151	157931151	+	Missense_Mutation	SNP	C	C	G	rs150508509	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	35.0	93.0	0.0	0.346535	0	C|0.981;G|0.019	0.019	strong	.	PTPRN2	243	.	NM_130843	exon7	c.G967C	p.G323R	TCAGGCCCCTCAC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179598399	179598399	+	Silent	SNP	C	C	T	rs72648932	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	82.0	125.0	0.0	0.535948	0	C|0.980;T|0.020	0.020	strong	.	TTN	18412	.	NM_001267550	exon53	c.G15717A	p.T5239T	CAGGCACGTGTAT	.	PASS	Atlas-SNP
ZNF510	22869	hgsc.bcm.edu	37	9	99522508	99522508	+	Missense_Mutation	SNP	C	C	T	rs61731162	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	67.0	116.0	0.0	0.62037	0	C|0.973;T|0.027	0.027	strong	.	ZNF510	59	.	NM_014930	exon6	c.G604A	p.G202S	CGCAACCTATTTT	.	PASS	Atlas-SNP
LIPM	340654	hgsc.bcm.edu	37	10	90575251	90575251	+	Silent	SNP	T	T	C	rs61737049	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	46.0	98.0	0.0	0.4	0	T|0.985;C|0.015	0.015	strong	.	LIPM	17	.	NM_001128215	exon6	c.T849C	p.N283N	CAACAATATGAAC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284576	152284576	+	Missense_Mutation	SNP	C	C	A	rs143382793	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	745.0	145.0	591.0	1.0	0.194631	0.00169205	C|0.993;A|0.007	0.007	strong	.	FLG	900	.	NM_002016	exon3	c.G2786T	p.G929V	CCCTGGCCTGCCT	.	PASS	Atlas-SNP
TINF2	26277	hgsc.bcm.edu	37	14	24709351	24709351	+	Silent	SNP	C	C	T	rs10141326	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	64.0	125.0	0.0	0.520325	0	C|0.944;T|0.056	0.056	strong	.	TINF2	61	.	NM_001099274	exon8	c.G1140A	p.P380P	CAGAGACGGAGGA	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155486535	155486535	+	Missense_Mutation	SNP	A	A	G	rs62621836	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	59.0	96.0	0.0	0.517544	0	A|0.979;G|0.021	0.021	strong	.	TIAM2	161	.	NM_012454	exon8	c.A2353G	p.I785V	CCTTCTATAACTC	.	PASS	Atlas-SNP
ECM2	1842	hgsc.bcm.edu	37	9	95267938	95267938	+	Silent	SNP	T	T	C	rs35161698	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	62.0	117.0	0.0	0.626263	0	T|0.978;C|0.022	0.022	strong	.	ECM2	147	.	NM_001393	exon7	c.A1341G	p.G447G	ATTGTTTCCTTCC	.	PASS	Atlas-SNP
MED12L	116931	hgsc.bcm.edu	37	3	151127074	151127074	+	Missense_Mutation	SNP	G	G	A	rs78970280	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	32.0	81.0	0.0	0.450704	0	G|0.993;A|0.007	0.007	strong	MED12L,colon,carcinoma,-1,1	MED12L	271	1	NM_053002	exon38	c.G5759A	p.R1920Q	AAGCACGGCCCTC	.	PASS	Atlas-SNP
MINPP1	9562	hgsc.bcm.edu	37	10	89312046	89312046	+	Silent	SNP	T	T	C	rs2233169	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	61.0	160.0	0.0	0.445255	0	T|0.975;C|0.025	0.025	strong	.	MINPP1	22	.	NM_004897	exon5	c.T1275C	p.A425A	AAATGCTAAGACT	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	37	10	105824332	105824332	+	Silent	SNP	C	C	T	rs149012179	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	79.0	141.0	0.0	0.50641	0	C|0.993;T|0.007	0.007	strong	.	COL17A1	149	.	NM_000494	exon10	c.G630A	p.T210T	CAGGATCGTTGCA	.	PASS	Atlas-SNP
PLEKHG4B	153478	hgsc.bcm.edu	37	5	155059	155059	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	3.0	54.0	0.0	0.0422535	0	.	.	none	PLEKHG4B_ENST00000283426,NS,carcinoma,-2,2	PLEKHG4B	167	2	NM_052909	exon6	c.G994A	p.D332N	GACCTCGACGGCT	.	scavenged	Atlas-SNP
STOM	2040	hgsc.bcm.edu	37	9	124110368	124110368	+	Silent	SNP	C	C	T	rs115702601	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	55.0	123.0	0.0	0.55	0	C|0.996;T|0.004	0.004	strong	.	STOM	15	.	NM_001270526	exon6	c.G585A	p.K195K	CACATCCTTAATT	.	PASS	Atlas-SNP
TAF5L	27097	hgsc.bcm.edu	37	1	229750089	229750089	+	Silent	SNP	T	T	C	rs144626601	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	65.0	136.0	0.0	0.416667	0	T|0.997;C|0.003	0.003	strong	.	TAF5L	76	.	NM_001025247	exon2	c.A141G	p.T47T	ATTACCTGTTAGA	.	PASS	Atlas-SNP
ALG1L2	644974	hgsc.bcm.edu	37	3	129810973	129810973	+	Missense_Mutation	SNP	G	G	A	rs114865400	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	556.0	273.0	493.0	0.0	0.491007	0	G|0.968;A|0.032	0.032	strong	.	.	.	.	NM_001136152	exon3	c.G161A	p.R54Q	CAGAGCGGTCGGC	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	37	3	119445092	119445092	+	Missense_Mutation	SNP	T	T	A	rs9817771	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	56.0	98.0	0.0	0.504505	0	T|0.984;A|0.016	0.016	strong	.	.	.	.	NM_033364	exon7	c.T757A	p.S253T	GAAGCCTCTCTCC	.	PASS	Atlas-SNP
GKN2	200504	hgsc.bcm.edu	37	2	69172570	69172570	+	Missense_Mutation	SNP	G	G	A	rs73935451	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	85.0	138.0	0.0	0.559211	0	G|0.983;A|0.017	0.017	strong	.	GKN2	28	.	NM_182536	exon6	c.C485T	p.A162V	CCTCCAGCACCGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515257	195515257	+	Missense_Mutation	SNP	G	G	T	rs71187744	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	265.0	62.0	171.0	0.0	0.233962	0	G|0.500;A|0.500	.	alt	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C3194A	p.A1065E	GTGGATGCTGAGG	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128341904	128341904	+	Silent	SNP	G	G	A	rs61743462	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	53.0	92.0	0.0	0.445378	0	G|0.993;A|0.007	0.007	strong	.	MYO7B	359	.	NM_001080527	exon13	c.G1551A	p.P517P	CTTCCCGCAGGTG	.	PASS	Atlas-SNP
SAMD15	161394	hgsc.bcm.edu	37	14	77843920	77843920	+	Silent	SNP	A	A	G	rs61729313	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	54.0	97.0	0.0	0.529412	0	A|0.932;G|0.068	0.068	strong	.	SAMD15	60	.	NM_001010860	exon1	c.A159G	p.Q53Q	TTACCAAGAGCCA	.	PASS	Atlas-SNP
MED7	9443	hgsc.bcm.edu	37	5	156565839	156565839	+	Missense_Mutation	SNP	C	C	T	rs151231455	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	319.0	149.0	348.0	1.0	0.467085	0.00287356	C|0.991;T|0.009	0.009	strong	.	MED7	18	.	NM_001100816	exon2	c.G604A	p.E202K	GATGTTCATTCTG	.	PASS	Atlas-SNP
THTPA	79178	hgsc.bcm.edu	37	14	24026174	24026174	+	Missense_Mutation	SNP	G	G	T	rs141465409	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	115.0	201.0	0.0	0.534884	0	G|0.999;T|0.001	0.001	strong	.	THTPA	11	.	NM_001256321	exon2	c.G208T	p.A70S	GGAGCAGCAGGTG	.	PASS	Atlas-SNP
PCSK7	9159	hgsc.bcm.edu	37	11	117079687	117079687	+	Silent	SNP	G	G	A	rs148329047	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	246.0	92.0	393.0	0.0	0.373984	0	G|0.991;A|0.009	0.009	strong	.	PCSK7	59	.	NM_004716	exon13	c.C1617T	p.R539R	GCTGCCGCGCCGT	.	PASS	Atlas-SNP
PRSS41	360226	hgsc.bcm.edu	37	16	2849542	2849542	+	Silent	SNP	C	C	T	rs6500613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	35.0	77.0	0.0	0.4375	0	C|0.978;T|0.022	0.022	strong	.	.	.	.	NM_001135086	exon3	c.C552T	p.T184T	GGTGACCGGCTGG	.	PASS	Atlas-SNP
ASB15	142685	hgsc.bcm.edu	37	7	123269280	123269280	+	Missense_Mutation	SNP	T	T	C	rs73718442	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	66.0	129.0	0.0	0.511628	0	T|0.992;C|0.008	0.008	strong	.	ASB15	94	.	NM_080928	exon8	c.T1232C	p.M411T	ATTTTATGCATGT	.	PASS	Atlas-SNP
CLRN3	119467	hgsc.bcm.edu	37	10	129676520	129676520	+	Missense_Mutation	SNP	T	T	C	rs34656572	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	69.0	141.0	0.0	0.507353	0	T|0.989;C|0.011	0.011	strong	.	CLRN3	27	.	NM_152311	exon3	c.A574G	p.I192V	TGACTATATTTAG	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11654	11654	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	12.0	7.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.A895G	p.T299A	GTAGTAACAGCCA	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5352731	5352731	+	Silent	SNP	G	G	A	rs114222264	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	23.0	8.0	20.0	0.0	0.347826	0	G|0.964;A|0.036	0.036	strong	.	TNRC18	311	.	NM_001080495	exon27	c.C7791T	p.T2597T	GCCCCCGGTGCCG	.	PASS	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43154064	43154064	+	Silent	SNP	C	C	T	rs79828871	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	58.0	118.0	0.0	0.414286	0	C|0.967;T|0.033	0.033	strong	.	CUL9	248	.	NM_015089	exon4	c.C1122T	p.G374G	TAGTGGCTATGGA	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43518843	43518843	+	Missense_Mutation	SNP	A	A	G	rs17030648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	118.0	204.0	1.0	0.553991	0.00490196	A|0.958;G|0.042	0.042	strong	.	THADA	131	.	NM_001083953	exon34	c.T5002C	p.C1668R	CCACACATGTCTG	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	145006866	145006866	+	Silent	SNP	G	G	A	rs185978075	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	27.0	39.0	0.0	0.482143	0	G|0.994;A|0.006	0.006	strong	.	PLEC	1144	.	NM_201380	exon15	c.C2163T	p.P721P	GGTGGCGGGGGAG	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	37	16	24802245	24802245	+	Missense_Mutation	SNP	T	T	G	rs112027699	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	24.0	45.0	0.0	0.48	0	T|0.999;G|0.001	0.001	strong	.	TNRC6A	171	.	NM_014494	exon6	c.T2282G	p.F761C	AGACTTTTAACTC	.	PASS	Atlas-SNP
SLC5A12	159963	hgsc.bcm.edu	37	11	26700344	26700344	+	Silent	SNP	G	G	C	rs150900623	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	39.0	75.0	0.0	0.433333	0	G|0.994;C|0.006	0.006	strong	.	SLC5A12	134	.	NM_178498	exon13	c.C1494G	p.T498T	GTACCAGGTATCA	.	PASS	Atlas-SNP
UPF1	5976	hgsc.bcm.edu	37	19	18958562	18958562	+	Silent	SNP	A	A	T	rs73526913	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	70.0	146.0	0.0	0.466667	0	A|0.991;T|0.009	0.009	strong	.	UPF1	88	.	NM_002911	exon3	c.A381T	p.G127G	CTGTGGAATACAC	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168100280	168100280	+	Missense_Mutation	SNP	G	G	A	rs201184820	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	83.0	199.0	0.0	0.592857	0	.	.	weak	XIRP2,larynx,carcinoma,+1,2	XIRP2	914	2	NM_152381	exon9	c.G2378A	p.R793Q	TTGTCCGAGGAAT	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	34105084	34105084	+	Silent	SNP	A	A	G	rs16958093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	35.0	68.0	0.0	0.454545	0	A|0.955;G|0.045	0.045	strong	.	RYR3	760	.	NM_001036	exon73	c.A10278G	p.K3426K	TGTAAAATGGCAA	.	PASS	Atlas-SNP
C15orf40	123207	hgsc.bcm.edu	37	15	83680313	83680313	+	Missense_Mutation	SNP	T	T	G	rs114478510	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	30.0	9.0	37.0	0.0	0.3	0	T|0.992;G|0.008	0.008	strong	.	C15orf40	18	.	NM_001160116	exon1	c.A47C	p.N16T	CGAGTATTGGGTG	.	PASS	Atlas-SNP
WDR78	79819	hgsc.bcm.edu	37	1	67327986	67327986	+	Splice_Site	SNP	C	C	G	rs144890566		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	93.0	196.0	0.0	0.522472	0	C|1.000;G|0.000	0.000	weak	.	WDR78	102	.	NM_024763	exon8	c.941-1G>C	.	TTATGCCTAGATA	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24922407	24922407	+	Missense_Mutation	SNP	C	C	T	rs79339610	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	41.0	99.0	0.0	0.383178	0	C|0.996;T|0.004	0.004	strong	C15orf2,colon,carcinoma,0,1	.	.	1	NM_018958	exon1	c.C1393T	p.L465F	CTGGCTCTTCCTG	.	PASS	Atlas-SNP
HDX	139324	hgsc.bcm.edu	37	X	83591879	83591879	+	Missense_Mutation	SNP	T	T	C	rs77791258	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	26.0	66.0	0.0	0.38806	0	T|0.950;C|0.050	0.050	strong	.	HDX	124	.	NM_144657	exon7	c.A1670G	p.N557S	ACTTCATTGGGCT	.	PASS	Atlas-SNP
OGDHL	55753	hgsc.bcm.edu	37	10	50954850	50954850	+	Silent	SNP	G	G	A	rs75974530	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	66.0	114.0	0.0	0.52381	0	G|0.976;A|0.024	0.024	strong	.	OGDHL	149	.	NM_018245	exon10	c.C1242T	p.S414S	CAGGTCGCTCAGG	.	PASS	Atlas-SNP
PTPRN	5798	hgsc.bcm.edu	37	2	220164886	220164886	+	Missense_Mutation	SNP	A	A	C	rs35314717	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	53.0	73.0	0.0	0.595506	0	A|0.966;C|0.034	0.034	strong	.	PTPRN	138	.	NM_002846	exon9	c.T1257G	p.S419R	GACTTCACTGGAG	.	PASS	Atlas-SNP
OC90	729330	hgsc.bcm.edu	37	8	133044172	133044172	+	Silent	SNP	G	G	A	rs6989686	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	65.0	130.0	0.0	0.451389	0	G|0.994;A|0.006	0.006	strong	.	OC90	163	.	NM_001080399	exon12	c.C987T	p.Y329Y	TCCACAGTAACAG	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50718941	50718941	+	Silent	SNP	C	C	T	rs73891209	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	11.0	22.0	0.0	0.37931	0	C|0.976;G|0.000;T|0.024	0.024	strong	.	PLXNB2	172	.	NM_012401	exon25	c.G4152A	p.K1384K	GGGGTTCTTGGCC	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100675367	100675367	+	Missense_Mutation	SNP	A	A	G	rs116801454	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	46.0	99.0	0.0	0.429907	0	A|0.987;G|0.013	0.013	strong	.	MUC17	804	.	NM_001040105	exon3	c.A670G	p.S224G	CCTGCCAGCACCA	.	PASS	Atlas-SNP
CCDC11	220136	hgsc.bcm.edu	37	18	47788535	47788535	+	Missense_Mutation	SNP	G	G	A	rs138060809	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	57.0	98.0	0.0	0.537736	0	G|0.999;A|0.001	0.001	strong	.	CCDC11	59	.	NM_145020	exon2	c.C124T	p.R42C	GGCTGCGTCGGAT	.	PASS	Atlas-SNP
PLA2G4C	8605	hgsc.bcm.edu	37	19	48558159	48558159	+	Silent	SNP	G	G	A	rs2307280	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	66.0	121.0	0.0	0.507692	0	G|0.926;A|0.074	0.074	strong	.	PLA2G4C	76	.	NM_001159322	exon15	c.C1435T	p.L479L	TGAACAGGGGAAA	.	PASS	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	37	11	73759254	73759254	+	Missense_Mutation	SNP	C	C	A	rs1632245	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	42.0	98.0	0.0	0.42	0	A|0.037;C|0.963	0.037	strong	C2CD3_ENST00000334126,NS,carcinoma,+2,2	C2CD3	288	2	NM_015531	exon28	c.G5491T	p.G1831W	ACCTCCCAGGAGA	.	PASS	Atlas-SNP
P2RX7	5027	hgsc.bcm.edu	37	12	121622115	121622115	+	Missense_Mutation	SNP	C	C	T	rs28360459	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	11.0	37.0	0.0	0.392857	0	C|0.965;T|0.035	0.035	strong	.	P2RX7	53	.	NM_002562	exon13	c.C1298T	p.A433V	GACCTGCGATGGA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179435887	179435887	+	Missense_Mutation	SNP	A	A	G	rs744427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	37.0	53.0	0.0	0.528571	0	A|0.984;G|0.016	0.016	strong	.	TTN	18412	.	NM_001267550	exon326	c.T74972C	p.I24991T	TTGCCAATGCCCA	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	12477	12477	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	12.0	8.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.T141C	p.S47S	TATCAGTCTCTTC	.	PASS	Atlas-SNP
NMRK2	27231	hgsc.bcm.edu	37	19	3942110	3942110	+	Missense_Mutation	SNP	G	G	A	rs16992131	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	38.0	64.0	0.0	0.469136	0	G|0.977;A|0.023	0.023	strong	.	.	.	.	NM_170678	exon8	c.G532A	p.E178K	CGAGAGGAGCTCT	.	PASS	Atlas-SNP
ITGA2B	3674	hgsc.bcm.edu	37	17	42457120	42457120	+	Silent	SNP	C	C	T	rs5912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	52.0	81.0	0.0	0.52	0	C|0.982;T|0.018	0.018	strong	ITGA2B,colon,carcinoma,-1,1	ITGA2B	88	1	NM_000419	exon18	c.G1815A	p.P605P	CGTGGGCGGTAGG	.	PASS	Atlas-SNP
KRTAP4-9	100132386	hgsc.bcm.edu	37	17	39261717	39261717	+	Missense_Mutation	SNP	G	G	A	rs149483591	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	60.0	129.0	2.0	0.5	0.0155039	G|0.956;A|0.044	0.044	strong	KRTAP4-9,NS,carcinoma,+1,1	KRTAP4-9	110	1	NM_001146041	exon1	c.G77A	p.R26H	GCTGCCGCCCCAG	.	scavenged	Atlas-SNP
ZHX1	11244	hgsc.bcm.edu	37	8	124265676	124265676	+	Silent	SNP	C	C	T	rs34145851	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	311.0	149.0	325.0	0.0	0.4791	0	C|0.986;T|0.014	0.014	strong	ZHX1,NS,carcinoma,-2,1	ZHX1	89	1	NM_007222	exon3	c.G2511A	p.E837E	ATCTTCCTCCTCA	.	PASS	Atlas-SNP
MED28	80306	hgsc.bcm.edu	37	4	17616349	17616349	+	Silent	SNP	G	G	A	rs146036794	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	72.0	101.0	0.0	0.461538	0	G|0.996;A|0.004	0.004	strong	.	MED28	16	.	NM_025205	exon1	c.G72A	p.P24P	CCTTCCGGGCCAA	.	PASS	Atlas-SNP
TGFBRAP1	9392	hgsc.bcm.edu	37	2	105924699	105924699	+	Silent	SNP	G	G	A	rs115690647	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	50.0	76.0	0.0	0.568182	0	G|0.990;A|0.010	0.010	strong	.	TGFBRAP1	70	.	NM_004257	exon2	c.C60T	p.G20G	CTTGTCGCCCATC	.	PASS	Atlas-SNP
NUMA1	4926	hgsc.bcm.edu	37	11	71718413	71718413	+	Missense_Mutation	SNP	C	C	T	rs149588226	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	28.0	79.0	0.0	0.329412	0	C|0.995;T|0.005	0.005	strong	.	NUMA1	142	.	NM_006185	exon21	c.G5285A	p.R1762H	GGCAGGCGCTGGG	.	PASS	Atlas-SNP
EVPLL	645027	hgsc.bcm.edu	37	17	18284263	18284263	+	Silent	SNP	C	C	T	rs116412205	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	100.0	266.0	0.0	0.413223	0	C|0.993;T|0.007	0.007	strong	.	EVPLL	10	.	NM_001145127	exon2	c.C12T	p.S4S	AGCCAGCGCCGAC	.	PASS	Atlas-SNP
TMPRSS11B	132724	hgsc.bcm.edu	37	4	69094472	69094472	+	Silent	SNP	A	A	T	rs34044450	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	252.0	114.0	234.0	0.0	0.452381	0	A|0.990;T|0.010	0.010	strong	TMPRSS11B,NS,carcinoma,0,1	TMPRSS11B	66	1	NM_182502	exon9	c.T1077A	p.A359A	TGCATCAGCTTCT	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149512267	149512267	+	Silent	SNP	C	C	T	rs142728666	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	33.0	81.0	0.0	0.44	0	C|0.996;T|0.004	0.004	strong	.	.	.	.	NM_198455	exon75	c.C10587T	p.C3529C	AGACTGCGGGGGT	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	7013874	7013874	+	Silent	SNP	C	C	T	rs35006356	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	35.0	76.0	0.0	0.522388	0	C|0.993;T|0.007	0.007	strong	.	KDM4C	186	.	NM_001146696	exon14	c.C2121T	p.L707L	GCCCCTCATACCA	.	PASS	Atlas-SNP
C16orf82	162083	hgsc.bcm.edu	37	16	27078545	27078545	+	Missense_Mutation	SNP	C	C	T	rs185409807	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	27.0	60.0	0.0	0.409091	0	C|0.982;T|0.018	0.018	strong	.	.	.	.	NM_001145545	exon1	c.C229T	p.P77S	CAGCACCCGAGGC	.	PASS	Atlas-SNP
IGJ	3512	hgsc.bcm.edu	37	4	71522999	71522999	+	Silent	SNP	C	C	T	rs75928327	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	22.0	46.0	0.0	0.431373	0	C|0.990;T|0.010	0.010	strong	.	IGJ	13	.	NM_144646	exon3	c.G198A	p.L66L	GTTGTTCAGAGGA	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109347314	109347314	+	Missense_Mutation	SNP	C	C	G	rs144278795	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	296.0	142.0	250.0	0.0	0.47973	0	C|0.996;G|0.004	0.004	strong	.	RANBP2	488	.	NM_006267	exon3	c.C225G	p.N75K	AGAAAACACAGAC	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	382646	382646	+	Silent	SNP	C	C	T	rs116523732	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	62.0	96.0	0.0	0.525424	0	C|0.991;T|0.009	0.009	strong	.	DOCK8	401	.	NM_203447	exon22	c.C2739T	p.S913S	ACACTCCGCAGCA	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152191052	152191052	+	Missense_Mutation	SNP	G	G	T	rs115232928	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	264.0	122.0	224.0	0.0	0.462121	0	G|0.985;T|0.015	0.015	strong	.	HRNR	403	.	NM_001009931	exon3	c.C3053A	p.S1018Y	TGCCCGGAACCAG	.	PASS	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43585286	43585286	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	357.0	15.0	314.0	0.0	0.0420168	0	.	.	none	PSG2,colon,carcinoma,-2,4	PSG2	84	4	NM_031246	exon2	c.C177T	p.P59P	ATTCTGGGGCAAA	.	scavenged	Atlas-SNP
TCEB3B	51224	hgsc.bcm.edu	37	18	44561069	44561069	+	Silent	SNP	G	G	T	rs139088020	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	41.0	50.0	0.0	0.585714	0	G|0.998;T|0.002	0.002	strong	.	TCEB3B	141	.	NM_016427	exon1	c.C567A	p.P189P	CTTCCCGGGCGCA	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240981362	240981362	+	Silent	SNP	T	T	C	rs115420937	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	57.0	144.0	0.0	0.428571	0	T|0.992;C|0.008	0.008	strong	.	PRR21	53	.	NM_001080835	exon1	c.A1038G	p.L346L	GAGGCGTAGATGA	.	PASS	Atlas-SNP
CACNA1F	778	hgsc.bcm.edu	37	X	49070329	49070329	+	Missense_Mutation	SNP	C	C	T	rs34308720	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	55.0	116.0	0.0	0.470085	0	C|0.993;T|0.007	0.007	strong	.	CACNA1F	218	.	NM_005183	exon31	c.G3775A	p.A1259T	TAAGAGCGTCAAA	.	PASS	Atlas-SNP
ZNF646	9726	hgsc.bcm.edu	37	16	31092629	31092629	+	Missense_Mutation	SNP	G	G	A	rs370035952		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	83.0	141.0	0.0	0.576389	0	.	.	weak	.	ZNF646	133	.	NM_014699	exon2	c.G4984A	p.G1662R	AGGGGAGGACAAG	.	PASS	Atlas-SNP
PCYOX1	51449	hgsc.bcm.edu	37	2	70485332	70485332	+	Silent	SNP	G	G	A	rs114523411	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	40.0	137.0	0.0	0.36036	0	G|0.995;A|0.005	0.005	strong	.	PCYOX1	34	.	NM_016297	exon1	c.G36A	p.L12L	CTCGCTGCTGGGG	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	132193225	132193225	+	Silent	SNP	G	G	A	rs78248128	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	92.0	110.0	0.0	0.582278	0	G|0.966;A|0.034	0.034	strong	.	PLXNA4	873	.	NM_001105543	exon2	c.C228T	p.S76S	CAGGTCGCTGGAG	.	PASS	Atlas-SNP
HDAC4	9759	hgsc.bcm.edu	37	2	240111556	240111556	+	Silent	SNP	G	G	A	rs6740794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	54.0	83.0	0.0	0.469565	0	G|0.938;A|0.062	0.062	strong	HDAC4,colon,carcinoma,0,1	HDAC4	127	1	NM_006037	exon4	c.C312T	p.H104H	CGCCTCGTGCTGC	.	PASS	Atlas-SNP
SNRPA1	6627	hgsc.bcm.edu	37	15	101835306	101835306	+	Silent	SNP	G	G	C	rs61738984	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	21.0	36.0	0.0	0.446809	0	G|0.906;C|0.094	0.094	strong	.	SNRPA1	11	.	NM_003090	exon1	c.C78G	p.L26L	ACCCCGGAGGTCC	.	PASS	Atlas-SNP
PPP6R2	9701	hgsc.bcm.edu	37	22	50874851	50874851	+	Silent	SNP	G	G	A	rs78837601	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	342.0	166.0	314.0	0.0	0.48538	0	G|0.976;A|0.024	0.024	strong	.	PPP6R2	71	.	NM_001242899	exon14	c.G1575A	p.T525T	GCTGACGGAGACG	.	PASS	Atlas-SNP
MYO5C	55930	hgsc.bcm.edu	37	15	52553259	52553259	+	Missense_Mutation	SNP	C	C	G	rs200784696	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	29.0	56.0	0.0	0.439394	0	.	.	weak	.	MYO5C	162	.	NM_018728	exon10	c.G1113C	p.Q371H	CAGCCACTGAGCA	.	PASS	Atlas-SNP
HGC6.3	0	hgsc.bcm.edu	37	6	168377054	168377054	+	Silent	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	331.0	52.0	309.0	0.0	0.1571	0	.	.	none	.	.	.	.	NM_001129895	exon1	c.C279A	p.S93S	GTGGGGGGAGGAG	.	PASS	Atlas-SNP
KRT71	112802	hgsc.bcm.edu	37	12	52946424	52946424	+	Silent	SNP	G	G	A	rs61729863	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	87.0	225.0	0.0	0.418269	0	G|0.970;A|0.030	0.030	strong	.	KRT71	70	.	NM_033448	exon1	c.C438T	p.D146D	CACCTTGTCGATG	.	PASS	Atlas-SNP
KRTAP26-1	388818	hgsc.bcm.edu	37	21	31692346	31692346	+	Missense_Mutation	SNP	C	C	T	rs115381362	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	65.0	111.0	0.0	0.460993	0	C|0.993;T|0.007	0.007	strong	.	KRTAP26-1	58	.	NM_203405	exon1	c.G8A	p.C3Y	TTGGGGCAAGACA	.	PASS	Atlas-SNP
CCDC173	129881	hgsc.bcm.edu	37	2	170537661	170537661	+	Silent	SNP	A	A	G	rs145389999	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	108.0	203.0	1.0	0.534653	0.00492611	A|0.993;G|0.007	0.007	strong	.	.	.	.	NM_001085447	exon2	c.T150C	p.I50I	GTGTGGAATTATG	.	PASS	Atlas-SNP
CHRDL2	25884	hgsc.bcm.edu	37	11	74415606	74415606	+	Missense_Mutation	SNP	T	T	C	rs59876990	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	102.0	223.0	0.0	0.445415	0	T|0.978;C|0.022	0.022	strong	.	CHRDL2	47	.	NM_015424	exon7	c.A676G	p.I226V	GAGGGATGAAGCT	.	PASS	Atlas-SNP
XIRP1	165904	hgsc.bcm.edu	37	3	39228514	39228514	+	Missense_Mutation	SNP	G	G	A	rs61736154	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	73.0	149.0	0.0	0.462025	0	G|0.977;A|0.023	0.023	strong	.	XIRP1	173	.	NM_001198621	exon2	c.C2423T	p.S808L	GTGCCCGAGAGCA	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106156983	106156983	+	Silent	SNP	G	G	A	rs35695427	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	71.0	132.0	0.0	0.522059	0	G|0.982;A|0.018	0.018	strong	TET2_ENST00000305737,bladder,carcinoma,+2,2	TET2	1762	2	NM_001127208	exon3	c.G1884A	p.E628E	GCTGGAGCACAAG	.	PASS	Atlas-SNP
CCDC142	84865	hgsc.bcm.edu	37	2	74708454	74708454	+	Missense_Mutation	SNP	A	A	C	rs142978072	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	56.0	175.0	0.0	0.386207	0	A|0.997;C|0.003	0.003	strong	.	CCDC142	40	.	NM_032779	exon3	c.T1154G	p.L385R	GTGGGAAGGCTGC	.	PASS	Atlas-SNP
TMPRSS9	360200	hgsc.bcm.edu	37	19	2413788	2413788	+	Missense_Mutation	SNP	G	G	A	rs147023760	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	46.0	107.0	0.0	0.464646	0	G|0.983;A|0.017	0.017	strong	.	TMPRSS9	79	.	NM_182973	exon9	c.G1243A	p.A415T	GCGGAAGCCCGGC	.	PASS	Atlas-SNP
INSRR	3645	hgsc.bcm.edu	37	1	156814884	156814884	+	Silent	SNP	C	C	T	rs149474857	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	56.0	83.0	0.0	0.486957	0	C|0.991;T|0.009	0.009	strong	.	INSRR	309	.	NM_014215	exon12	c.G2421A	p.A807A	GGTGCGCGCAAAG	.	PASS	Atlas-SNP
ZNF157	7712	hgsc.bcm.edu	37	X	47272480	47272480	+	Silent	SNP	G	G	A	rs61736399	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	27.0	93.0	0.0	0.333333	0	G|0.990;A|0.010	0.010	strong	.	ZNF157	46	.	NM_003446	exon4	c.G1008A	p.G336G	ATGTGGGAAATTC	.	PASS	Atlas-SNP
TOM1L2	146691	hgsc.bcm.edu	37	17	17786042	17786042	+	Missense_Mutation	SNP	G	G	T	rs146710625	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	85.0	166.0	0.0	0.442708	0	G|0.999;T|0.001	0.001	strong	.	TOM1L2	54	.	NM_001082968	exon6	c.C637A	p.P213T	TGATGGGGCCAGT	.	PASS	Atlas-SNP
DOCK1	1793	hgsc.bcm.edu	37	10	128795081	128795081	+	Silent	SNP	G	G	A	rs79043452	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	79.0	130.0	0.0	0.496855	0	G|0.997;A|0.003	0.003	strong	.	DOCK1	188	.	NM_001380	exon7	c.G543A	p.T181T	TAGCACGATTAGT	.	PASS	Atlas-SNP
CCDC8	83987	hgsc.bcm.edu	37	19	46915182	46915182	+	Missense_Mutation	SNP	C	C	T	rs11880658	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	53.0	111.0	0.0	0.5	0	C|0.962;T|0.038	0.038	strong	.	CCDC8	56	.	NM_032040	exon1	c.G886A	p.G296R	CTCCCCCCTGATC	.	PASS	Atlas-SNP
THBS1	7057	hgsc.bcm.edu	37	15	39874092	39874092	+	Silent	SNP	C	C	T	rs35248254	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	57.0	128.0	0.0	0.456	0	C|0.985;T|0.015	0.015	strong	.	THBS1	106	.	NM_003246	exon2	c.C34T	p.L12L	CTGTTCCTGATGC	.	PASS	Atlas-SNP
SCG2	7857	hgsc.bcm.edu	37	2	224462714	224462714	+	Silent	SNP	G	G	A	rs721233	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	44.0	86.0	0.0	0.556962	0	G|0.932;A|0.068	0.068	strong	.	SCG2	99	.	NM_003469	exon2	c.C1287T	p.D429D	GAGCCCGTCTGGT	.	PASS	Atlas-SNP
OR10G7	390265	hgsc.bcm.edu	37	11	123909638	123909638	+	Missense_Mutation	SNP	G	G	A	rs148218442	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	109.0	408.0	2.0	0.475983	0.00490196	G|0.992;A|0.008	0.008	strong	OR10G7,NS,carcinoma,+1,1	OR10G7	103	1	NM_001004463	exon1	c.C71T	p.P24L	AAGAGGGGGGCGT	.	scavenged	Atlas-SNP
RET	5979	hgsc.bcm.edu	37	10	43615094	43615094	+	Silent	SNP	C	C	T	rs1800862	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	61.0	113.0	0.0	0.491935	0	C|0.960;T|0.040	0.040	strong	.	RET	916	.	NM_020630	exon14	c.C2508T	p.S836S	CTCCAGCTCCCTG	.	PASS	Atlas-SNP
ABCC10	89845	hgsc.bcm.edu	37	6	43411700	43411700	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	45.0	91.0	0.0	0.542169	0	.	.	none	.	ABCC10	118	.	NM_001198934	exon11	c.C2446T	p.Q816X	CTGGTACAAGCTG	.	PASS	Atlas-SNP
FMO3	2328	hgsc.bcm.edu	37	1	171076888	171076888	+	Missense_Mutation	SNP	G	G	C	rs12072582	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	73.0	176.0	0.0	0.386243	0	G|0.983;C|0.017	0.017	strong	.	FMO3	73	.	NM_006894	exon4	c.G394C	p.D132H	GAAAGGGATGGTA	.	PASS	Atlas-SNP
IDS	3423	hgsc.bcm.edu	37	X	148579705	148579705	+	Missense_Mutation	SNP	G	G	A	rs61736892	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	234.0	110.0	240.0	0.0	0.470085	0	G|0.982;A|0.018	0.018	strong	.	IDS	46	.	NM_006123	exon5	c.C641T	p.T214M	GCTGACGTTTTCA	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2728559	2728559	+	Missense_Mutation	SNP	A	A	G	rs9961682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	36.0	65.0	0.0	0.62069	0	A|0.969;G|0.031	0.031	strong	.	SMCHD1	88	.	NM_015295	exon23	c.A2878G	p.I960V	GACAACATAACAG	.	PASS	Atlas-SNP
PDE6B	5158	hgsc.bcm.edu	37	4	660340	660340	+	Silent	SNP	G	G	A	rs61739716	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	34.0	79.0	0.0	0.4	0	G|0.990;A|0.010	0.010	strong	.	PDE6B	80	.	NM_001145291	exon20	c.G2289A	p.K763K	GAACAAGGCGGCC	.	PASS	Atlas-SNP
ASTN1	460	hgsc.bcm.edu	37	1	176915087	176915087	+	Missense_Mutation	SNP	C	C	T	rs138686233	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	49.0	94.0	0.0	0.597561	0	C|0.998;T|0.002	0.002	strong	ASTN1,NS,carcinoma,0,1	ASTN1	314	1	NM_004319	exon13	c.G2224A	p.G742R	CCTGTCCGGCAGC	.	PASS	Atlas-SNP
NRK	203447	hgsc.bcm.edu	37	X	105168689	105168689	+	Missense_Mutation	SNP	C	C	A	rs16984889	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	267.0	163.0	254.0	0.0	0.610487	0	0|0.008;A|0.143	0.143	strong	.	NRK	321	.	NM_198465	exon19	c.C2978A	p.A993E	TCAGGGCAAGCTA	.	PASS	Atlas-SNP
C3orf30	152405	hgsc.bcm.edu	37	3	118865615	118865615	+	Missense_Mutation	SNP	G	G	C	rs9859242	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	48.0	78.0	0.0	0.428571	0	G|0.977;C|0.023	0.023	strong	.	C3orf30	64	.	NM_152539	exon1	c.G579C	p.Q193H	CGAGCAGATGGAC	.	PASS	Atlas-SNP
ZNF200	7752	hgsc.bcm.edu	37	16	3282468	3282468	+	Missense_Mutation	SNP	G	G	A	rs9302870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	68.0	98.0	0.0	0.53125	0	G|0.914;A|0.086	0.086	strong	.	ZNF200	36	.	NM_003454	exon4	c.C419T	p.T140M	TCTGACGTGAGTT	.	PASS	Atlas-SNP
CLTA	1211	hgsc.bcm.edu	37	9	36197564	36197564	+	Silent	SNP	A	A	G	rs138682143	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	109.0	178.0	0.0	0.57672	0	A|0.998;G|0.002	0.002	strong	.	CLTA	18	.	NM_001184761	exon2	c.A234G	p.V78V	TGGAGTAATGAAT	.	PASS	Atlas-SNP
ZNF28	7576	hgsc.bcm.edu	37	19	53304448	53304448	+	Missense_Mutation	SNP	C	C	T	rs143289804	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	46.0	109.0	0.0	0.469388	0	C|0.998;T|0.002	0.002	strong	.	ZNF28	191	.	NM_006969	exon4	c.G650A	p.C217Y	TCAATACATTGGA	.	PASS	Atlas-SNP
FAM114A1	92689	hgsc.bcm.edu	37	4	38907222	38907222	+	Silent	SNP	A	A	G	rs17501308	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	96.0	206.0	1.0	0.561404	0.00485437	A|0.990;G|0.010	0.010	strong	.	FAM114A1	42	.	NM_138389	exon5	c.A516G	p.G172G	TGAAGGAGCCCAA	.	PASS	Atlas-SNP
NDUFAF2	91942	hgsc.bcm.edu	37	5	60448734	60448734	+	Silent	SNP	T	T	C	rs77878573	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	71.0	147.0	0.0	0.496504	0	T|0.981;C|0.019	0.019	strong	.	NDUFAF2	10	.	NM_174889	exon4	c.T462C	p.F154F	AACCTTTCAGCCA	.	PASS	Atlas-SNP
AGPAT2	10555	hgsc.bcm.edu	37	9	139571560	139571560	+	Silent	SNP	G	G	A	rs73668354	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	85.0	120.0	0.0	0.732759	0	G|0.982;A|0.018	0.018	strong	AGPAT2,NS,carcinoma,0,1	AGPAT2	17	1	NM_001012727	exon3	c.C345T	p.C115C	CTGCACGCAGCGC	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39908215	39908215	+	Silent	SNP	G	G	A	rs142309421		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	55.0	93.0	0.0	0.561224	0	G|1.000;A|0.000	0.000	weak	.	PLEKHG2	329	.	NM_022835	exon8	c.G765A	p.A255A	CTGGGCGGAGGGC	.	PASS	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	37	17	4351534	4351534	+	Missense_Mutation	SNP	G	G	C	rs61740736	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	43.0	95.0	0.0	0.417476	0	G|0.989;C|0.011	0.011	strong	.	SPNS3	52	.	NM_182538	exon6	c.G706C	p.G236R	ACACAGGGGGAGG	.	PASS	Atlas-SNP
OGFOD3	79701	hgsc.bcm.edu	37	17	80364341	80364341	+	Silent	SNP	C	C	T	rs34315006	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	25.0	41.0	0.0	0.431034	0	C|0.997;T|0.003	0.003	strong	.	.	.	.	NM_175902	exon5	c.G441A	p.L147L	TGAGTGCAAGTCC	.	PASS	Atlas-SNP
ZNF100	163227	hgsc.bcm.edu	37	19	21909548	21909548	+	Silent	SNP	A	A	G	rs371600049	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	27.0	43.0	0.0	0.75	0	.	.	weak	.	ZNF100	62	.	NM_173531	exon5	c.T1566C	p.F522F	CTGGTTAAAGTCT	.	PASS	Atlas-SNP
ADRB1	153	hgsc.bcm.edu	37	10	115804206	115804206	+	Silent	SNP	G	G	T	rs7921133	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	52.0	118.0	0.0	0.448276	0	G|0.963;T|0.037	0.037	strong	.	ADRB1	16	.	NM_000684	exon1	c.G315T	p.L105L	CGACCTGGTCATG	.	PASS	Atlas-SNP
ADCK4	79934	hgsc.bcm.edu	37	19	41198210	41198210	+	Silent	SNP	A	A	G	rs17851001	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	38.0	86.0	0.0	0.404255	0	A|0.986;G|0.014	0.014	strong	.	ADCK4	92	.	NM_024876	exon15	c.T1365C	p.Y455Y	AAAGTCATAAGGG	.	PASS	Atlas-SNP
MAP3K9	4293	hgsc.bcm.edu	37	14	71202692	71202692	+	Silent	SNP	T	T	C	rs78155813	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	44.0	85.0	0.0	0.54321	0	T|0.989;C|0.011	0.011	strong	.	MAP3K9	109	.	NM_033141	exon9	c.A1899G	p.P633P	GAAATGTGGAGAT	.	PASS	Atlas-SNP
RLBP1	6017	hgsc.bcm.edu	37	15	89762198	89762198	+	Missense_Mutation	SNP	T	T	G	rs146844731	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	38.0	76.0	0.0	0.603175	0	T|0.998;G|0.002	0.002	strong	RLBP1,NS,carcinoma,-2,1	RLBP1	34	1	NM_000326	exon3	c.A9C	p.E3D	TACCCCTTCTGAC	.	PASS	Atlas-SNP
GPRASP2	114928	hgsc.bcm.edu	37	X	101970877	101970877	+	Silent	SNP	T	T	C	rs113906002	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	38.0	104.0	0.0	0.336283	0	T|0.986;C|0.014	0.014	strong	.	GPRASP2	89	.	NM_138437	exon4	c.T1080C	p.T360T	TAATACTGCCTTG	.	PASS	Atlas-SNP
DENND2A	27147	hgsc.bcm.edu	37	7	140221878	140221878	+	Silent	SNP	G	G	A	rs61737088	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	29.0	42.0	0.0	0.508772	0	G|0.993;A|0.007	0.007	strong	.	DENND2A	132	.	NM_015689	exon16	c.C2688T	p.N896N	CACCTCGTTCAAG	.	PASS	Atlas-SNP
MCMDC2	157777	hgsc.bcm.edu	37	8	67809160	67809160	+	Missense_Mutation	SNP	C	C	G	rs35595089	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	59.0	146.0	0.0	0.495798	0	C|0.993;G|0.007	0.007	strong	.	MCMDC2	84	.	NM_173518	exon12	c.C1592G	p.A531G	ATGCGGCTTCTAG	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16918459	16918459	+	Missense_Mutation	SNP	C	C	T	rs78570914	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	54.0	125.0	0.0	0.439024	0	C|0.997;T|0.003	0.003	strong	NWD1_ENST00000524140,NS,carcinoma,-1,3	NWD1	303	3	NM_001007525	exon18	c.C3799T	p.R1267C	GAGCAGCGCAAGC	.	PASS	Atlas-SNP
EPHB6	2051	hgsc.bcm.edu	37	7	142562011	142562011	+	Silent	SNP	C	C	T	rs8177141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	60.0	99.0	0.0	0.566038	0	C|0.970;T|0.030	0.030	strong	EPHB6,right_lower_lobe,carcinoma,-2,1	EPHB6	168	1	NM_004445	exon7	c.C453T	p.R151R	CAAACGCTGGACC	.	PASS	Atlas-SNP
LONRF2	164832	hgsc.bcm.edu	37	2	100911980	100911980	+	Silent	SNP	C	C	T	rs116227203	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	41.0	80.0	0.0	0.455556	0	C|0.986;T|0.014	0.014	strong	.	LONRF2	62	.	NM_198461	exon8	c.G1512A	p.L504L	TTCGGCCAGAACA	.	PASS	Atlas-SNP
C9orf171	389799	hgsc.bcm.edu	37	9	135418389	135418389	+	Silent	SNP	G	G	A	rs61308567	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	68.0	88.0	0.0	1	0	G|0.948;A|0.052	0.052	strong	.	C9orf171	53	.	NM_207417	exon6	c.G795A	p.P265P	CAAGCCGCCCGTG	.	PASS	Atlas-SNP
SLC4A1AP	22950	hgsc.bcm.edu	37	2	27886820	27886820	+	Silent	SNP	G	G	T	rs58106741	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	26.0	66.0	0.0	0.45614	0	G|0.940;T|0.060	0.060	strong	.	SLC4A1AP	63	.	NM_018158	exon1	c.G201T	p.S67S	GGCGTCGCAAGAC	.	PASS	Atlas-SNP
AGO3	192669	hgsc.bcm.edu	37	1	36521340	36521340	+	Silent	SNP	C	C	T	rs61743816	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	43.0	122.0	0.0	0.477778	0	C|0.992;T|0.008	0.008	strong	.	.	.	.	NM_024852	exon19	c.C2577T	p.F859F	GTACTTCGCTTAA	.	PASS	Atlas-SNP
PION	54103	hgsc.bcm.edu	37	7	77010661	77010661	+	Silent	SNP	T	T	C	rs17152629	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	15.0	43.0	0.0	0.405405	0	T|0.965;C|0.035	0.035	strong	.	PION	74	.	NM_017439	exon8	c.A537G	p.Q179Q	ACGAAATTGTTCA	.	PASS	Atlas-SNP
FYB	2533	hgsc.bcm.edu	37	5	39202911	39202911	+	Missense_Mutation	SNP	G	G	A	rs1642515	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	57.0	121.0	0.0	0.475	0	G|0.959;A|0.041	0.041	strong	.	FYB	354	.	NM_001243093	exon2	c.C182T	p.P61L	TTGCTGGGTCCTG	.	PASS	Atlas-SNP
DAAM2	23500	hgsc.bcm.edu	37	6	39847153	39847153	+	Missense_Mutation	SNP	C	C	A	rs150676991	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	250.0	110.0	216.0	0.0	0.44	0	C|0.998;A|0.002	0.002	strong	.	DAAM2	101	.	NM_015345	exon14	c.C1745A	p.P582H	CCCTCCCTCAGGA	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64519053	64519053	+	Silent	SNP	C	C	T	rs35960129	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	56.0	85.0	0.0	0.491228	0	C|0.990;T|0.010	0.010	strong	.	SYNE2	577	.	NM_182914	exon48	c.C8422T	p.L2808L	AATACCCTAGAGG	.	PASS	Atlas-SNP
UGT2B11	10720	hgsc.bcm.edu	37	4	70078393	70078393	+	Nonsense_Mutation	SNP	C	C	T	rs138593124	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	336.0	151.0	312.0	0.0	0.449405	0	C|0.993;T|0.007	0.007	strong	.	UGT2B11	92	.	NM_001073	exon2	c.G768A	p.W256X	CATAAGCCATATG	.	PASS	Atlas-SNP
TBX3	6926	hgsc.bcm.edu	37	12	115118722	115118722	+	Silent	SNP	G	G	A	rs35069811	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	256.0	118.0	231.0	0.0	0.460938	0	G|0.979;A|0.021	0.021	strong	.	TBX3	106	.	NM_005996	exon2	c.C619T	p.L207L	GTTTCAGTTTGTG	.	PASS	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	37	11	108384857	108384857	+	Silent	SNP	T	T	C	rs116565594	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	55.0	136.0	0.0	0.474138	0	T|0.987;C|0.013	0.013	strong	.	EXPH5	193	.	NM_015065	exon6	c.A1377G	p.R459R	GAAAGATCTGGTA	.	PASS	Atlas-SNP
FASTKD1	79675	hgsc.bcm.edu	37	2	170428198	170428198	+	Silent	SNP	G	G	A	rs113959605	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	45.0	157.0	0.0	0.424528	0	G|0.993;A|0.007	0.007	strong	.	FASTKD1	86	.	NM_024622	exon2	c.C342T	p.D114D	GGTATCGTCATTC	.	PASS	Atlas-SNP
RPL5	6125	hgsc.bcm.edu	37	1	93299193	93299193	+	Silent	SNP	G	G	A	rs58263806	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	25.0	67.0	0.0	0.357143	0	G|0.977;A|0.023	0.023	strong	.	RPL5	38	.	NM_000969	exon3	c.G165A	p.V55V	TCGTGTGACAAAC	.	PASS	Atlas-SNP
CDK5R1	8851	hgsc.bcm.edu	37	17	30815208	30815208	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	20.0	107.0	0.0	0.152672	0	.	.	none	.	CDK5R1	30	.	NM_003885	exon2	c.G570A	p.W190X	GGGCTGGCAGGAC	.	PASS	Atlas-SNP
CYTH4	27128	hgsc.bcm.edu	37	22	37693632	37693632	+	Silent	SNP	C	C	T	rs73887105	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	48.0	123.0	0.0	0.516129	0	C|0.992;T|0.008	0.008	strong	.	CYTH4	51	.	NM_013385	exon5	c.C262T	p.L88L	CACAAGCTGCTGA	.	PASS	Atlas-SNP
FH	2271	hgsc.bcm.edu	37	1	241676972	241676972	+	Silent	SNP	G	G	A	rs10926501	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	273.0	141.0	282.0	0.0	0.516484	0	G|0.975;A|0.025	0.025	strong	FH,NS,carcinoma,0,2	FH	64	2	NM_000143	exon3	c.C309T	p.A103A	TTCAGCGGCCGCT	.	PASS	Atlas-SNP
PHAX	51808	hgsc.bcm.edu	37	5	125944131	125944131	+	Silent	SNP	G	G	C	rs61747690	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	46.0	122.0	0.0	0.489362	0	G|0.963;C|0.037	0.037	strong	.	PHAX	20	.	NM_032177	exon3	c.G786C	p.L262L	ACTTCTGATGGAA	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57469151	57469151	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	79.0	169.0	0.0	0.509677	0	.	.	none	.	DNAH12	182	.	NM_178504	exon13	c.A1602G	p.V534V	TTTTTCTACATAA	.	PASS	Atlas-SNP
NUMBL	9253	hgsc.bcm.edu	37	19	41190455	41190455	+	Missense_Mutation	SNP	G	G	T	rs143941883	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	58.0	145.0	0.0	0.394558	0	G|0.987;T|0.013	0.013	strong	.	NUMBL	49	.	NM_004756	exon3	c.C116A	p.A39E	GTGCCCGCCCCGT	.	PASS	Atlas-SNP
CETP	1071	hgsc.bcm.edu	37	16	57017279	57017279	+	Missense_Mutation	SNP	G	G	A	rs2228667	bycluster;byfrequency;byhapmap	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	49.0	107.0	0.0	0.515789	0	A|0.002;G|0.998	0.002	strong	CETP,NS,carcinoma,-1,1	CETP	50	1	NM_000078	exon15	c.G1363A	p.V455M	AAAGGCGTGAGCC	.	PASS	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	37	16	3599220	3599220	+	Missense_Mutation	SNP	C	C	T	rs373104014		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	43.0	103.0	0.0	0.434343	0	.	.	weak	.	NLRC3	103	.	NM_178844	exon14	c.G2525A	p.R842Q	TTTTCTCGAAGGC	.	PASS	Atlas-SNP
SPINT4	391253	hgsc.bcm.edu	37	20	44351095	44351095	+	Missense_Mutation	SNP	C	C	A	rs16990631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	99.0	197.0	0.0	0.515625	0	C|0.963;A|0.037	0.037	strong	.	SPINT4	17	.	NM_178455	exon1	c.C89A	p.A30E	AAATTGCGGAGAA	.	PASS	Atlas-SNP
SPATA13	221178	hgsc.bcm.edu	37	13	24797333	24797333	+	Missense_Mutation	SNP	G	G	C	rs1220545	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	50.0	60.0	0.0	0.632911	0	G|0.997;C|0.003	0.003	strong	.	SPATA13	92	.	NM_001166271	exon2	c.G266C	p.R89P	CCGAGCGGCCCCA	.	PASS	Atlas-SNP
DDI1	414301	hgsc.bcm.edu	37	11	103908517	103908517	+	Missense_Mutation	SNP	G	G	A	rs116423827	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	41.0	105.0	0.0	0.350427	0	G|0.995;A|0.005	0.005	strong	.	DDI1	222	.	NM_001001711	exon1	c.G967A	p.D323N	CTTGAGGATCAAC	.	PASS	Atlas-SNP
RPS24	6229	hgsc.bcm.edu	37	10	79814747	79814747	+	Silent	SNP	C	C	T	rs76653255	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	55.0	134.0	0.0	0.509259	0	C|0.947;T|0.053	0.053	strong	.	RPS24	23	.	NM_001142285	exon5	c.C849T	p.C283C	TTCCTGCCTCTCT	.	PASS	Atlas-SNP
ZFAT	57623	hgsc.bcm.edu	37	8	135613947	135613947	+	Missense_Mutation	SNP	C	C	T	rs35003767	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	39.0	83.0	0.0	0.47561	0	C|0.971;T|0.029	0.029	strong	.	ZFAT	265	.	NM_020863	exon6	c.G2015A	p.R672K	AGACACCTGCTGG	.	PASS	Atlas-SNP
LTF	4057	hgsc.bcm.edu	37	3	46496854	46496854	+	Missense_Mutation	SNP	G	G	A	rs60938611	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	68.0	132.0	0.0	0.482269	0	G|0.949;A|0.051	0.051	strong	.	LTF	98	.	NM_002343	exon5	c.C578T	p.A193V	GTCCCCGCACACA	.	PASS	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114257381	114257381	+	Missense_Mutation	SNP	T	T	G	rs13428956	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	82.0	148.0	0.0	0.471264	0	T|0.973;G|0.027	0.027	strong	.	FOXD4L1	48	.	NM_012184	exon1	c.T548G	p.L183R	GGAGCCTGGACCC	.	PASS	Atlas-SNP
ATAD2	29028	hgsc.bcm.edu	37	8	124357302	124357302	+	Missense_Mutation	SNP	C	C	T	rs78548009	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	44.0	61.0	0.0	0.578947	0	C|0.999;T|0.001	0.001	strong	ATAD2,NS,carcinoma,0,1	ATAD2	160	1	NM_014109	exon19	c.G2540A	p.R847H	GCTTCACGAATCA	.	PASS	Atlas-SNP
MCF2L2	23101	hgsc.bcm.edu	37	3	182994744	182994744	+	Missense_Mutation	SNP	C	C	T	rs61731401	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	47.0	131.0	0.0	0.451923	0	C|0.975;T|0.025	0.025	strong	MCF2L2,brain,glioma,0,1	MCF2L2	164	1	NM_015078	exon15	c.G1778A	p.S593N	TCTTCACTCTGAA	.	PASS	Atlas-SNP
TSSK6	83983	hgsc.bcm.edu	37	19	19626087	19626087	+	Silent	SNP	C	C	T	rs150432013	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	38.0	50.0	0.0	0.527778	0	C|0.996;T|0.004	0.004	strong	.	TSSK6	32	.	NM_032037	exon1	c.G150A	p.P50P	GAAGTCCGGGGGC	.	PASS	Atlas-SNP
ZRANB3	84083	hgsc.bcm.edu	37	2	135988236	135988236	+	Nonsense_Mutation	SNP	G	G	A	rs200823309	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	323.0	145.0	349.0	0.0	0.448916	0	G|1.000;A|0.000	0.000	strong	.	ZRANB3	109	.	NM_032143	exon13	c.C1801T	p.R601X	GAGTTCGGATTTG	.	PASS	Atlas-SNP
FAM136A	84908	hgsc.bcm.edu	37	2	70528092	70528092	+	Silent	SNP	G	G	A	rs72904358	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	225.0	113.0	217.0	2.0	0.502222	0.00921659	G|0.921;A|0.079	0.079	strong	FAM136A,caecum,carcinoma,0,1	FAM136A	14	1	NM_032822	exon2	c.C108T	p.S36S	GCTGGCGCTGCAC	.	scavenged	Atlas-SNP
TESK1	7016	hgsc.bcm.edu	37	9	35608962	35608962	+	Silent	SNP	C	C	T	rs148341917	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	38.0	59.0	0.0	0.520548	0	C|0.994;T|0.006	0.006	strong	.	TESK1	46	.	NM_006285	exon10	c.C1104T	p.P368P	ATCACCCCCCAAC	.	PASS	Atlas-SNP
SLC28A2	9153	hgsc.bcm.edu	37	15	45556163	45556163	+	Silent	SNP	T	T	C	rs8023604	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	177.0	82.0	189.0	0.0	0.463277	0	T|0.841;C|0.159	0.159	strong	.	SLC28A2	64	.	NM_004212	exon6	c.T531C	p.F177F	CCCCTTTGCAGGA	.	PASS	Atlas-SNP
C8orf74	203076	hgsc.bcm.edu	37	8	10555263	10555263	+	Missense_Mutation	SNP	C	C	G	rs147047803	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	44.0	79.0	0.0	0.453608	0	C|0.997;G|0.003	0.003	strong	.	C8orf74	28	.	NM_001040032	exon3	c.C396G	p.D132E	CCAGGACCAGCAG	.	PASS	Atlas-SNP
ASB16	92591	hgsc.bcm.edu	37	17	42254165	42254165	+	Missense_Mutation	SNP	A	A	G	rs146134954	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	19.0	67.0	0.0	0.316667	0	A|0.987;G|0.013	0.013	strong	.	ASB16	34	.	NM_080863	exon3	c.A629G	p.Q210R	AGAGCCAGGAGAC	.	PASS	Atlas-SNP
TTC21B	79809	hgsc.bcm.edu	37	2	166758389	166758389	+	Missense_Mutation	SNP	C	C	T	rs76726265	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	80.0	178.0	0.0	0.441989	0	C|0.998;T|0.002	0.002	strong	TTC21B,NS,carcinoma,-1,1	TTC21B	130	1	NM_024753	exon20	c.G2600A	p.R867H	TGAACACGTTTTA	.	PASS	Atlas-SNP
SLC35C1	55343	hgsc.bcm.edu	37	11	45827783	45827783	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	4.0	63.0	0.0	0.0519481	0	.	.	none	.	SLC35C1	23	.	NM_018389	exon1	c.A431G	p.N144S	TCTACAATGTGGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508382	195508382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	354.0	69.0	417.0	0.0	0.194915	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C10069T	p.H3357Y	TGGCGTGACCTGT	.	PASS	Atlas-SNP
LRTOMT	220074	hgsc.bcm.edu	37	11	71806515	71806515	+	Silent	SNP	A	A	G	rs150245488	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	81.0	160.0	0.0	0.543624	0	A|0.995;G|0.005	0.005	strong	.	LRTOMT	20	.	NM_145309	exon6	c.A528G	p.K176K	CTGGAAACGCATG	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	37	18	13055915	13055915	+	Missense_Mutation	SNP	A	A	C	rs11080623	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	50.0	125.0	0.0	0.46729	0	A|0.980;C|0.020	0.020	strong	.	CEP192	340	.	NM_032142	exon19	c.A3326C	p.Q1109P	TTATCCAGAATAA	.	PASS	Atlas-SNP
TARS2	80222	hgsc.bcm.edu	37	1	150470182	150470182	+	Silent	SNP	A	A	G	rs115388015	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	28.0	67.0	0.0	0.466667	0	A|0.981;G|0.019	0.019	strong	.	TARS2	91	.	NM_025150	exon10	c.A1197G	p.T399T	TATCACAGATACA	.	PASS	Atlas-SNP
NEU2	4759	hgsc.bcm.edu	37	2	233899148	233899148	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	48.0	98.0	0.0	0.461538	0	.	.	none	.	NEU2	42	.	NM_005383	exon2	c.T524C	p.V175A	GCCTGGTGGTGCC	.	PASS	Atlas-SNP
FPGT	8790	hgsc.bcm.edu	37	1	74670277	74670277	+	Silent	SNP	G	G	A	rs139749795	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	78.0	185.0	0.0	0.46988	0	G|0.996;A|0.004	0.004	strong	FPGT,NS,carcinoma,0,1	FPGT	77	1	NM_003838	exon4	c.G546A	p.R182R	TATTAGGTTTGAC	.	PASS	Atlas-SNP
SMC2	10592	hgsc.bcm.edu	37	9	106888978	106888978	+	Silent	SNP	C	C	T	rs6479217	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	8.0	43.0	0.0	0.195122	0	C|0.935;T|0.065	0.065	strong	.	SMC2	127	.	NM_006444	exon19	c.C2508T	p.Y836Y	ATCTTACAAACAA	.	PASS	Atlas-SNP
FZD1	8321	hgsc.bcm.edu	37	7	90895944	90895944	+	Silent	SNP	C	C	T	rs2232161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	36.0	70.0	0.0	0.473684	0	C|0.983;T|0.017	0.017	strong	FZD1,NS,carcinoma,0,2	FZD1	64	2	NM_003505	exon1	c.C1749T	p.H583H	CCCTCACCTCCAG	.	PASS	Atlas-SNP
POM121L2	94026	hgsc.bcm.edu	37	6	27279185	27279185	+	Silent	SNP	A	A	T	rs16897553	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	51.0	81.0	0.0	0.542553	0	A|0.953;T|0.047	0.047	strong	.	POM121L2	61	.	NM_033482	exon1	c.T765A	p.A255A	GCCAATAGCATTC	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	37	17	5085245	5085245	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	18.0	154.0	0.0	0.18	0	.	.	none	.	ZNF594	89	.	NM_032530	exon2	c.C2307T	p.T769T	CTGGAAGGTCCTA	.	PASS	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	37	1	227504745	227504745	+	Silent	SNP	A	A	G	rs144296174	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	84.0	129.0	0.0	0.502994	0	A|1.000;G|0.000	0.000	strong	.	CDC42BPA	528	.	NM_003607	exon1	c.T139C	p.L47L	TTCTCAATGGAGA	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	145007409	145007409	+	Silent	SNP	G	G	A	rs115081018	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	62.0	118.0	0.0	0.521008	0	G|0.988;A|0.012	0.012	strong	.	PLEC	1144	.	NM_201380	exon13	c.C1785T	p.T595T	CTTGAGGGTCTGC	.	PASS	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162910165	162910165	+	Missense_Mutation	SNP	G	G	C	rs2230362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	48.0	104.0	0.0	0.403361	0	G|0.990;C|0.010	0.010	strong	.	HMMR	64	.	NM_001142556	exon14	c.G1672C	p.D558H	CTGGAAGATGAAG	.	PASS	Atlas-SNP
CPNE2	221184	hgsc.bcm.edu	37	16	57144689	57144689	+	Missense_Mutation	SNP	C	C	T	rs141954860	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	66.0	114.0	0.0	0.536585	0	C|0.999;T|0.001	0.001	strong	.	CPNE2	48	.	NM_152727	exon2	c.C35T	p.A12V	CAGCAGCGGGGGC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11583192	11583192	+	Missense_Mutation	SNP	C	C	T	rs8070501	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	50.0	90.0	0.0	0.50505	0	C|0.988;T|0.012	0.012	strong	DNAH9,rectum,carcinoma,0,1	DNAH9	695	1	NM_001372	exon18	c.C3472T	p.R1158W	AAAGAACGGCAGA	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110539175	110539175	+	Missense_Mutation	SNP	T	T	A	rs141977750	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	105.0	162.0	0.0	0.514706	0	T|0.993;A|0.007	0.007	strong	.	PKHD1L1	522	.	NM_177531	exon77	c.T12647A	p.I4216N	TAGTAATTAGCTG	.	PASS	Atlas-SNP
CEACAM6	4680	hgsc.bcm.edu	37	19	42260697	42260697	+	Missense_Mutation	SNP	G	G	A	rs61736638	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	429.0	205.0	446.0	1.0	0.477855	0.00224215	G|0.974;A|0.026	0.026	strong	.	CEACAM6	52	.	NM_002483	exon2	c.G254A	p.G85E	TAATAGGAACTCA	.	PASS	Atlas-SNP
TMEM63A	9725	hgsc.bcm.edu	37	1	226034913	226034913	+	Missense_Mutation	SNP	G	G	A	rs58852301	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	46.0	104.0	0.0	0.469388	0	G|0.956;A|0.044	0.044	strong	TMEM63A,colon,carcinoma,+1,1	TMEM63A	75	1	NM_014698	exon24	c.C2252T	p.P751L	ACGTAGGGCTGTC	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159654720	159654720	+	Missense_Mutation	SNP	G	G	C	rs115529940	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	9.0	37.0	0.0	0.2	0	G|0.986;C|0.014	0.014	strong	.	FNDC1	250	.	NM_032532	exon11	c.G3176C	p.S1059T	CGGCGAGCTCCAG	.	PASS	Atlas-SNP
USP17L2	377630	hgsc.bcm.edu	37	8	11995004	11995004	+	Silent	SNP	C	C	T	rs186311075	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	27.0	95.0	0.0	0.206107	0	C|0.992;T|0.008	0.008	strong	.	USP17L2	47	.	NM_201402	exon1	c.G1266A	p.E422E	CAAGCGCTCGTCC	.	PASS	Atlas-SNP
ATOH1	474	hgsc.bcm.edu	37	4	94750650	94750650	+	Silent	SNP	C	C	T	rs34543561	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	98.0	139.0	0.0	0.510417	0	C|0.992;T|0.008	0.008	strong	ATOH1,NS,carcinoma,+2,1	ATOH1	40	1	NM_005172	exon1	c.C573T	p.N191N	CAACAACGACAAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152277239	152277239	+	Missense_Mutation	SNP	G	G	A	rs111486002	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	385.0	185.0	443.0	1.0	0.480519	0.00225734	G|0.986;A|0.014	0.014	strong	.	FLG	900	.	NM_002016	exon3	c.C10123T	p.R3375W	CTGACCGGTCACG	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46859701	46859701	+	Silent	SNP	C	C	T	rs140328042	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	27.0	61.0	0.0	0.465517	0	C|0.997;T|0.003	0.003	strong	.	CELSR1	242	.	NM_014246	exon2	c.G4086A	p.T1362T	GATCTCCGTCTCG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25027745	25027745	+	Missense_Mutation	SNP	T	T	C	rs1130943	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	191.0	95.0	169.0	0.0	0.497382	0	T|0.949;C|0.051	0.051	strong	PARP4,NS,carcinoma,+2,1	PARP4	142	1	NM_006437	exon23	c.A2806G	p.M936V	CTGCCATGGTATT	.	PASS	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	37	19	39226163	39226163	+	Silent	SNP	G	G	A	rs141009431	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	43.0	100.0	0.0	0.401869	0	G|0.998;A|0.002	0.002	strong	.	CAPN12	43	.	NM_144691	exon13	c.C1605T	p.S535S	GTCTGCGCTGATC	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45017301	45017301	+	Missense_Mutation	SNP	T	T	C	rs34921521	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	37.0	67.0	0.0	0.45679	0	T|0.986;C|0.014	0.014	strong	CEACAM20,NS,carcinoma,0,1	CEACAM20	31	1	NM_001102600	exon7	c.A1357G	p.I453V	TCCCGATGACAAT	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28389880	28389880	+	Silent	SNP	G	G	A	rs1133496	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	73.0	129.0	0.0	0.503448	0	G|0.916;A|0.084	0.084	strong	.	HERC2	501	.	NM_004667	exon72	c.C11079T	p.S3693S	CCCATCGCTGATG	.	PASS	Atlas-SNP
NTRK3	4916	hgsc.bcm.edu	37	15	88576215	88576215	+	Silent	SNP	G	G	A	rs2229909	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	47.0	98.0	0.0	0.484536	0	G|0.962;A|0.038	0.038	strong	NTRK3_ENST00000360948,NS,carcinoma,0,3	NTRK3	587	3	NM_001012338	exon14	c.C1458T	p.H486H	GATGCCGTGGTTG	.	PASS	Atlas-SNP
CAMKK1	84254	hgsc.bcm.edu	37	17	3786456	3786456	+	Silent	SNP	C	C	T	rs737362	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	18.0	43.0	0.0	0.428571	0	C|0.934;T|0.066	0.066	strong	.	CAMKK1	70	.	NM_032294	exon6	c.G528A	p.P176P	CCCTCTCGGGGGA	.	PASS	Atlas-SNP
AKAP10	11216	hgsc.bcm.edu	37	17	19835185	19835185	+	Missense_Mutation	SNP	G	G	C	rs141355495	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	36.0	55.0	0.0	0.5625	0	G|0.999;C|0.001	0.001	strong	.	AKAP10	47	.	NM_007202	exon10	c.C1574G	p.T525S	GGAGCAGTCAGCG	.	PASS	Atlas-SNP
ARHGAP32	9743	hgsc.bcm.edu	37	11	128994781	128994781	+	Silent	SNP	G	G	A	rs114955890	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	34.0	42.0	0.0	0.576271	0	G|0.998;A|0.002	0.002	strong	.	ARHGAP32	307	.	NM_001142685	exon3	c.C234T	p.G78G	ATCTGCGCCTCTT	.	PASS	Atlas-SNP
ELK3	2004	hgsc.bcm.edu	37	12	96641344	96641344	+	Silent	SNP	G	G	A	rs115218295	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	32.0	55.0	0.0	0.542373	0	G|0.990;A|0.010	0.010	strong	.	ELK3	36	.	NM_005230	exon3	c.G834A	p.S278S	GTCATCGGGCTCC	.	PASS	Atlas-SNP
COG7	91949	hgsc.bcm.edu	37	16	23409440	23409440	+	Missense_Mutation	SNP	G	G	A	rs16940094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	87.0	125.0	0.0	0.58	0	G|0.931;A|0.069	0.069	strong	.	COG7	62	.	NM_153603	exon14	c.C1814T	p.T605M	CCAGCCGTATTCC	.	PASS	Atlas-SNP
TTLL11	158135	hgsc.bcm.edu	37	9	124855220	124855220	+	Missense_Mutation	SNP	G	G	A	rs61742325	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	14.0	14.0	5.0	0.0	1	0	G|0.955;A|0.045	0.045	strong	.	TTLL11	67	.	NM_001139442	exon1	c.C478T	p.P160S	CACTGGGCTGCGC	.	PASS	Atlas-SNP
UCK2	7371	hgsc.bcm.edu	37	1	165859482	165859482	+	Silent	SNP	T	T	C	rs145654595		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	243.0	118.0	207.0	0.0	0.485597	0	T|1.000;C|0.000	0.000	weak	.	UCK2	31	.	NM_012474	exon2	c.T141C	p.N47N	GCAGAATGAGGTG	.	PASS	Atlas-SNP
MSH3	4437	hgsc.bcm.edu	37	5	79974885	79974885	+	Missense_Mutation	SNP	C	C	T	rs35121792	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	23.0	62.0	0.0	0.410714	0	C|0.999;T|0.001	0.001	strong	.	MSH3	129	.	NM_002439	exon8	c.C1313T	p.A438V	CAGAGGCGCTCAT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179447787	179447787	+	Missense_Mutation	SNP	G	G	T	rs62618736	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	122.0	182.0	0.0	0.535088	0	G|0.985;T|0.015	0.015	strong	.	TTN	18412	.	NM_001267550	exon313	c.C65743A	p.Q21915K	TCCGCTGCATGGC	.	PASS	Atlas-SNP
ENGASE	64772	hgsc.bcm.edu	37	17	77082390	77082390	+	Missense_Mutation	SNP	G	G	A	rs11871357	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	33.0	105.0	0.0	0.434211	0	G|0.965;A|0.035	0.035	strong	ENGASE,NS,carcinoma,-1,1	ENGASE	55	1	NM_001042573	exon14	c.G2191A	p.E731K	CAGGCCGAGTGGG	.	PASS	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1618306	1618306	+	Missense_Mutation	SNP	C	C	T	rs8050974	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	59.0	98.0	0.0	0.472	0	C|0.964;T|0.036	0.036	strong	.	IFT140	128	.	NM_014714	exon15	c.G1682A	p.S561N	GCCAGGCTCCTGC	.	PASS	Atlas-SNP
TOP3A	7156	hgsc.bcm.edu	37	17	18217958	18217958	+	Silent	SNP	C	C	T	rs2230153	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	89.0	107.0	0.0	0.508571	0	C|0.948;T|0.052	0.052	strong	.	TOP3A	85	.	NM_004618	exon1	c.G135A	p.A45A	CTTGGCCGCGTCG	.	PASS	Atlas-SNP
DOK3	79930	hgsc.bcm.edu	37	5	176936822	176936822	+	Missense_Mutation	SNP	G	G	A	rs371788222		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	310.0	144.0	253.0	1.0	0.464516	0.00395257	.	.	weak	DOK3,NS,carcinoma,-1,1	DOK3	41	1	NM_024872	exon1	c.C32T	p.A11V	GCACGCGCGTCTG	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42876996	42876996	+	Missense_Mutation	SNP	G	G	A	rs114980445	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	26.0	52.0	0.0	0.4	0	G|0.992;A|0.008	0.008	strong	.	AKAP11	146	.	NM_016248	exon8	c.G4114A	p.A1372T	AGGCTTGCCTACC	.	PASS	Atlas-SNP
PPEF2	5470	hgsc.bcm.edu	37	4	76797551	76797551	+	Missense_Mutation	SNP	C	C	G	rs370312706	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	40.0	98.0	0.0	0.465116	0	.	.	alt	.	PPEF2	108	.	NM_006239	exon11	c.G1209C	p.Q403H	TGCTTGCTGCCGG	.	PASS	Atlas-SNP
POFUT1	23509	hgsc.bcm.edu	37	20	30822455	30822455	+	Silent	SNP	C	C	T	rs7263390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	44.0	95.0	0.0	0.483516	0	C|0.973;T|0.027	0.027	strong	.	POFUT1	52	.	NM_015352	exon7	c.C1158T	p.D386D	GCGGGACGAGTTC	.	PASS	Atlas-SNP
INTS5	80789	hgsc.bcm.edu	37	11	62415285	62415285	+	Missense_Mutation	SNP	C	C	T	rs149821915	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	75.0	118.0	0.0	0.524476	0	C|1.000;T|0.000	0.000	strong	.	INTS5	81	.	NM_030628	exon2	c.G2267A	p.R756H	AAGCCACGGCCGA	.	PASS	Atlas-SNP
KRT33B	3884	hgsc.bcm.edu	37	17	39521726	39521726	+	Missense_Mutation	SNP	T	T	C	rs61741663	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	230.0	111.0	220.0	0.0	0.482609	0	T|0.976;C|0.024	0.024	strong	KRT33B,NS,carcinoma,0,1	KRT33B	46	1	NM_002279	exon4	c.A668G	p.Q223R	AGGACCTGGTTCA	.	PASS	Atlas-SNP
TC2N	123036	hgsc.bcm.edu	37	14	92264736	92264736	+	Silent	SNP	A	A	G	rs147695092		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	74.0	126.0	0.0	0.556391	0	A|1.000;G|0.000	0.000	weak	.	TC2N	49	.	NM_001128596	exon7	c.T645C	p.I215I	TAGAGTAATTGTA	.	PASS	Atlas-SNP
TCF21	6943	hgsc.bcm.edu	37	6	134210600	134210600	+	Missense_Mutation	SNP	G	G	T	rs56412384	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	106.0	93.0	1.0	0.990654	0.0107527	G|0.944;T|0.056	0.056	strong	TCF21,NS,carcinoma,+1,1	TCF21	30	1	NM_003206	exon1	c.G65T	p.G22V	GTGACGGGTTGAA	.	scavenged	Atlas-SNP
IFNL3	282617	hgsc.bcm.edu	37	19	39735535	39735535	+	Missense_Mutation	SNP	C	C	A	rs141536970	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	322.0	171.0	321.0	1.0	0.531056	0.00311526	A|0.003;C|0.997	0.003	strong	.	.	.	.	NM_172139	exon1	c.G73T	p.A25S	GCCTGGCGACAGG	.	PASS	Atlas-SNP
ACSM4	341392	hgsc.bcm.edu	37	12	7477100	7477100	+	Missense_Mutation	SNP	G	G	A	rs61584783	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	76.0	174.0	0.0	0.484076	0	G|0.979;A|0.021	0.021	strong	.	ACSM4	98	.	NM_001080454	exon11	c.G1442A	p.R481H	GGTACCGTATTGG	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910660	29910660	+	Missense_Mutation	SNP	A	A	G	rs41559117	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	54.0	134.0	0.0	0.246575	0	A|0.977;C|0.002;G|0.021	0.021	strong	.	HLA-A	89	.	NM_001242758	exon2	c.A200G	p.Q67R	CGAGCCAGAGGAT	.	PASS	Atlas-SNP
SPRR1A	6698	hgsc.bcm.edu	37	1	152957856	152957856	+	Missense_Mutation	SNP	C	C	G	rs143282605		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	24.0	158.0	0.0	0.192	0	.	.	weak	.	SPRR1A	17	.	NM_001199828	exon2	c.C150G	p.H50Q	CTGCCACCCCAAA	.	PASS	Atlas-SNP
A2M	2	hgsc.bcm.edu	37	12	9251209	9251209	+	Silent	SNP	C	C	T	rs185750870	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	42.0	59.0	0.0	0.545455	0	C|0.998;T|0.002	0.002	strong	.	A2M	180	.	NM_000014	exon15	c.G1845A	p.A615A	CGAGGACGCCGAG	.	PASS	Atlas-SNP
TADA2A	6871	hgsc.bcm.edu	37	17	35830554	35830554	+	Missense_Mutation	SNP	A	A	C	rs142392695	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	33.0	71.0	0.0	0.464789	0	A|0.996;C|0.004	0.004	strong	.	TADA2A	91	.	NM_001488	exon13	c.A946C	p.K316Q	CGCCTTAAACGCA	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129824406	129824406	+	Missense_Mutation	SNP	A	A	G	rs73599293	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	26.0	38.0	0.0	0.565217	0	A|0.980;G|0.020	0.020	strong	.	LAMA2	481	.	NM_000426	exon60	c.A8528G	p.N2843S	AAATCAATGATGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179621353	179621353	+	Missense_Mutation	SNP	G	G	A	rs57389274	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	58.0	122.0	0.0	0.42963	0	G|0.982;A|0.018	0.018	strong	.	TTN	18412	.	NM_001267550	exon46	c.C10850T	p.S3617F	CTTTGAGATACAC	.	PASS	Atlas-SNP
DIRC1	116093	hgsc.bcm.edu	37	2	189599373	189599373	+	Missense_Mutation	SNP	A	A	G	rs58846152	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	79.0	214.0	0.0	0.424731	0	A|0.976;G|0.024	0.024	strong	.	DIRC1	13	.	NM_052952	exon2	c.T275C	p.L92S	CCCCTCAATGAGT	.	PASS	Atlas-SNP
ARMC12	221481	hgsc.bcm.edu	37	6	35716613	35716613	+	Missense_Mutation	SNP	A	A	G	rs73729781	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	43.0	69.0	0.0	0.573333	0	A|0.995;G|0.005	0.005	strong	.	.	.	.	NM_145028	exon6	c.A1070G	p.Q357R	CCTGCCAGCCCAG	.	PASS	Atlas-SNP
ZNF770	54989	hgsc.bcm.edu	37	15	35273867	35273867	+	Missense_Mutation	SNP	C	C	A	rs141323293	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	22.0	60.0	0.0	0.458333	0	C|0.996;A|0.004	0.004	strong	.	ZNF770	64	.	NM_014106	exon3	c.G1769T	p.G590V	GTGCTACCAGGAA	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141736732	141736732	+	Missense_Mutation	SNP	G	G	A	rs116034282	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	46.0	81.0	0.0	0.46	0	G|0.986;A|0.014	0.014	strong	.	MGAM	767	.	NM_004668	exon18	c.G2186A	p.R729H	TCTTCCGTGCTCA	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	37	1	173516915	173516915	+	Silent	SNP	G	G	A	rs114115413	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	37.0	114.0	0.0	0.402174	0	G|0.989;A|0.011	0.011	strong	.	.	.	.	NM_178527	exon13	c.C1470T	p.H490H	TGAAACGTGGGAA	.	PASS	Atlas-SNP
TPGS1	91978	hgsc.bcm.edu	37	19	507560	507560	+	Silent	SNP	G	G	A	rs61746565	byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	23.0	18.0	0.0	0.958333	0	G|0.991;A|0.009	0.009	strong	.	.	.	.	NM_033513	exon1	c.G54A	p.T18T	TTTCACGGACAGC	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13789	13789	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	5.0	5.0	11.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.T1453C	p.Y485H	CCCCTCTACCTAA	.	PASS	Atlas-SNP
ARHGAP28	79822	hgsc.bcm.edu	37	18	6908976	6908976	+	Missense_Mutation	SNP	G	G	A	rs116232392	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	54.0	149.0	0.0	0.382979	0	G|0.979;A|0.021	0.021	strong	.	ARHGAP28	181	.	NM_001010000	exon16	c.G1571A	p.C524Y	CAGAATGTATTAA	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116930013	116930013	+	Missense_Mutation	SNP	G	G	A	rs74339956	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	37.0	84.0	0.0	0.362745	0	G|0.985;A|0.015	0.015	strong	.	COL27A1	200	.	NM_032888	exon3	c.G178A	p.G60R	AAGGCCGGGAGCC	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113170323	113170323	+	Silent	SNP	G	G	A	rs111722103	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	66.0	90.0	0.0	0.733333	0	G|0.977;A|0.023	0.023	strong	SVEP1,NS,carcinoma,0,1	SVEP1	326	1	NM_153366	exon38	c.C7557T	p.T2519T	GGTAACGGTCTGT	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71009054	71009054	+	Missense_Mutation	SNP	C	C	T	rs201855097	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	45.0	151.0	0.0	0.264706	0	C|0.999;T|0.001	0.001	weak	LOC652153,NS,carcinoma,-1,2	HYDIN	788	2	NM_001270974	exon31	c.G4757A	p.R1586H	TTGCGGCGACTCC	.	scavenged	Atlas-SNP
MGAT1	4245	hgsc.bcm.edu	37	5	180219838	180219838	+	Missense_Mutation	SNP	C	C	T	rs61743256	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	32.0	72.0	0.0	0.390244	0	C|0.993;T|0.007	0.007	strong	.	MGAT1	48	.	NM_001114617	exon3	c.G134A	p.G45D	GGGTCGCCATCGA	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149486420	149486420	+	Missense_Mutation	SNP	C	C	G	rs855693	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	46.0	87.0	0.0	0.5	0	C|0.979;G|0.021	0.021	strong	.	.	.	.	NM_198455	exon30	c.C4396G	p.P1466A	TGCCTGCCGCCGG	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57603647	57603647	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	30.0	45.0	0.0	0.576923	0	.	.	none	LRP1,bladder,carcinoma,0,1	LRP1	428	1	NM_002332	exon80	c.C12435T	p.P4145P	GCAGCCCGAAGGT	.	PASS	Atlas-SNP
SMCO2	0	hgsc.bcm.edu	37	12	27641465	27641465	+	Silent	SNP	A	A	G	rs76288777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	17.0	39.0	0.0	0.447368	0	A|0.993;G|0.007	0.007	strong	.	.	.	.	NM_001145010	exon6	c.A585G	p.Q195Q	TGATCAAGGGACA	.	PASS	Atlas-SNP
ABCG4	64137	hgsc.bcm.edu	37	11	119027691	119027691	+	Missense_Mutation	SNP	C	C	G	rs12271907	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	29.0	74.0	0.0	0.591837	0	C|0.928;G|0.072;T|0.000	0.072	strong	.	ABCG4	77	.	NM_022169	exon9	c.C1035G	p.N345K	GAAGAACGAGGTC	.	PASS	Atlas-SNP
ROGDI	79641	hgsc.bcm.edu	37	16	4847976	4847976	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	87.0	134.0	0.0	0.587838	0	.	.	none	.	ROGDI	11	.	NM_024589	exon9	c.G658A	p.A220T	CCCCAGCTGGGCG	.	PASS	Atlas-SNP
NDUFAF5	79133	hgsc.bcm.edu	37	20	13797179	13797179	+	Silent	SNP	G	G	A	rs34901599	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	45.0	108.0	0.0	0.478723	0	G|0.960;A|0.040	0.040	strong	.	.	.	.	NM_024120	exon9	c.G849A	p.A283A	AGCTGCGGCAGTG	.	PASS	Atlas-SNP
TSHZ2	128553	hgsc.bcm.edu	37	20	51872038	51872038	+	Missense_Mutation	SNP	G	G	A	rs6097319	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	28.0	45.0	0.0	0.583333	0	G|0.935;A|0.065	0.065	strong	.	TSHZ2	209	.	NM_173485	exon2	c.G2041A	p.A681T	GGGTGCGCCCTCG	.	PASS	Atlas-SNP
F9	2158	hgsc.bcm.edu	37	X	138643939	138643939	+	Silent	SNP	A	A	G	rs112057482	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	85.0	140.0	0.0	0.625	0	A|0.989;G|0.011	0.011	strong	.	F9	107	.	NM_000133	exon8	c.A1095G	p.S365S	GAGATCAGCTTTA	.	PASS	Atlas-SNP
CCDC40	55036	hgsc.bcm.edu	37	17	78069129	78069129	+	Missense_Mutation	SNP	G	G	T	rs61686936	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	250.0	126.0	215.0	0.0	0.504	0	A|0.000;G|0.981;T|0.019	0.019	strong	CCDC40,colon,carcinoma,0,1	CCDC40	198	1	NM_017950	exon18	c.G2900T	p.R967L	TTGCCCGCAGAGA	.	PASS	Atlas-SNP
MTMR9	66036	hgsc.bcm.edu	37	8	11142529	11142529	+	Silent	SNP	T	T	C	rs61752023	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	53.0	91.0	0.0	0.524752	0	T|0.958;C|0.042	0.042	strong	.	MTMR9	58	.	NM_015458	exon1	c.T132C	p.N44N	GGACAATACGGAG	.	PASS	Atlas-SNP
SIDT2	51092	hgsc.bcm.edu	37	11	117063020	117063020	+	Silent	SNP	C	C	T	rs12285062	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	49.0	106.0	0.0	0.521277	0	C|0.990;T|0.010	0.010	strong	.	SIDT2	82	.	NM_001040455	exon20	c.C1923T	p.H641H	CATTCACATCATC	.	PASS	Atlas-SNP
FAN1	22909	hgsc.bcm.edu	37	15	31196984	31196984	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	67.0	134.0	0.0	0.496296	0	.	.	none	.	FAN1	77	.	NM_001146095	exon2	c.G118A	p.A40T	CCACCTGCTAAAC	.	PASS	Atlas-SNP
BCAS1	8537	hgsc.bcm.edu	37	20	52611552	52611552	+	Missense_Mutation	SNP	G	G	A	rs60878965	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	24.0	55.0	0.0	0.380952	0	G|0.916;A|0.084	0.084	strong	.	BCAS1	77	.	NM_003657	exon6	c.C926T	p.T309M	CCTACCGTGTCTT	.	PASS	Atlas-SNP
SEL1L	6400	hgsc.bcm.edu	37	14	81969158	81969158	+	Silent	SNP	A	A	G	rs35377988	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	35.0	78.0	0.0	0.37234	0	A|0.957;G|0.043	0.043	strong	.	SEL1L	67	.	NM_001244984	exon6	c.T684C	p.A228A	TAAAAGAGCATAT	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50408614	50408614	+	Silent	SNP	A	A	G	rs76870996	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	49.0	125.0	0.0	0.418803	0	A|0.988;G|0.012	0.012	strong	.	SALL4	168	.	NM_020436	exon2	c.T408C	p.N136N	GCCGCCATTCTCC	.	PASS	Atlas-SNP
DSC1	1823	hgsc.bcm.edu	37	18	28710615	28710615	+	Silent	SNP	C	C	A	rs1816634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	256.0	105.0	244.0	0.0	0.410156	0	C|0.914;A|0.086	0.086	strong	.	DSC1	240	.	NM_024421	exon16	c.G2547T	p.S849S	GTTATACGAACAA	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74407182	74407182	+	Missense_Mutation	SNP	G	G	T	rs9446983	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	51.0	118.0	0.0	0.548387	0	G|0.986;T|0.014	0.014	strong	CD109,NS,carcinoma,-1,1	CD109	170	1	NM_133493	exon2	c.G134T	p.G45V	CTATTGGGGTGGA	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64688335	64688335	+	Silent	SNP	G	G	A	rs75079588	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	88.0	113.0	0.0	0.546584	0	G|0.994;A|0.006	0.006	strong	SYNE2,NS,carcinoma,0,1	SYNE2	577	1	NM_182914	exon112	c.G20103A	p.A6701A	GTTAGCGAGTGCC	.	PASS	Atlas-SNP
MICU1	10367	hgsc.bcm.edu	37	10	74183034	74183034	+	Silent	SNP	G	G	A	rs186054834	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	69.0	164.0	0.0	0.43125	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_001195518	exon9	c.C1029T	p.T343T	CATGGCGGTCAGC	.	PASS	Atlas-SNP
ARHGAP30	257106	hgsc.bcm.edu	37	1	161022247	161022247	+	Missense_Mutation	SNP	C	C	T	rs149524176	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	35.0	87.0	0.0	0.393258	0	C|0.999;T|0.001	0.001	strong	LOC257106,NS,carcinoma,-1,2	ARHGAP30	105	2	NM_001025598	exon8	c.G923A	p.R308Q	GCCCCCCGTGGAA	.	PASS	Atlas-SNP
DOC2B	8447	hgsc.bcm.edu	37	17	31199	31199	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	14.0	47.0	0.0	0.368421	0	.	.	none	.	DOC2B	6	.	NM_003585	exon1	c.C72T	p.P24P	GGGGCCGGGGCAC	.	PASS	Atlas-SNP
TTC4	7268	hgsc.bcm.edu	37	1	55188437	55188437	+	Missense_Mutation	SNP	C	C	T	rs62000412	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	46.0	102.0	0.0	0.541176	0	C|0.986;T|0.014	0.014	strong	.	TTC4	21	.	NM_004623	exon5	c.C559T	p.L187F	AAGAAGCTTCTGG	.	PASS	Atlas-SNP
LILRB2	10288	hgsc.bcm.edu	37	19	54782165	54782165	+	Missense_Mutation	SNP	C	C	T	rs4993133	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	61.0	190.0	0.0	0.429577	0	C|0.995;T|0.005	0.005	strong	.	LILRB2	94	.	NM_005874	exon7	c.G1207A	p.D403N	AGGGGTCGGAGTT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179412452	179412452	+	Missense_Mutation	SNP	C	C	T	rs67665715	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	438.0	243.0	387.0	0.0	0.554795	0	C|0.967;T|0.033	0.033	strong	.	TTN	18412	.	NM_001267550	exon339	c.G93901A	p.V31301I	CTGTGACGCTAAA	.	PASS	Atlas-SNP
EFCAB4B	84766	hgsc.bcm.edu	37	12	3747496	3747496	+	Missense_Mutation	SNP	G	G	C	rs58583720	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	46.0	72.0	0.0	0.567901	0	A|0.002;C|0.001;G|0.997	0.001	strong	.	EFCAB4B	100	.	NM_001144958	exon14	c.C1396G	p.R466G	GCGGCCGGGGGTA	.	PASS	Atlas-SNP
COMT	1312	hgsc.bcm.edu	37	22	19950268	19950268	+	Silent	SNP	G	G	A	rs740602	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	47.0	116.0	0.0	0.431193	0	A|0.059;C|0.007	0.059	strong	.	COMT	10	.	NM_000754	exon3	c.G219A	p.Q73Q	CGCACAGAGCGTG	.	PASS	Atlas-SNP
PPL	5493	hgsc.bcm.edu	37	16	4935257	4935257	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	48.0	152.0	0.0	0.355556	0	.	.	none	.	PPL	168	.	NM_002705	exon22	c.C3399T	p.L1133L	GCGGGTGAGATCG	.	PASS	Atlas-SNP
CEACAM21	90273	hgsc.bcm.edu	37	19	42092225	42092225	+	Splice_Site	SNP	G	G	A	rs62119455	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	158.0	140.0	1.0	1	0.00714286	G|0.981;A|0.019	0.019	strong	.	CEACAM21	52	.	NM_001098506	exon6	c.882+1G>A	.	TCCTAGGTAAGAC	.	PASS	Atlas-SNP
WDR55	54853	hgsc.bcm.edu	37	5	140048792	140048792	+	Silent	SNP	C	C	A	rs35080423	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	32.0	70.0	1.0	0.52459	0.0142857	C|0.991;A|0.009	0.009	strong	WDR55,NS,carcinoma,+2,1	WDR55	27	1	NM_017706	exon6	c.C789A	p.T263T	AGTCACCGAGAGT	.	scavenged	Atlas-SNP
KIRREL2	84063	hgsc.bcm.edu	37	19	36351906	36351906	+	Silent	SNP	C	C	A	rs73928338	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	30.0	50.0	0.0	0.434783	0	C|0.994;A|0.006	0.006	strong	.	KIRREL2	170	.	NM_199180	exon8	c.C1024A	p.R342R	CTTCCACGGGTAA	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	37	1	243329093	243329093	+	Silent	SNP	G	G	C	rs2789194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	217.0	108.0	222.0	0.0	0.497696	0	G|0.978;C|0.022	0.022	strong	.	CEP170	153	.	NM_014812	exon13	c.C2169G	p.G723G	AGAGCTGCCTAAG	.	PASS	Atlas-SNP
C16orf62	57020	hgsc.bcm.edu	37	16	19590444	19590444	+	Silent	SNP	T	T	C	rs11866050	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	61.0	95.0	0.0	0.564815	0	T|0.937;C|0.063	0.063	strong	.	C16orf62	164	.	NM_020314	exon6	c.T771C	p.F257F	TGACTTTGAGGAG	.	PASS	Atlas-SNP
EGLN2	112398	hgsc.bcm.edu	37	19	41306771	41306771	+	Silent	SNP	G	G	A	rs143206553	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	31.0	45.0	0.0	0.492063	0	G|0.993;A|0.007	0.007	strong	.	EGLN2	31	.	NM_053046	exon2	c.G294A	p.A98A	TGCAGCGCTGGTC	.	PASS	Atlas-SNP
C17orf85	55421	hgsc.bcm.edu	37	17	3728315	3728315	+	Silent	SNP	C	C	T	rs218719	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	27.0	11.0	30.0	0.0	0.407407	0	C|0.932;T|0.068	0.068	strong	.	C17orf85	66	.	NM_001114118	exon7	c.G717A	p.E239E	CAAAGACTCCTCT	.	PASS	Atlas-SNP
VAV2	7410	hgsc.bcm.edu	37	9	136640122	136640122	+	Silent	SNP	G	G	A	rs7875953	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	86.0	102.0	0.0	0.637037	0	G|0.963;A|0.037	0.037	strong	VAV2_ENST00000371850,colon,carcinoma,0,2	VAV2	165	2	NM_001134398	exon25	c.C2070T	p.H690H	GCTGGCGTGGGAC	.	PASS	Atlas-SNP
TGM6	343641	hgsc.bcm.edu	37	20	2377204	2377204	+	Silent	SNP	C	C	T	rs16984872	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	266.0	124.0	252.0	0.0	0.466165	0	C|0.960;T|0.040	0.040	strong	TGM6,NS,carcinoma,0,1	TGM6	126	1	NM_198994	exon4	c.C477T	p.S159S	GCTCAGCGACAGC	.	PASS	Atlas-SNP
LUZP1	7798	hgsc.bcm.edu	37	1	23418576	23418576	+	Missense_Mutation	SNP	T	T	C	rs144862656	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	59.0	108.0	0.0	0.468254	0	T|0.997;C|0.003	0.003	strong	.	LUZP1	83	.	NM_033631	exon4	c.A2179G	p.T727A	CCATGGTATTGGT	.	PASS	Atlas-SNP
BTBD1	53339	hgsc.bcm.edu	37	15	83725291	83725291	+	Silent	SNP	T	T	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	35.0	69.0	0.0	0.402299	0	.	.	none	BTBD1,NS,carcinoma,-2,1	BTBD1	32	1	NM_025238	exon2	c.A408T	p.L136L	TGAATATAGAAAT	.	PASS	Atlas-SNP
UGT3A1	133688	hgsc.bcm.edu	37	5	35957462	35957462	+	Silent	SNP	G	G	A	rs10428673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	69.0	110.0	0.0	0.511111	0	G|0.991;A|0.009	0.009	strong	.	UGT3A1	95	.	NM_152404	exon5	c.C903T	p.G301G	CATGGAGCCAAAG	.	PASS	Atlas-SNP
LRIG1	26018	hgsc.bcm.edu	37	3	66433458	66433458	+	Silent	SNP	G	G	A	rs34042409	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	41.0	95.0	0.0	0.460674	0	G|0.941;A|0.059	0.059	strong	.	LRIG1	138	.	NM_015541	exon15	c.C2439T	p.C813C	GATGATGCACACC	.	PASS	Atlas-SNP
ZFP14	57677	hgsc.bcm.edu	37	19	36832427	36832427	+	Missense_Mutation	SNP	A	A	T	rs115297808	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	61.0	136.0	0.0	0.516949	0	A|0.990;T|0.010	0.010	strong	.	ZFP14	68	.	NM_020917	exon5	c.T301A	p.F101I	ACTGAAATGAATA	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	37	9	77418802	77418802	+	Missense_Mutation	SNP	G	G	A	rs115354606	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	61.0	82.0	0.0	0.693182	0	G|0.969;A|0.031	0.031	strong	.	TRPM6	377	.	NM_017662	exon15	c.C1639T	p.H547Y	TCTGGTGCTGGGA	.	PASS	Atlas-SNP
RPAP3	79657	hgsc.bcm.edu	37	12	48075597	48075597	+	Silent	SNP	A	A	G	rs36123489	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	46.0	68.0	0.0	0.479167	0	A|0.952;G|0.048	0.048	strong	.	RPAP3	45	.	NM_024604	exon10	c.T996C	p.Y332Y	TTCTTCATATCTA	.	PASS	Atlas-SNP
GPATCH4	54865	hgsc.bcm.edu	37	1	156567847	156567847	+	Missense_Mutation	SNP	G	G	C	rs141345590	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	91.0	175.0	0.0	0.5	0	G|0.988;C|0.012	0.012	strong	.	GPATCH4	34	.	NM_015590	exon5	c.C328G	p.L110V	GATACAGCAAGTT	.	PASS	Atlas-SNP
MASP2	10747	hgsc.bcm.edu	37	1	11103408	11103408	+	Silent	SNP	G	G	A	rs7536030	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	21.0	52.0	0.0	0.446809	0	G|0.904;A|0.096	0.096	strong	MASP2,colon,carcinoma,0,1	MASP2	71	1	NM_006610	exon5	c.C729T	p.Y243Y	AAAGTCGTAGGGA	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	42019421	42019421	+	Silent	SNP	A	A	G	rs61736067	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	41.0	97.0	0.0	0.471264	0	A|0.988;G|0.012	0.012	strong	.	MGA	264	.	NM_001080541	exon10	c.A3474G	p.P1158P	TTACCCATTATGG	.	PASS	Atlas-SNP
ALDH1L1	10840	hgsc.bcm.edu	37	3	125855665	125855665	+	Missense_Mutation	SNP	T	T	G	rs9282691	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	49.0	79.0	0.0	0.526882	0	T|0.935;G|0.065	0.065	strong	.	ALDH1L1	138	.	NM_001270364	exon11	c.A1316C	p.E439A	ACGAACTCCCCCC	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157959888	157959888	+	Silent	SNP	G	G	A	rs73745197	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	40.0	80.0	0.0	0.571429	0	G|0.973;A|0.027	0.027	strong	.	PTPRN2	243	.	NM_130843	exon6	c.C645T	p.D215D	CAGGAGGTCCTCG	.	PASS	Atlas-SNP
PNMT	5409	hgsc.bcm.edu	37	17	37826249	37826249	+	Silent	SNP	A	A	G	rs5638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	23.0	44.0	0.0	0.433962	0	A|0.933;G|0.067	0.067	strong	.	PNMT	17	.	NM_002686	exon3	c.A456G	p.K152K	GGTGAAACGGGTC	.	PASS	Atlas-SNP
SLC7A4	6545	hgsc.bcm.edu	37	22	21385427	21385427	+	Missense_Mutation	SNP	G	G	C	rs80061703	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	34.0	39.0	0.0	0.62963	0	G|0.969;C|0.031	0.031	strong	.	SLC7A4	50	.	NM_004173	exon2	c.C675G	p.D225E	GCCTTCGTCAGCG	.	PASS	Atlas-SNP
HCN3	57657	hgsc.bcm.edu	37	1	155247408	155247408	+	Silent	SNP	G	G	T	rs184885598	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	13.0	8.0	2.0	0.0	0.615385	0	G|0.983;T|0.017	0.017	strong	.	HCN3	74	.	NM_020897	exon1	c.G27T	p.A9A	GGCGGCGGGGGCC	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160690646	160690646	+	Silent	SNP	T	T	C	rs6722188	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	86.0	182.0	0.0	0.573333	0	T|0.880;C|0.120	0.120	strong	.	LY75	151	.	NM_002349	exon27	c.A3750G	p.P1250P	CTGAAATGGTATC	.	PASS	Atlas-SNP
NCKAP1	10787	hgsc.bcm.edu	37	2	183817154	183817154	+	Silent	SNP	T	T	C	rs111993802	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	97.0	193.0	0.0	0.515957	0	T|0.987;C|0.013	0.013	strong	.	NCKAP1	105	.	NM_205842	exon24	c.A2598G	p.S866S	TTGTGATGAAATA	.	PASS	Atlas-SNP
ITGAD	3681	hgsc.bcm.edu	37	16	31429479	31429479	+	Silent	SNP	T	T	C	rs78517822	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	96.0	225.0	0.0	0.468293	0	T|0.947;C|0.053	0.053	strong	.	ITGAD	154	.	NM_005353	exon21	c.T2583C	p.S861S	CTGCAGTGTCAAC	.	PASS	Atlas-SNP
OR2G2	81470	hgsc.bcm.edu	37	1	247751936	247751936	+	Missense_Mutation	SNP	T	T	G	rs146039934	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	347.0	176.0	354.0	0.0	0.507205	0	T|0.994;G|0.006	0.006	strong	.	OR2G2	88	.	NM_001001915	exon1	c.T275G	p.M92R	AACCCATGAAAAC	.	PASS	Atlas-SNP
GPR113	165082	hgsc.bcm.edu	37	2	26540951	26540951	+	Silent	SNP	G	G	A	rs116141676	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	59.0	125.0	0.0	0.406897	0	G|0.986;A|0.014	0.014	strong	.	GPR113	134	.	NM_001145168	exon2	c.C219T	p.S73S	GCCAAAGCTAGAA	.	PASS	Atlas-SNP
ANKRD27	84079	hgsc.bcm.edu	37	19	33131227	33131227	+	Silent	SNP	C	C	T	rs10410241	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	209.0	91.0	224.0	0.0	0.435407	0	C|0.924;T|0.076	0.076	strong	ANKRD27,colon,carcinoma,-1,1	ANKRD27	86	1	NM_032139	exon11	c.G969A	p.T323T	GATCTCCGTTTTC	.	PASS	Atlas-SNP
UPP2	151531	hgsc.bcm.edu	37	2	158971664	158971664	+	Missense_Mutation	SNP	A	A	C	rs7561584	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	35.0	118.0	0.0	0.397727	0	A|0.994;C|0.006	0.006	strong	.	UPP2	60	.	NM_001135098	exon5	c.A403C	p.M135L	CTGTTTATGCACA	.	PASS	Atlas-SNP
BPIFB2	80341	hgsc.bcm.edu	37	20	31598909	31598909	+	Silent	SNP	G	G	A	rs61734339	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	42.0	116.0	0.0	0.451613	0	G|0.992;A|0.008	0.008	strong	.	.	.	.	NM_025227	exon3	c.G189A	p.A63A	AGAGGCGCTTCAG	.	PASS	Atlas-SNP
PVRL1	5818	hgsc.bcm.edu	37	11	119509485	119509485	+	Missense_Mutation	SNP	G	G	A	rs73571271	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	21.0	62.0	0.0	0.512195	0	G|0.978;A|0.022	0.022	strong	.	PVRL1	133	.	NM_203285	exon7	c.C1183T	p.P395S	GAGAAGGCTCCGG	.	PASS	Atlas-SNP
FAM186B	84070	hgsc.bcm.edu	37	12	49994658	49994658	+	Missense_Mutation	SNP	C	C	G	rs74086906	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	288.0	114.0	283.0	0.0	0.395833	0	C|0.964;G|0.036	0.036	strong	.	FAM186B	72	.	NM_032130	exon4	c.G765C	p.R255S	CAGGCTCCTGTTC	.	PASS	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33572355	33572355	+	Silent	SNP	C	C	G	rs200701439		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	350.0	14.0	313.0	0.0	0.04	0	C|0.998;G|0.002	0.002	weak	.	ANKRD18B	46	.	NM_001244752	exon16	c.C3030G	p.L1010L	TCTTCTCTAGAAT	.	PASS	Atlas-SNP
C18orf32	497661	hgsc.bcm.edu	37	18	47008736	47008736	+	Silent	SNP	G	G	A	rs148432146	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	56.0	104.0	0.0	0.583333	0	G|0.999;A|0.001	0.001	strong	.	C18orf32	8	.	NM_001199346	exon3	c.C210T	p.I70I	ATCACAGATTTCT	.	PASS	Atlas-SNP
CD8B	926	hgsc.bcm.edu	37	2	87073817	87073817	+	Missense_Mutation	SNP	G	G	C	rs1126874		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	413.0	29.0	402.0	0.0	0.0702179	0	.	.	weak	CD8B_ENST00000393759,NS,carcinoma,0,2	CD8B	37	2	NM_004931	exon4	c.C573G	p.I191M	CAGGTGGATGGCC	.	scavenged	Atlas-SNP
ATP10B	23120	hgsc.bcm.edu	37	5	160047491	160047491	+	Missense_Mutation	SNP	A	A	C	rs375262733		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	241.0	100.0	199.0	0.0	0.414938	0	.	.	weak	.	ATP10B	201	.	NM_025153	exon15	c.T2279G	p.L760R	CAGAGGAGGCTGA	.	PASS	Atlas-SNP
KRTAP13-4	284827	hgsc.bcm.edu	37	21	31802629	31802629	+	Silent	SNP	C	C	T	rs73356729	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	104.0	208.0	0.0	0.429752	0	C|0.963;T|0.037	0.037	strong	.	KRTAP13-4	46	.	NM_181600	exon1	c.C36T	p.S12S	CTCCTCCCGCTCC	.	PASS	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	37	18	72344202	72344202	+	Silent	SNP	T	T	C	rs374837339		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	66.0	112.0	0.0	0.554622	0	.	.	weak	.	ZNF407	231	.	NM_001146190	exon1	c.T1227C	p.S409S	TAACAGTGTAACC	.	PASS	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	37	7	2611908	2611908	+	Silent	SNP	G	G	C	rs147584030	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	29.0	51.0	0.0	0.446154	0	G|0.994;C|0.006	0.006	strong	.	IQCE	66	.	NM_152558	exon5	c.G342C	p.L114L	CTGTCTGACAGAC	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92538422	92538422	+	Silent	SNP	C	C	T	rs59542280	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	65.0	150.0	0.0	0.464286	0	C|0.988;T|0.012	0.012	strong	.	FAT3	1822	.	NM_001008781	exon10	c.C9000T	p.L3000L	CTTTCTCAATATC	.	PASS	Atlas-SNP
KIF7	374654	hgsc.bcm.edu	37	15	90192363	90192363	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	32.0	48.0	0.0	0.561404	0	.	.	none	.	KIF7	130	.	NM_198525	exon4	c.C765T	p.G255G	CTCTGAGCCCGCC	.	PASS	Atlas-SNP
ZSCAN2	54993	hgsc.bcm.edu	37	15	85164530	85164530	+	Silent	SNP	C	C	T	rs115131715	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	35.0	79.0	0.0	0.57377	0	C|0.988;T|0.012	0.012	strong	.	ZSCAN2	43	.	NM_181877	exon3	c.C1104T	p.G368G	ATGCGGCGAAAGC	.	PASS	Atlas-SNP
FRMD7	90167	hgsc.bcm.edu	37	X	131212487	131212487	+	Missense_Mutation	SNP	G	G	C	rs61742429	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	84.0	204.0	0.0	0.390698	0	G|0.982;C|0.018	0.018	strong	.	FRMD7	69	.	NM_194277	exon12	c.C1558G	p.H520D	AGCTATGTGGACT	.	PASS	Atlas-SNP
SNED1	25992	hgsc.bcm.edu	37	2	242012729	242012729	+	Missense_Mutation	SNP	G	G	A	rs6721345	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	72.0	150.0	0.0	0.447205	0	G|0.966;A|0.034	0.034	strong	.	SNED1	76	.	NM_001080437	exon27	c.G3866A	p.R1289Q	CCAAGCGGGTCAG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134628208	134628208	+	Missense_Mutation	SNP	C	C	T	rs61733298	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	99.0	0.0	0.468354	0	C|0.968;T|0.032	0.032	strong	.	TTC40	100	.	NM_001200049	exon52	c.G7231A	p.D2411N	CTGAGTCGACTAT	.	PASS	Atlas-SNP
AMDHD2	51005	hgsc.bcm.edu	37	16	2578131	2578131	+	Silent	SNP	C	C	G	rs35816046	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	37.0	84.0	0.0	0.377551	0	G|0.019;C|0.981	0.019	strong	.	AMDHD2	33	.	NM_001145815	exon6	c.C699G	p.L233L	CCACCTCTTCAAC	.	PASS	Atlas-SNP
TTC8	123016	hgsc.bcm.edu	37	14	89338786	89338786	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	24.0	60.0	0.0	0.380952	0	.	.	none	.	TTC8	42	.	NM_144596	exon13	c.A1337G	p.H446R	AGGGCCACGTTGA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179610477	179610477	+	Silent	SNP	A	A	G	rs16866488	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	88.0	163.0	0.0	0.52381	0	A|0.987;G|0.013	0.013	strong	.	TTN	18412	.	NM_133379	exon46	c.T16650C	p.D5550D	TTTTCCATCTTTG	.	PASS	Atlas-SNP
C11orf82	220042	hgsc.bcm.edu	37	11	82644059	82644059	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	17.0	42.0	0.0	0.515152	0	.	.	none	.	C11orf82	71	.	NM_145018	exon6	c.G1679C	p.R560T	CTATCAGAATCTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505893	195505893	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	240.0	14.0	167.0	0.0	0.0583333	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C12558T	p.S4186S	ACCTGTGGATGCT	.	PASS	Atlas-SNP
LYPD3	27076	hgsc.bcm.edu	37	19	43967423	43967423	+	Silent	SNP	G	G	A	rs79420167	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	15.0	18.0	0.0	0.441176	0	G|0.987;A|0.013	0.013	strong	.	LYPD3	24	.	NM_014400	exon4	c.C399T	p.Y133Y	GGGCGGGTATGCA	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21224843	21224843	+	Missense_Mutation	SNP	G	G	A	rs12713450	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	60.0	100.0	1.0	0.508475	0.01	G|0.968;A|0.032	0.032	strong	APOB,NS,carcinoma,+1,1	APOB	761	1	NM_000384	exon29	c.C13451T	p.T4484M	TTCTTCGTCGCAA	.	scavenged	Atlas-SNP
CHAD	1101	hgsc.bcm.edu	37	17	48542690	48542690	+	Missense_Mutation	SNP	G	G	A	rs2231510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	50.0	105.0	0.0	0.458716	0	G|0.966;A|0.034	0.034	strong	.	CHAD	36	.	NM_001267	exon3	c.C1049T	p.T350I	CTCTTGGTGGGGA	.	PASS	Atlas-SNP
PKN2	5586	hgsc.bcm.edu	37	1	89273241	89273241	+	Missense_Mutation	SNP	A	A	G	rs12085658	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	50.0	103.0	0.0	0.49505	0	A|0.992;G|0.008	0.008	strong	.	PKN2	109	.	NM_006256	exon14	c.A1964G	p.Q655R	ATCTACAAGATTT	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57180546	57180546	+	Missense_Mutation	SNP	G	G	A	rs145781098	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	24.0	39.0	0.0	0.489796	0	G|0.994;A|0.006	0.006	strong	.	KIAA1211	178	.	NM_020722	exon8	c.G878A	p.R293Q	AGCAGCGGAGCCT	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79319725	79319725	+	Missense_Mutation	SNP	T	T	C	rs375144440		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	104.0	132.0	0.0	0.697987	0	.	.	weak	.	PRUNE2	331	.	NM_015225	exon8	c.A7465G	p.T2489A	TATCTGTTTCTAC	.	PASS	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	37	21	40570830	40570830	+	Missense_Mutation	SNP	G	G	C	rs2234547	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	84.0	155.0	0.0	0.488372	0	G|0.997;C|0.003	0.003	strong	.	BRWD1	325	.	NM_018963	exon40	c.C5512G	p.H1838D	TTTTATGACATTT	.	PASS	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	37	7	110763563	110763563	+	Silent	SNP	T	T	C	rs214865	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	75.0	107.0	0.0	0.520833	0	T|0.892;C|0.108	0.108	strong	.	LRRN3	132	.	NM_018334	exon2	c.T735C	p.D245D	TTACGATAACAGG	.	PASS	Atlas-SNP
SLC9A9	285195	hgsc.bcm.edu	37	3	143185920	143185920	+	Silent	SNP	A	A	G	rs61734421	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	314.0	151.0	311.0	0.0	0.480892	0	A|0.993;G|0.007	0.007	strong	.	SLC9A9	117	.	NM_173653	exon12	c.T1428C	p.F476F	TCCTCCAAATACC	.	PASS	Atlas-SNP
OGFR	11054	hgsc.bcm.edu	37	20	61443871	61443871	+	Missense_Mutation	SNP	C	C	T	rs77478162	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	32.0	60.0	0.0	0.492308	0	C|0.984;T|0.016	0.016	strong	.	OGFR	63	.	NM_007346	exon7	c.C904T	p.H302Y	CTGCCCCATCCGC	.	PASS	Atlas-SNP
BPIFA2	140683	hgsc.bcm.edu	37	20	31757078	31757078	+	Missense_Mutation	SNP	G	G	A	rs6059139	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	31.0	91.0	0.0	0.326316	0	G|0.962;A|0.038	0.038	strong	.	.	.	.	NM_080574	exon2	c.G127A	p.G43R	CACGAGGGACTTG	.	PASS	Atlas-SNP
CLASP2	23122	hgsc.bcm.edu	37	3	33759474	33759474	+	Silent	SNP	C	C	T	rs112019256	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	14.0	5.0	23.0	0.0	0.357143	0	C|0.333;T|0.667	0.667	weak	.	CLASP2	138	.	NM_015097	exon1	c.G21A	p.E7E	GAAGTACTCCATG	.	PASS	Atlas-SNP
SCN4A	6329	hgsc.bcm.edu	37	17	62018737	62018737	+	Silent	SNP	G	G	A	rs59081944	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	101.0	186.0	0.0	0.442982	0	G|0.983;A|0.017	0.017	strong	.	SCN4A	205	.	NM_000334	exon24	c.C4905T	p.I1635I	GTAGGCGATGAAC	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33450806	33450806	+	Missense_Mutation	SNP	C	C	T	rs73926195	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	73.0	131.0	0.0	0.506944	0	C|0.944;T|0.056	0.056	strong	CEP89,colon,carcinoma,-1,4	CEP89	82	4	NM_032816	exon3	c.G305A	p.R102Q	ACCTACCGAGGCC	.	PASS	Atlas-SNP
SOX30	11063	hgsc.bcm.edu	37	5	157053365	157053365	+	Missense_Mutation	SNP	C	C	T	rs889057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	38.0	97.0	0.0	0.487179	0	C|0.998;T|0.002	0.002	strong	.	SOX30	67	.	NM_178424	exon5	c.G2245A	p.V749M	TGAGCACTTTTTC	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	37	1	39907949	39907949	+	Missense_Mutation	SNP	A	A	G	rs682351	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	34.0	72.0	0.0	0.5	0	A|0.986;G|0.014	0.014	strong	.	MACF1	909	.	NM_012090	exon73	c.A12728G	p.K4243R	AACTCAAACACCT	.	PASS	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3759802	3759802	+	Missense_Mutation	SNP	C	C	A	rs35932323	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	32.0	71.0	0.0	0.542373	0	C|0.975;A|0.025	0.025	strong	.	APBA3	28	.	NM_004886	exon2	c.G461T	p.W154L	TCCACCCATTCTG	.	PASS	Atlas-SNP
HRC	3270	hgsc.bcm.edu	37	19	49657754	49657754	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	6.0	117.0	0.0	0.0441176	0	.	.	none	.	HRC	85	.	NM_002152	exon1	c.C741T	p.D247D	ATCATCGTCATCT	.	PASS	Atlas-SNP
CD180	4064	hgsc.bcm.edu	37	5	66479383	66479383	+	Missense_Mutation	SNP	T	T	C	rs2230523	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	66.0	174.0	0.0	0.452055	0	T|0.978;C|0.022	0.022	strong	CD180,NS,carcinoma,+1,2	CD180	78	2	NM_005582	exon3	c.A1288G	p.T430A	AGCGGGTAAATGC	.	PASS	Atlas-SNP
KIRREL2	84063	hgsc.bcm.edu	37	19	36351545	36351545	+	Missense_Mutation	SNP	C	C	A	rs73928337	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	50.0	107.0	0.0	0.458716	0	C|0.994;A|0.006	0.006	strong	KIRREL2_ENST00000262625,NS,carcinoma,-1,2	KIRREL2	170	2	NM_199180	exon7	c.C904A	p.R302S	GCCAACCGCAGTA	.	PASS	Atlas-SNP
TNPO2	30000	hgsc.bcm.edu	37	19	12816559	12816559	+	Silent	SNP	G	G	T	rs7248726	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	78.0	127.0	0.0	0.52349	0	G|0.849;T|0.151	0.151	strong	.	TNPO2	108	.	NM_013433	exon15	c.C1692A	p.P564P	CAGTGGGGGCATC	.	PASS	Atlas-SNP
CLUAP1	23059	hgsc.bcm.edu	37	16	3554799	3554799	+	Silent	SNP	T	T	C	rs34672214	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	84.0	243.0	0.0	0.4375	0	T|0.955;C|0.045	0.045	strong	.	CLUAP1	32	.	NM_015041	exon2	c.T102C	p.L34L	TGGACTTGTATCT	.	PASS	Atlas-SNP
SPEM1	374768	hgsc.bcm.edu	37	17	7324588	7324588	+	Silent	SNP	G	G	A	rs78583740	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	52.0	70.0	0.0	0.530612	0	G|0.961;A|0.039	0.039	strong	.	SPEM1	41	.	NM_199339	exon3	c.G594A	p.L198L	CGAGCTGGGCCTA	.	PASS	Atlas-SNP
DUSP27	92235	hgsc.bcm.edu	37	1	167096770	167096770	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	41.0	96.0	0.0	0.43617	0	.	.	none	.	DUSP27	235	.	NM_001080426	exon5	c.G2402C	p.C801S	TGTCCTGCAACAC	.	PASS	Atlas-SNP
SEC14L5	9717	hgsc.bcm.edu	37	16	5061191	5061191	+	Silent	SNP	C	C	T	rs8055468	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	69.0	140.0	0.0	0.472603	0	C|0.968;T|0.032	0.032	strong	.	SEC14L5	79	.	NM_014692	exon15	c.C1896T	p.D632D	TGTGGACGATGTC	.	PASS	Atlas-SNP
KIF1C	10749	hgsc.bcm.edu	37	17	4925674	4925674	+	Silent	SNP	C	C	T	rs73345356	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	42.0	94.0	0.0	0.525	0	C|0.964;T|0.036	0.036	strong	KIF1C,colon,carcinoma,0,1	KIF1C	70	1	NM_006612	exon22	c.C2298T	p.H766H	CCGCCACGGGCGG	.	PASS	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91805804	91805804	+	Silent	SNP	C	C	T	rs61220159	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	230.0	124.0	193.0	0.0	0.53913	0	C|0.968;T|0.032	0.032	strong	.	CCDC88C	192	.	NM_001080414	exon8	c.G627A	p.L209L	CACGATCAGCTGC	.	PASS	Atlas-SNP
CDNF	441549	hgsc.bcm.edu	37	10	14862140	14862140	+	Missense_Mutation	SNP	C	C	A	rs61740068	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	60.0	166.0	0.0	0.46875	0	C|0.985;A|0.015	0.015	strong	.	CDNF	19	.	NM_001029954	exon4	c.G403T	p.A135S	CTGATGCCAAGTC	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124841276	124841276	+	Silent	SNP	G	G	A	rs200441401	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	94.0	182.0	0.0	0.489583	0	G|1.000;A|0.000	0.000	strong	.	NCOR2	475	.	NM_006312	exon25	c.C3153T	p.S1051S	CAGGCCGGAAGTC	.	PASS	Atlas-SNP
KIAA1609	57707	hgsc.bcm.edu	37	16	84520496	84520496	+	Missense_Mutation	SNP	C	C	G	rs34244563	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	72.0	149.0	0.0	0.496552	0	C|0.989;G|0.011	0.011	strong	.	KIAA1609	39	.	NM_020947	exon5	c.G699C	p.E233D	TTGACGCTCAGGG	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113233738	113233738	+	Silent	SNP	T	T	C	rs61732942	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	267.0	181.0	249.0	1.0	0.677903	0.00401606	T|0.963;C|0.037	0.037	strong	.	SVEP1	326	.	NM_153366	exon16	c.A2904G	p.A968A	TTCTGATGCAAGC	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54720967	54720967	+	Missense_Mutation	SNP	G	G	A	rs114510580	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	333.0	140.0	280.0	0.0	0.42042	0	G|0.962;A|0.038	0.038	strong	.	LILRB3	67	.	NM_001081450	exon13	c.C1894T	p.H632Y	GCTAGTGGATGGC	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140811131	140811131	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	7.0	74.0	0.0	0.0752688	0	.	.	none	.	MAML3	192	.	NM_018717	exon2	c.C1459A	p.Q487K	GCTGTTGCTGTTT	.	PASS	Atlas-SNP
TBX15	6913	hgsc.bcm.edu	37	1	119427937	119427937	+	Silent	SNP	G	G	A	rs145938710	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	36.0	67.0	0.0	0.514286	0	G|0.998;A|0.002	0.002	strong	.	TBX15	95	.	NM_152380	exon8	c.C909T	p.A303A	CTGCAAGGCAGCC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276474	152276474	+	Missense_Mutation	SNP	G	G	A	rs9436065	bycluster;by2hit2allele;byhapmap	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	572.0	364.0	367.0	0.0	0.636364	0	G|0.997;A|0.003	0.003	weak	.	FLG	900	.	NM_002016	exon3	c.C10888T	p.H3630Y	GCTGGTGGTGGGA	.	PASS	Atlas-SNP
GAA	2548	hgsc.bcm.edu	37	17	78092081	78092081	+	Silent	SNP	G	G	T	rs17853996	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	67.0	148.0	0.0	0.5	0	G|0.997;T|0.003	0.003	strong	.	GAA	66	.	NM_001079803	exon19	c.G2571T	p.L857L	GGAGCTGTTCTGG	.	PASS	Atlas-SNP
OR2A5	393046	hgsc.bcm.edu	37	7	143747796	143747796	+	Missense_Mutation	SNP	C	C	A	rs61741408	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	85.0	159.0	0.0	0.515152	0	C|0.997;A|0.003	0.003	strong	OR2A5,colon,carcinoma,+1,5	OR2A5	78	5	NM_012365	exon1	c.C302A	p.T101N	TGCAGACCTTTTT	.	PASS	Atlas-SNP
ZFYVE9	9372	hgsc.bcm.edu	37	1	52705174	52705174	+	Silent	SNP	A	A	G	rs34437486	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	70.0	140.0	0.0	0.454545	0	A|0.991;G|0.009	0.009	strong	.	ZFYVE9	131	.	NM_007323	exon4	c.A2085G	p.V695V	TCCAGTATGGGTA	.	PASS	Atlas-SNP
MC1R	4157	hgsc.bcm.edu	37	16	89986566	89986566	+	Silent	SNP	C	C	T	rs3212367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	75.0	163.0	0.0	0.462963	0	C|0.978;T|0.022	0.022	strong	.	MC1R	20	.	NM_002386	exon1	c.C900T	p.F300F	CGCCTTCCACAGC	.	PASS	Atlas-SNP
ABCC10	89845	hgsc.bcm.edu	37	6	43413669	43413669	+	Silent	SNP	G	G	A	rs112977568	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	45.0	104.0	0.0	0.517241	0	G|0.992;A|0.008	0.008	strong	.	ABCC10	118	.	NM_001198934	exon15	c.G3363A	p.G1121G	CACAGGGGCCACC	.	PASS	Atlas-SNP
TMEM176A	55365	hgsc.bcm.edu	37	7	150498773	150498773	+	Silent	SNP	C	C	T	rs10239586	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	30.0	17.0	28.0	0.0	0.566667	0	C|0.993;T|0.007	0.007	strong	.	TMEM176A	35	.	NM_018487	exon2	c.C135T	p.T45T	GGCCACCCAGGCC	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2740798	2740798	+	Silent	SNP	A	A	T	rs115632137	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	74.0	129.0	0.0	0.573643	0	A|0.973;T|0.027	0.027	strong	.	SMCHD1	88	.	NM_015295	exon28	c.A3612T	p.S1204S	TAGCTCAAATTTG	.	PASS	Atlas-SNP
SPINK14	408187	hgsc.bcm.edu	37	5	147553829	147553829	+	Silent	SNP	C	C	T	rs79779038	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	55.0	135.0	0.0	1	0	C|0.919;T|0.081	0.081	strong	.	SPINK14	9	.	NM_001001325	exon3	c.C144T	p.S48S	CTTGAGCTGGTAC	.	PASS	Atlas-SNP
CCDC157	550631	hgsc.bcm.edu	37	22	30761995	30761995	+	Silent	SNP	G	G	A	rs61732271	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	20.0	5.0	21.0	0.0	0.25	0	G|0.990;A|0.010	0.010	strong	.	CCDC157	86	.	NM_001017437	exon3	c.G6A	p.A2A	GATGGCGCACCTG	.	PASS	Atlas-SNP
NEIL3	55247	hgsc.bcm.edu	37	4	178231219	178231219	+	Missense_Mutation	SNP	C	C	T	rs34007209	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	33.0	32.0	0.0	0.578947	0	C|0.884;T|0.116	0.116	strong	NEIL3,NS,carcinoma,0,2	NEIL3	89	2	NM_018248	exon1	c.C112T	p.R38C	CAGGGCCGCGCCT	.	PASS	Atlas-SNP
HNRNPA2B1	3181	hgsc.bcm.edu	37	7	26236235	26236235	+	Silent	SNP	T	T	C	rs34317198	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	78.0	195.0	0.0	0.458824	0	T|0.935;C|0.065	0.065	strong	.	HNRNPA2B1	70	.	NM_031243	exon6	c.A555G	p.R185R	AGCCTTTCTTACT	.	PASS	Atlas-SNP
MFSD6L	162387	hgsc.bcm.edu	37	17	8701701	8701701	+	Silent	SNP	A	A	G	rs16957601	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	9.0	15.0	0.0	0.75	0	A|0.974;G|0.026	0.026	strong	.	MFSD6L	46	.	NM_152599	exon1	c.T738C	p.F246F	GAGGATAAAAGTC	.	PASS	Atlas-SNP
BAI1	575	hgsc.bcm.edu	37	8	143599594	143599594	+	Silent	SNP	C	C	T	rs75573695	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	67.0	160.0	0.0	0.462069	0	C|0.964;T|0.036	0.036	strong	.	BAI1	146	.	NM_001702	exon18	c.C2913T	p.S971S	CGTGTCCGTGTGG	.	PASS	Atlas-SNP
GPC2	221914	hgsc.bcm.edu	37	7	99773879	99773879	+	Silent	SNP	G	G	A	rs74662631	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	276.0	136.0	231.0	0.0	0.492754	0	G|0.985;A|0.015	0.015	strong	.	GPC2	49	.	NM_152742	exon2	c.C276T	p.S92S	GGAGCCGCTGTCC	.	PASS	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	37	9	140707590	140707590	+	Silent	SNP	C	C	T	rs35943616	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	64.0	47.0	0.0	1	0	C|0.899;T|0.101	0.101	strong	.	EHMT1	196	.	NM_024757	exon20	c.C3000T	p.P1000P	GGCCCCCGACAGG	.	PASS	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	37	3	56650054	56650054	+	Missense_Mutation	SNP	T	T	C	rs111934125	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	8.0	86.0	0.0	0.0952381	0	C|1.000;|0.000	1.000	weak	CCDC66_ENST00000394672,caecum,carcinoma,0,2	CCDC66	145	2	NM_001141947	exon13	c.T1816C	p.S606P	ACGACTTCTAAGA	.	PASS	Atlas-SNP
CBFB	865	hgsc.bcm.edu	37	16	67116169	67116169	+	Silent	SNP	C	C	T	rs78053453	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	38.0	80.0	0.0	0.431818	0	C|0.951;T|0.049	0.049	strong	CBFB_ENST00000412916,NS,carcinoma,+1,2	CBFB	52	2	NM_022845	exon5	c.C453T	p.R151R	GACACGCGAATTT	.	PASS	Atlas-SNP
LNX2	222484	hgsc.bcm.edu	37	13	28130473	28130473	+	Silent	SNP	G	G	A	rs115119970	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	29.0	73.0	0.0	0.341176	0	G|0.988;A|0.012	0.012	strong	.	LNX2	70	.	NM_153371	exon7	c.C1446T	p.T482T	AGCAACGGTCATG	.	PASS	Atlas-SNP
FBF1	85302	hgsc.bcm.edu	37	17	73929118	73929118	+	Missense_Mutation	SNP	G	G	A	rs149283443	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	35.0	61.0	0.0	0.636364	0	G|0.997;A|0.003	0.003	strong	.	FBF1	48	.	NM_001080542	exon4	c.C83T	p.T28I	ACACCTGTGGTGT	.	PASS	Atlas-SNP
ABCC4	10257	hgsc.bcm.edu	37	13	95696540	95696540	+	Silent	SNP	C	C	T	rs11568695	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	54.0	127.0	0.0	0.486486	0	C|0.950;T|0.050	0.050	strong	ABCC4_ENST00000376887,colon,carcinoma,-1,2	ABCC4	248	2	NM_005845	exon28	c.G3609A	p.A1203A	TGCCGTCGCTTCA	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26834833	26834833	+	Silent	SNP	G	G	A	rs35412320	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	44.0	101.0	0.0	0.369748	0	G|0.991;A|0.009	0.009	strong	ITPR2,colon,carcinoma,-2,1	ITPR2	270	1	NM_002223	exon13	c.C1383T	p.N461N	TGTGCCGTTTTCT	.	PASS	Atlas-SNP
CALM3	808	hgsc.bcm.edu	37	19	47112207	47112207	+	Silent	SNP	C	C	T	rs35617141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	47.0	86.0	0.0	0.566265	0	C|0.990;T|0.010	0.010	strong	.	CALM3	9	.	NM_005184	exon5	c.C390T	p.D130D	GGCTGACATCGAT	.	PASS	Atlas-SNP
OR4D2	124538	hgsc.bcm.edu	37	17	56247794	56247794	+	Missense_Mutation	SNP	C	C	T	rs148697791	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	362.0	191.0	361.0	1.0	0.527624	0.00277008	C|0.995;T|0.005	0.005	strong	.	OR4D2	48	.	NM_001004707	exon1	c.C778T	p.R260W	TATGCCCGGCCCT	.	PASS	Atlas-SNP
RINT1	60561	hgsc.bcm.edu	37	7	105182995	105182995	+	Silent	SNP	G	G	A	rs7805216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	218.0	106.0	180.0	0.0	0.486239	0	G|0.939;A|0.061	0.061	strong	.	RINT1	65	.	NM_021930	exon4	c.G414A	p.A138A	GACTGCGCAACCT	.	PASS	Atlas-SNP
RNASE4	6038	hgsc.bcm.edu	37	14	21167837	21167837	+	Missense_Mutation	SNP	G	G	A	rs59543367	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	30.0	22.0	36.0	0.0	0.733333	0	G|0.994;A|0.006	0.006	strong	.	RNASE4	18	.	NM_002937	exon2	c.G307A	p.V103I	GAGGGTGTAGTGA	.	PASS	Atlas-SNP
AKAP8L	26993	hgsc.bcm.edu	37	19	15512393	15512393	+	Silent	SNP	G	G	A	rs61739315	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	19.0	42.0	0.0	0.395833	0	G|0.991;A|0.009	0.009	strong	.	AKAP8L	64	.	NM_014371	exon5	c.C384T	p.C128C	CGAGTCGCAGGAC	.	PASS	Atlas-SNP
GPNMB	10457	hgsc.bcm.edu	37	7	23300352	23300352	+	Silent	SNP	G	G	T	rs35115002	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	40.0	83.0	0.0	0.547945	0	G|0.995;T|0.005	0.005	strong	.	GPNMB	88	.	NM_002510	exon6	c.G978T	p.P326P	GCCACCGCCACCA	.	PASS	Atlas-SNP
ZNF446	55663	hgsc.bcm.edu	37	19	58991075	58991075	+	Silent	SNP	C	C	T	rs140158663	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	43.0	87.0	0.0	0.434343	0	C|0.998;T|0.002	0.002	strong	.	ZNF446	22	.	NM_017908	exon5	c.C693T	p.Y231Y	GAAGTACGGCACA	.	PASS	Atlas-SNP
ZSCAN25	221785	hgsc.bcm.edu	37	7	99227027	99227027	+	Missense_Mutation	SNP	C	C	T	rs142120776	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	28.0	57.0	0.0	0.474576	0	C|0.998;T|0.002	0.002	strong	.	.	.	.	NM_145115	exon8	c.C1019T	p.T340I	TCAAAACCCACAG	.	PASS	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	37	7	18914209	18914209	+	Silent	SNP	G	G	T	rs17140166	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	35.0	64.0	0.0	0.4375	0	G|0.975;T|0.025	0.025	strong	.	HDAC9	560	.	NM_178425	exon21	c.G2793T	p.V931V	CAAAGTGACGGCA	.	PASS	Atlas-SNP
THRSP	7069	hgsc.bcm.edu	37	11	77775157	77775157	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	62.0	128.0	0.0	0.516667	0	.	.	none	.	THRSP	18	.	NM_003251	exon1	c.G230A	p.R77Q	TGCCGCGGGAGGA	.	PASS	Atlas-SNP
CBLN3	643866	hgsc.bcm.edu	37	14	24898135	24898135	+	Silent	SNP	C	C	T	rs57646536	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	50.0	121.0	0.0	0.50505	0	C|0.963;T|0.037	0.037	strong	.	CBLN3	21	.	NM_001039771	exon1	c.G126A	p.E42E	CTCCCCCTCCAGC	.	PASS	Atlas-SNP
RGAG4	340526	hgsc.bcm.edu	37	X	71350294	71350294	+	Missense_Mutation	SNP	A	A	G	rs146618350	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	237.0	205.0	0.0	0.995798	0	A|0.994;G|0.006	0.006	strong	.	RGAG4	63	.	NM_001024455	exon1	c.T1097C	p.M366T	GCCCTCATGCGCT	.	PASS	Atlas-SNP
ANKRD36B	57730	hgsc.bcm.edu	37	2	98201527	98201527	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1172.0	406.0	1252.0	1.0	0.346416	0.000798722	.	.	none	.	.	.	.	NM_025190	exon3	c.C330T	p.A110A	TGGATCGGCGCCA	.	PASS	Atlas-SNP
PRSS36	146547	hgsc.bcm.edu	37	16	31151927	31151927	+	Silent	SNP	G	G	A	rs61976958	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	28.0	75.0	0.0	0.405797	0	G|0.983;A|0.017	0.017	strong	.	PRSS36	50	.	NM_173502	exon13	c.C2053T	p.L685L	AGCTCAGCTCCAG	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124764176	124764176	+	Silent	SNP	T	T	C	rs11820142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	38.0	97.0	0.0	0.422222	0	T|0.971;C|0.029	0.029	strong	.	ROBO4	130	.	NM_019055	exon8	c.A1239G	p.P413P	GGAGCCTGGCATA	.	PASS	Atlas-SNP
ROR2	4920	hgsc.bcm.edu	37	9	94499797	94499797	+	Silent	SNP	A	A	G	rs16907720	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	26.0	50.0	0.0	0.684211	0	A|0.902;G|0.098	0.098	strong	.	ROR2	167	.	NM_004560	exon5	c.T498C	p.D166D	GTAATCATCCCTG	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	37	11	61730427	61730427	+	Missense_Mutation	SNP	G	G	T	rs115979721	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	81.0	193.0	0.0	0.490909	0	G|0.977;T|0.023	0.023	strong	.	BEST1	85	.	NM_001139443	exon9	c.G1621T	p.A541S	TCCCTTGCTCTGA	.	PASS	Atlas-SNP
ANKUB1	389161	hgsc.bcm.edu	37	3	149485581	149485581	+	Missense_Mutation	SNP	C	C	T	rs75855073	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	38.0	76.0	0.0	0.493506	0	C|0.974;T|0.026	0.026	strong	.	ANKUB1	27	.	NM_001144960	exon5	c.G868A	p.V290I	ATAATACACAGTC	.	PASS	Atlas-SNP
MED13	9969	hgsc.bcm.edu	37	17	60087932	60087932	+	Missense_Mutation	SNP	T	T	C	rs114223275	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	45.0	121.0	0.0	0.441176	0	T|0.999;C|0.001	0.001	strong	.	MED13	181	.	NM_005121	exon9	c.A1946G	p.E649G	ACACTTTCCTGTC	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49377120	49377120	+	Silent	SNP	C	C	T	rs34899467	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	93.0	0.0	0.460526	0	C|0.984;T|0.016	0.016	strong	.	PPP1R15A	48	.	NM_014330	exon2	c.C630T	p.A210A	TTCTGCCTTGTCT	.	PASS	Atlas-SNP
MAP10	54627	hgsc.bcm.edu	37	1	232942276	232942276	+	Missense_Mutation	SNP	G	G	A	rs61735495	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	50.0	67.0	0.0	0.555556	0	G|0.988;A|0.012	0.012	strong	.	.	.	.	NM_019090	exon1	c.G1507A	p.E503K	GCACACGAACATC	.	PASS	Atlas-SNP
URI1	8725	hgsc.bcm.edu	37	19	30500195	30500195	+	Missense_Mutation	SNP	G	G	C	rs151025990	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	47.0	88.0	0.0	0.494737	0	G|0.998;C|0.002	0.002	strong	.	.	.	.	NM_003796	exon8	c.G970C	p.A324P	CATGAGGCTTTAG	.	PASS	Atlas-SNP
ZBTB4	57659	hgsc.bcm.edu	37	17	7365289	7365289	+	Silent	SNP	A	A	T	rs114898274	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	40.0	110.0	0.0	0.430108	0	A|0.992;T|0.008	0.008	strong	.	ZBTB4	163	.	NM_001128833	exon4	c.T3012A	p.V1004V	TCTCTCAACCCCT	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123970513	123970513	+	Silent	SNP	G	G	A	rs35913854	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	23.0	54.0	0.0	0.442308	0	G|0.936;A|0.064	0.064	strong	.	TACC2	271	.	NM_206862	exon9	c.G6573A	p.T2191T	GGAGACGCCCCTT	.	PASS	Atlas-SNP
NOS2	4843	hgsc.bcm.edu	37	17	26085931	26085931	+	Silent	SNP	G	G	A	rs75831953		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	451.0	212.0	422.0	0.0	0.470067	0	.	.	weak	.	NOS2	113	.	NM_000625	exon26	c.C3330T	p.V1110V	GTCCTCGACCTGC	.	PASS	Atlas-SNP
ARHGEF4	50649	hgsc.bcm.edu	37	2	131803624	131803624	+	Silent	SNP	C	C	T	rs114004756	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	73.0	166.0	0.0	0.405556	0	C|0.996;T|0.004	0.004	strong	.	ARHGEF4	89	.	NM_015320	exon14	c.C1935T	p.P645P	CCGGCCCTGCTAC	.	PASS	Atlas-SNP
HIST1H2BD	3017	hgsc.bcm.edu	37	6	26158456	26158456	+	Missense_Mutation	SNP	C	C	T	rs62623440	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	61.0	174.0	0.0	0.42069	0	C|0.990;T|0.010	0.010	strong	.	HIST1H2BD	45	.	NM_021063	exon1	c.C59T	p.T20I	CGGTGACTAAGGC	.	PASS	Atlas-SNP
PSG3	5671	hgsc.bcm.edu	37	19	43237080	43237080	+	Missense_Mutation	SNP	T	T	C	rs76931703	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	116.0	237.0	0.0	0.493617	0	T|0.988;C|0.012	0.012	strong	.	PSG3	82	.	NM_021016	exon3	c.A565G	p.M189V	GAGTCATAGGGAG	.	PASS	Atlas-SNP
CXCR6	10663	hgsc.bcm.edu	37	3	45987980	45987980	+	Missense_Mutation	SNP	G	G	A	rs2234355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	67.0	171.0	0.0	0.489051	0	G|0.857;A|0.143	0.143	strong	.	CXCR6	17	.	NM_006564	exon2	c.G7A	p.E3K	ATGGCAGAGCATG	.	PASS	Atlas-SNP
GNA12	2768	hgsc.bcm.edu	37	7	2834754	2834754	+	Silent	SNP	T	T	C	rs2230877	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	47.0	70.0	0.0	0.522222	0	T|0.980;C|0.020	0.020	strong	.	GNA12	35	.	NM_007353	exon2	c.A333G	p.A111A	ATCTCGTGCATCA	.	PASS	Atlas-SNP
XRCC4	7518	hgsc.bcm.edu	37	5	82400773	82400773	+	Missense_Mutation	SNP	C	C	G	rs28383138	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	69.0	136.0	0.0	0.479167	0	C|0.993;G|0.007	0.007	strong	.	XRCC4	37	.	NM_003401	exon2	c.C35G	p.S12C	TTGTTTCTGAACC	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79875104	79875104	+	Silent	SNP	A	A	G	rs73466058	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	93.0	145.0	0.0	0.62	0	A|0.987;G|0.013	0.013	strong	.	VPS13A	735	.	NM_001018038	exon23	c.A2391G	p.P797P	TGAACCAGTAACT	.	PASS	Atlas-SNP
ITIH6	347365	hgsc.bcm.edu	37	X	54783952	54783952	+	Missense_Mutation	SNP	A	A	G	rs150850201	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	227.0	115.0	153.0	0.0	0.506608	0	A|0.982;G|0.018	0.018	strong	.	.	.	.	NM_198510	exon8	c.T2555C	p.I852T	AATAAGATTTTAG	.	PASS	Atlas-SNP
CPNE7	27132	hgsc.bcm.edu	37	16	89645360	89645360	+	Silent	SNP	G	G	A	rs149812493	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	37.0	72.0	0.0	0.430233	0	G|0.988;A|0.012	0.012	strong	.	CPNE7	56	.	NM_014427	exon3	c.G453A	p.T151T	CTGCACGGAATCC	.	PASS	Atlas-SNP
HEXIM2	124790	hgsc.bcm.edu	37	17	43246456	43246456	+	Silent	SNP	G	G	A	rs34207107	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	100.0	101.0	1.0	1	0.00990099	G|0.962;A|0.038	0.038	strong	.	HEXIM2	19	.	NM_144608	exon4	c.G141A	p.P47P	GACACCGCGGATG	.	PASS	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39623496	39623496	+	Missense_Mutation	SNP	C	C	T	rs115680799	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	47.0	80.0	0.0	0.494737	0	C|0.981;T|0.019	0.019	strong	.	KRT32	57	.	NM_002278	exon1	c.G82A	p.G28S	TCACGCCGCTGGA	.	PASS	Atlas-SNP
TSPEAR	54084	hgsc.bcm.edu	37	21	45953576	45953576	+	Silent	SNP	C	C	T	rs148713881	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	44.0	85.0	0.0	0.435644	0	C|0.990;T|0.010	0.010	strong	TSPEAR,caecum,carcinoma,0,1	TSPEAR	110	1	NM_144991	exon3	c.G534A	p.P178P	GTCCACCGGGAGG	.	PASS	Atlas-SNP
PENK	5179	hgsc.bcm.edu	37	8	57354380	57354380	+	Silent	SNP	T	T	C	rs76702938	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	58.0	115.0	0.0	0.542056	0	T|0.999;C|0.001	0.001	strong	.	PENK	59	.	NM_001135690	exon4	c.A255G	p.R85R	ATTTTCTCTGAGG	.	PASS	Atlas-SNP
RUFY4	285180	hgsc.bcm.edu	37	2	218954716	218954716	+	Missense_Mutation	SNP	A	A	G	rs116710266	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	280.0	153.0	214.0	0.0	0.546429	0	A|0.982;G|0.018	0.018	strong	.	RUFY4	59	.	NM_198483	exon13	c.A1655G	p.Y552C	TGGATTACAAGAA	.	PASS	Atlas-SNP
MUC1	4582	hgsc.bcm.edu	37	1	155161714	155161714	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	6.0	4.0	5.0	0.0	0.666667	0	.	.	none	.	MUC1	94	.	NM_001204286	exon2	c.C446T	p.S149L	GGGGCCGAGGTGA	.	PASS	Atlas-SNP
SIDT2	51092	hgsc.bcm.edu	37	11	117050007	117050007	+	Missense_Mutation	SNP	G	G	A	rs61729992	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	15.0	43.0	0.0	0.340909	0	G|0.991;A|0.009	0.009	strong	.	SIDT2	82	.	NM_001040455	exon1	c.G28A	p.V10M	TTCTTGGTGCTCT	.	PASS	Atlas-SNP
RAB19	401409	hgsc.bcm.edu	37	7	140125878	140125878	+	Silent	SNP	C	C	T	rs4585665	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	41.0	81.0	0.0	0.450549	0	C|0.989;T|0.011	0.011	strong	.	RAB19	21	.	NM_001008749	exon4	c.C582T	p.N194N	CCTGAACGGCCTC	.	PASS	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274212	39274212	+	Missense_Mutation	SNP	C	C	T	rs187464255	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	37.0	120.0	0.0	0.313559	0	C|0.982;T|0.018	0.018	strong	.	KRTAP4-11	94	.	NM_033059	exon1	c.G356A	p.C119Y	CTGCAGCAGCTGG	.	PASS	Atlas-SNP
ZNF213	7760	hgsc.bcm.edu	37	16	3188789	3188789	+	Silent	SNP	G	G	A	rs35931391	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	62.0	95.0	0.0	0.553571	0	G|0.949;A|0.051	0.051	strong	.	ZNF213	36	.	NM_004220	exon4	c.G567A	p.T189T	AGAGACGACGGAC	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225339732	225339732	+	Missense_Mutation	SNP	C	C	T	rs115743416	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	62.0	138.0	0.0	0.492063	0	C|0.993;T|0.007	0.007	strong	DNAH14_ENST00000430092,colon,carcinoma,-1,2	DNAH14	300	2	NM_001373	exon31	c.C4915T	p.R1639C	GAAATTCGTATCA	.	PASS	Atlas-SNP
ELMO2	63916	hgsc.bcm.edu	37	20	45014804	45014804	+	Silent	SNP	G	G	A	rs201990540	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	5.0	95.0	1.0	0.045045	0.0105263	G|0.998;A|0.002	0.002	strong	ELMO2,NS,carcinoma,-1,1	ELMO2	51	1	NM_182764	exon8	c.C636T	p.A212A	TTCCTCGGCTATC	.	scavenged	Atlas-SNP
TEAD2	8463	hgsc.bcm.edu	37	19	49852070	49852070	+	Missense_Mutation	SNP	G	G	A	rs201393859	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	57.0	114.0	0.0	0.448819	0	G|0.995;A|0.005	0.005	strong	.	TEAD2	70	.	NM_001256660	exon9	c.C637T	p.P213S	GTGGGGGCAGGGG	.	PASS	Atlas-SNP
GPRIN3	285513	hgsc.bcm.edu	37	4	90168945	90168945	+	Missense_Mutation	SNP	A	A	C	rs34322172	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	93.0	173.0	0.0	0.508197	0	A|0.992;C|0.008	0.008	strong	.	GPRIN3	90	.	NM_198281	exon2	c.T2317G	p.S773A	ACACAGAAGACGG	.	PASS	Atlas-SNP
MLKL	197259	hgsc.bcm.edu	37	16	74709233	74709233	+	Missense_Mutation	SNP	C	C	A	rs144526386	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	49.0	103.0	0.0	0.526882	0	C|0.986;A|0.014	0.014	strong	.	MLKL	51	.	NM_001142497	exon4	c.G605T	p.G202V	GCTGAGCCAGTCT	.	PASS	Atlas-SNP
TMEM201	199953	hgsc.bcm.edu	37	1	9671935	9671935	+	Silent	SNP	C	C	T	rs4073292	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	44.0	82.0	0.0	0.511628	0	C|0.934;T|0.066	0.066	strong	.	TMEM201	63	.	NM_001130924	exon10	c.C1890T	p.A630A	GGAGGCCGCCACC	.	PASS	Atlas-SNP
ZNF195	7748	hgsc.bcm.edu	37	11	3383015	3383015	+	Missense_Mutation	SNP	G	G	A	rs7125523	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	29.0	39.0	0.0	0.58	0	G|0.980;A|0.020	0.020	strong	.	ZNF195	77	.	NM_001242841	exon5	c.C343T	p.R115C	GGGCACGGTGGTT	.	PASS	Atlas-SNP
RAB11FIP5	26056	hgsc.bcm.edu	37	2	73339675	73339675	+	Silent	SNP	C	C	T	rs143108301		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	30.0	44.0	0.0	0.434783	0	C|1.000;T|0.000	0.000	weak	.	RAB11FIP5	66	.	NM_015470	exon1	c.G231A	p.L77L	CGGCGGCAGCTCG	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159654408	159654408	+	Missense_Mutation	SNP	G	G	A	rs73799344	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	25.0	50.0	0.0	0.454545	0	G|0.959;A|0.041	0.041	strong	.	FNDC1	250	.	NM_032532	exon11	c.G2864A	p.S955N	AACAGAGCACAGA	.	PASS	Atlas-SNP
CXCR2	3579	hgsc.bcm.edu	37	2	219000193	219000193	+	Silent	SNP	A	A	G	rs2228414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	124.0	253.0	0.0	0.579439	0	A|0.985;G|0.015	0.015	strong	.	CXCR2	54	.	NM_001168298	exon4	c.A669G	p.P223P	CGTGCCACTGCTG	.	PASS	Atlas-SNP
ND3	0	hgsc.bcm.edu	37	MT	10321	10321	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	8.0	8.0	8.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361227	exon1	c.T263C	p.V88A	TAATAGTTATGTC	.	PASS	Atlas-SNP
CEP85L	387119	hgsc.bcm.edu	37	6	118803091	118803091	+	Missense_Mutation	SNP	C	C	G	rs9489410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	32.0	59.0	0.0	0.444444	0	C|0.982;G|0.018	0.018	strong	.	CEP85L	26	.	NM_001178035	exon9	c.G1605C	p.Q535H	CAGAATCTGCAGC	.	PASS	Atlas-SNP
PPP1R26	9858	hgsc.bcm.edu	37	9	138379608	138379608	+	Silent	SNP	C	C	T	rs139160467	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	22.0	8.0	24.0	0.0	0.363636	0	C|0.989;T|0.011	0.011	strong	.	.	.	.	NM_014811	exon4	c.C3252T	p.T1084T	GTCCACCCAGCTC	.	PASS	Atlas-SNP
OR3A1	4994	hgsc.bcm.edu	37	17	3195603	3195603	+	Nonsense_Mutation	SNP	T	T	A	rs7218125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	277.0	148.0	254.0	0.0	0.534296	0	T|0.972;A|0.028	0.028	strong	.	OR3A1	46	.	NM_002550	exon1	c.A274T	p.K92X	CACGCTTGCGGGA	.	PASS	Atlas-SNP
CYBA	1535	hgsc.bcm.edu	37	16	88713213	88713213	+	Silent	SNP	C	C	G	rs2228472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	36.0	65.0	0.0	0.537313	0	C|0.949;G|0.051	0.051	strong	.	CYBA	12	.	NM_000101	exon4	c.G237C	p.L79L	CCCGAACAGCTTC	.	PASS	Atlas-SNP
IFNA10	3446	hgsc.bcm.edu	37	9	21206724	21206724	+	Nonsense_Mutation	SNP	G	G	A	rs145785282	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	702.0	210.0	599.0	0.0	0.299145	0	G|0.996;A|0.004	0.004	strong	.	IFNA10	29	.	NM_002171	exon1	c.C373T	p.Q125X	CCTCCTGTATCAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507227	195507227	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	46.0	283.0	0.0	0.657143	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G11224A	p.V3742I	GGGTGACGTGACC	.	PASS	Atlas-SNP
PNPLA1	285848	hgsc.bcm.edu	37	6	36269946	36269946	+	Missense_Mutation	SNP	A	A	G	rs145856102	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	63.0	132.0	0.0	0.473684	0	A|0.998;G|0.002	0.002	strong	.	PNPLA1	92	.	NM_001145717	exon6	c.A1084G	p.T362A	TCTTCAACTCCAC	.	PASS	Atlas-SNP
BRAF	673	hgsc.bcm.edu	37	7	140481425	140481425	+	Silent	SNP	T	T	C	rs56216404	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	59.0	103.0	0.0	0.526786	0	T|0.995;C|0.005	0.005	strong	.	BRAF	36346	.	NM_004333	exon11	c.A1383G	p.Q461Q	AATTCTTTGTCCC	.	PASS	Atlas-SNP
NPL	80896	hgsc.bcm.edu	37	1	182787797	182787797	+	Silent	SNP	G	G	A	rs58343016	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	30.0	59.0	0.0	0.5	0	G|0.983;A|0.017	0.017	strong	.	NPL	55	.	NM_001200052	exon9	c.G579A	p.Q193Q	GCAACAGTTTGCT	.	PASS	Atlas-SNP
DGUOK	1716	hgsc.bcm.edu	37	2	74174013	74174013	+	Silent	SNP	G	G	A	rs1804599	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	38.0	64.0	0.0	0.542857	0	G|0.986;A|0.014	0.014	strong	.	DGUOK	16	.	NM_080918	exon3	c.G423A	p.E141E	CTTTGAGAGGTCT	.	PASS	Atlas-SNP
PRMT10	90826	hgsc.bcm.edu	37	4	148594177	148594177	+	Missense_Mutation	SNP	C	C	T	rs73853975	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	77.0	114.0	0.0	0.509934	0	C|0.946;T|0.054	0.054	strong	.	PRMT10	68	.	NM_138364	exon4	c.G676A	p.E226K	CTGCTTCCATCTT	.	PASS	Atlas-SNP
AGAP7	653268	hgsc.bcm.edu	37	10	51465429	51465429	+	Missense_Mutation	SNP	C	C	T	rs183573385	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	650.0	348.0	591.0	0.0	0.535385	0	C|0.996;T|0.004	0.004	strong	.	AGAP7	33	.	NM_001077685	exon7	c.G1027A	p.D343N	CCATGTCCTTGGA	.	PASS	Atlas-SNP
CARD14	79092	hgsc.bcm.edu	37	17	78177668	78177668	+	Missense_Mutation	SNP	G	G	A	rs34822755	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	283.0	139.0	287.0	0.0	0.491166	0	G|0.991;A|0.009	0.009	strong	.	CARD14	98	.	NM_024110	exon16	c.G2267A	p.C756Y	AGCAGTGCACCGT	.	PASS	Atlas-SNP
USP24	23358	hgsc.bcm.edu	37	1	55545240	55545240	+	Missense_Mutation	SNP	T	T	C	rs116203669	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	41.0	81.0	0.0	0.460674	0	T|0.996;C|0.004	0.004	strong	.	USP24	323	.	NM_015306	exon60	c.A7171G	p.M2391V	CAGACATGAACAA	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	650371	650371	+	Silent	SNP	C	C	T	rs61735317	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	66.0	100.0	0.0	0.559322	0	C|0.978;T|0.022	0.022	strong	.	GEMIN4	116	.	NM_015721	exon2	c.G912A	p.S304S	GGCCAGCGAGGTC	.	PASS	Atlas-SNP
C1orf61	10485	hgsc.bcm.edu	37	1	156377720	156377720	+	Silent	SNP	G	G	A	rs141938076	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	53.0	106.0	0.0	0.427419	0	G|0.998;A|0.002	0.002	strong	.	C1orf61	15	.	NM_006365	exon5	c.C219T	p.S73S	CCTGGTGGAGATT	.	PASS	Atlas-SNP
LSM4	25804	hgsc.bcm.edu	37	19	18420501	18420501	+	Silent	SNP	G	G	A	rs148380214	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	26.0	17.0	0.0	0.742857	0	G|0.997;A|0.003	0.003	strong	.	LSM4	15	.	NM_012321	exon4	c.C315T	p.G105G	AGCGCCGCCCATG	.	PASS	Atlas-SNP
RFWD3	55159	hgsc.bcm.edu	37	16	74664698	74664698	+	Silent	SNP	A	A	G	rs78796563	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	44.0	86.0	1.0	0.586667	0.0116279	A|0.981;G|0.019	0.019	strong	RFWD3,NS,carcinoma,0,1	RFWD3	49	1	NM_018124	exon10	c.T1735C	p.L579L	CTACTAACTCCTG	.	scavenged	Atlas-SNP
SENP7	57337	hgsc.bcm.edu	37	3	101090924	101090924	+	Missense_Mutation	SNP	T	T	A	rs116197973	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	73.0	145.0	0.0	0.462025	0	T|0.988;A|0.012	0.012	strong	.	SENP7	170	.	NM_020654	exon7	c.A724T	p.T242S	GCGCAGTCTGCTT	.	PASS	Atlas-SNP
PRSS38	339501	hgsc.bcm.edu	37	1	228003879	228003879	+	Silent	SNP	C	C	T	rs112241411	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	254.0	131.0	190.0	0.0	0.515748	0	C|0.982;T|0.018	0.018	strong	PRSS38,colon,carcinoma,0,1	PRSS38	55	1	NM_183062	exon2	c.C237T	p.Y79Y	GCACTACGCAGGC	.	PASS	Atlas-SNP
DSG1	1828	hgsc.bcm.edu	37	18	28908178	28908178	+	Missense_Mutation	SNP	G	G	C	rs74368609	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	56.0	81.0	0.0	0.538462	0	G|0.992;C|0.008	0.008	strong	.	DSG1	176	.	NM_001942	exon4	c.G243C	p.Q81H	AAACCAGCAAGTT	.	PASS	Atlas-SNP
KRTAP4-2	85291	hgsc.bcm.edu	37	17	39334314	39334314	+	Missense_Mutation	SNP	A	A	T	rs200720939		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	246.0	26.0	179.0	0.0	0.105691	0	.	.	weak	KRTAP4-2_ENST00000458321,NS,haematopoietic_neoplasm,0,4	KRTAP4-2	93	4	NM_033062	exon1	c.T103A	p.C35S	GGCAGCAGGTGGT	.	scavenged	Atlas-SNP
ARHGAP25	9938	hgsc.bcm.edu	37	2	69049916	69049916	+	Missense_Mutation	SNP	G	G	A	rs61734450	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	31.0	69.0	0.0	0.455882	0	G|0.998;A|0.002	0.002	strong	ARHGAP25,NS,carcinoma,0,1	ARHGAP25	175	1	NM_001007231	exon10	c.G1645A	p.E549K	GGAGAAGAGGAAA	.	PASS	Atlas-SNP
PLEKHM1	9842	hgsc.bcm.edu	37	17	43552942	43552942	+	Silent	SNP	G	G	A	rs71373588	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	281.0	131.0	247.0	1.0	0.466192	0.00404858	G|0.993;A|0.007	0.007	strong	.	PLEKHM1	69	.	NM_014798	exon4	c.C447T	p.Y149Y	GGGCTGGTAGTAC	.	PASS	Atlas-SNP
C20orf27	54976	hgsc.bcm.edu	37	20	3736160	3736160	+	Missense_Mutation	SNP	G	G	A	rs140915844	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	27.0	48.0	0.0	0.415385	0	G|0.999;A|0.001	0.001	strong	.	C20orf27	17	.	NM_001039140	exon4	c.C332T	p.P111L	AGGCTGGGGACAG	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	37	3	119466025	119466025	+	Missense_Mutation	SNP	G	G	A	rs9853426	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	75.0	134.0	0.0	0.513699	0	G|0.983;A|0.017	0.017	strong	.	.	.	.	NM_033364	exon15	c.G1966A	p.A656T	ACCGAAGCGAATA	.	PASS	Atlas-SNP
TEX13A	56157	hgsc.bcm.edu	37	X	104464674	104464674	+	Silent	SNP	G	G	A	rs183606927	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	25.0	71.0	0.0	0.3125	0	G|0.992;A|0.008	0.008	strong	.	TEX13A	55	.	NM_031274	exon2	c.C408T	p.L136L	CTCCACGAGGCTG	.	PASS	Atlas-SNP
PIF1	80119	hgsc.bcm.edu	37	15	65112116	65112116	+	Silent	SNP	C	C	T	rs145376177	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	45.0	71.0	0.0	0.5	0	C|1.000;T|0.000	0.000	weak	.	PIF1	43	.	NM_025049	exon8	c.G1263A	p.V421V	CGTGGCCACAATC	.	PASS	Atlas-SNP
IGFALS	3483	hgsc.bcm.edu	37	16	1842454	1842454	+	Missense_Mutation	SNP	G	G	A	rs34680334	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	13.0	9.0	11.0	0.0	0.692308	0	G|0.947;A|0.053	0.053	strong	.	IGFALS	29	.	NM_001146006	exon2	c.C79T	p.H27Y	CCGAGTGAGCCTG	.	PASS	Atlas-SNP
C5AR2	27202	hgsc.bcm.edu	37	19	47844899	47844899	+	Silent	SNP	C	C	T	rs34085015	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	48.0	107.0	0.0	0.55814	0	C|0.992;T|0.008	0.008	strong	.	.	.	.	NM_001271750	exon2	c.C843T	p.L281L	TGCCCTCGCTCAC	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17087474	17087474	+	Missense_Mutation	SNP	C	C	T	rs71193817		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	868.0	93.0	684.0	0.0	0.107143	0	C|0.500;T|0.500	0.500	weak	.	.	.	.	NM_001271733	exon2	c.G191A	p.R64H	CCACAGCGACCAG	.	PASS	Atlas-SNP
KRT31	3881	hgsc.bcm.edu	37	17	39551533	39551533	+	Silent	SNP	G	G	A	rs6503626	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	101.0	236.0	0.0	0.480952	0	G|0.988;A|0.012	0.012	strong	.	KRT31	158	.	NM_002277	exon5	c.C840T	p.N280N	CAGGGCGTTGACT	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71235647	71235647	+	Missense_Mutation	SNP	C	C	T	rs16869301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	41.0	96.0	0.0	0.414141	0	C|0.974;T|0.026	0.026	strong	.	FAM135A	181	.	NM_001162529	exon13	c.C2860T	p.P954S	CAGAGTCCTGATA	.	PASS	Atlas-SNP
GPR137	56834	hgsc.bcm.edu	37	11	64051853	64051853	+	Silent	SNP	G	G	A	rs75052600	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	26.0	38.0	0.0	0.541667	0	G|0.986;A|0.014	0.014	strong	.	GPR137	52	.	NM_001170726	exon1	c.G15A	p.V5V	GGCTGTGAGGACA	.	PASS	Atlas-SNP
FAM159A	348378	hgsc.bcm.edu	37	1	53099242	53099242	+	Missense_Mutation	SNP	G	G	A	rs182623287	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	23.0	41.0	0.0	0.5	0	G|0.999;A|0.001	0.001	strong	.	FAM159A	22	.	NM_001042693	exon1	c.G77A	p.G26D	CGGGGGGCGAGGC	.	PASS	Atlas-SNP
C15orf40	123207	hgsc.bcm.edu	37	15	83673653	83673653	+	Silent	SNP	A	A	C	rs74028206	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	53.0	122.0	0.0	0.524752	0	A|0.985;C|0.015	0.015	strong	.	C15orf40	18	.	NM_001160114	exon4	c.T438G	p.V146V	GCATTCAACAAGT	.	PASS	Atlas-SNP
KRT33B	3884	hgsc.bcm.edu	37	17	39521752	39521752	+	Silent	SNP	G	G	A	rs61741664	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	100.0	168.0	0.0	0.5	0	G|0.981;A|0.019	0.019	strong	.	KRT33B	46	.	NM_002279	exon4	c.C642T	p.D214D	AGCAGCGTCCACC	.	PASS	Atlas-SNP
TMEM255B	348013	hgsc.bcm.edu	37	13	114507956	114507956	+	Silent	SNP	G	G	A	rs56032548	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	29.0	54.0	0.0	0.483333	0	G|0.922;A|0.078	0.078	strong	.	.	.	.	NM_182614	exon8	c.G768A	p.T256T	CCTGACGCCCGAG	.	PASS	Atlas-SNP
HUS1	3364	hgsc.bcm.edu	37	7	48008869	48008869	+	Missense_Mutation	SNP	G	G	C	rs138848570	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	21.0	51.0	0.0	0.396226	0	G|0.996;C|0.004	0.004	strong	.	HUS1	36	.	NM_004507	exon6	c.C587G	p.T196S	AATTCAGTTTCTA	.	PASS	Atlas-SNP
OR5D18	219438	hgsc.bcm.edu	37	11	55587591	55587591	+	Silent	SNP	C	C	T	rs142792552	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	345.0	163.0	309.0	1.0	0.472464	0.00323625	C|0.997;T|0.003	0.003	strong	.	OR5D18	121	.	NM_001001952	exon1	c.C486T	p.C162C	GACGTGCTCTGCT	.	PASS	Atlas-SNP
VPS33B	26276	hgsc.bcm.edu	37	15	91550232	91550232	+	Silent	SNP	G	G	A	rs59648701	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	32.0	14.0	0.0	0.969697	0	G|0.978;A|0.022	0.022	strong	.	VPS33B	42	.	NM_018668	exon9	c.C648T	p.G216G	GGTTTCGCCATCC	.	PASS	Atlas-SNP
LRIG1	26018	hgsc.bcm.edu	37	3	66431280	66431280	+	Missense_Mutation	SNP	C	C	T	rs9877201	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	36.0	73.0	0.0	0.423529	0	C|0.879;T|0.121	0.121	strong	LRIG1,NS,carcinoma,0,1	LRIG1	138	1	NM_015541	exon18	c.G2776A	p.G926S	GGCCACCGTGTTC	.	PASS	Atlas-SNP
CDH13	1012	hgsc.bcm.edu	37	16	83378487	83378487	+	Silent	SNP	T	T	C	rs145120824	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	48.0	126.0	0.0	0.4	0	T|0.996;C|0.004	0.004	strong	.	CDH13	97	.	NM_001220488	exon7	c.T798C	p.D266D	CACTGATGTCAAT	.	PASS	Atlas-SNP
VASN	114990	hgsc.bcm.edu	37	16	4431880	4431880	+	Silent	SNP	C	C	T	rs13333950	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	31.0	45.0	0.0	0.534483	0	C|0.962;T|0.038	0.038	strong	.	VASN	21	.	NM_138440	exon2	c.C1002T	p.N334N	CAAGAACGCTGGC	.	PASS	Atlas-SNP
UQCRH	7388	hgsc.bcm.edu	37	1	46775856	46775856	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	100.0	182.0	0.0	0.518135	0	.	.	none	.	UQCRH	4	.	NM_006004	exon3	c.C111A	p.C37X	GCAATGCGAGCAG	.	PASS	Atlas-SNP
GGTLC1	92086	hgsc.bcm.edu	37	20	23966316	23966316	+	Silent	SNP	T	T	C	rs111546926	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	45.0	73.0	0.0	0.517241	0	T|0.937;C|0.063	0.063	strong	.	GGTLC1	37	.	NM_178311	exon5	c.A519G	p.R173R	AATGTTTCTCTCC	.	PASS	Atlas-SNP
GIMAP8	155038	hgsc.bcm.edu	37	7	150164189	150164189	+	Silent	SNP	C	C	A	rs143212982	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	104.0	180.0	0.0	0.517413	0	A|0.002;C|0.998;G|0.001	0.002	strong	GIMAP8,NS,carcinoma,-1,1	GIMAP8	136	1	NM_175571	exon2	c.C403A	p.R135R	TTCACTCGGAAGG	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47766113	47766113	+	Missense_Mutation	SNP	T	T	G	rs34500739	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	71.0	100.0	0.0	0.550388	0	T|0.949;G|0.051	0.051	strong	.	PCNT	283	.	NM_006031	exon4	c.T711G	p.H237Q	CCTGCATCAGAGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508692	195508692	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	74.0	154.0	1.0	0.643478	0.00649351	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C9759G	p.D3253E	GGAAGTGTCGGTG	.	scavenged	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43576029	43576029	+	Missense_Mutation	SNP	C	C	T	rs112235686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	89.0	194.0	0.0	0.45641	0	C|0.998;T|0.002	0.002	strong	PSG2,colon,carcinoma,+1,2	PSG2	84	2	NM_031246	exon4	c.G787A	p.A263T	AGTTCGCGAAGCA	.	PASS	Atlas-SNP
TRPC4	7223	hgsc.bcm.edu	37	13	38211046	38211046	+	Silent	SNP	T	T	C	rs731860	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	63.0	102.0	0.0	0.5625	0	T|0.959;C|0.041	0.041	strong	.	TRPC4	389	.	NM_003306	exon11	c.A2943G	p.R981R	TCACAATCTTGTG	.	PASS	Atlas-SNP
TEX33	339669	hgsc.bcm.edu	37	22	37397876	37397876	+	Splice_Site	SNP	A	A	G	rs148258673	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	44.0	107.0	0.0	0.435644	0	A|0.997;G|0.003	0.003	strong	.	TEX33	25	.	NM_001163857	exon4	c.489+2T>C	.	TATGACACCTGCT	.	PASS	Atlas-SNP
WDR93	56964	hgsc.bcm.edu	37	15	90281381	90281381	+	Silent	SNP	T	T	C	rs35017767	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	90.0	151.0	0.0	0.588235	0	T|0.955;C|0.045	0.045	strong	.	WDR93	63	.	NM_020212	exon16	c.T1875C	p.C625C	AAATTGTACCATT	.	PASS	Atlas-SNP
SPATA6L	55064	hgsc.bcm.edu	37	9	4625546	4625546	+	Silent	SNP	C	C	T	rs12338523	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	52.0	78.0	0.0	0.530612	0	C|0.994;T|0.006	0.006	strong	.	SPATA6L	3	.	NM_001039395	exon5	c.G276A	p.R92R	AGGCCTCCGTGAC	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	328144	328144	+	Silent	SNP	G	G	A	rs35746964	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	80.0	157.0	0.0	0.547945	0	G|0.996;A|0.004	0.004	strong	DOCK8_ENST00000453981,colon,carcinoma,0,2	DOCK8	401	2	NM_203447	exon9	c.G1017A	p.P339P	CTACCCGTCCTCA	.	PASS	Atlas-SNP
CD1B	910	hgsc.bcm.edu	37	1	158299299	158299299	+	Silent	SNP	C	C	T	rs11806249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	325.0	151.0	286.0	0.0	0.464615	0	C|0.984;T|0.016	0.016	strong	.	CD1B	78	.	NM_001764	exon4	c.G747A	p.Q249Q	CCCTAGCTGAGTG	.	PASS	Atlas-SNP
ZFYVE19	84936	hgsc.bcm.edu	37	15	41105979	41105979	+	Silent	SNP	C	C	G	rs116749518	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	51.0	90.0	0.0	0.51	0	C|0.997;G|0.003	0.003	strong	.	ZFYVE19	31	.	NM_001077268	exon9	c.C1179G	p.P393P	TCGACCCTGGACG	.	PASS	Atlas-SNP
BBS9	27241	hgsc.bcm.edu	37	7	33545253	33545253	+	Missense_Mutation	SNP	A	A	G	rs140882212	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	34.0	41.0	0.0	0.576271	0	A|1.000;G|0.000	0.000	strong	.	BBS9	194	.	NM_198428	exon20	c.A2294G	p.E765G	CTCAAGAATTGGT	.	PASS	Atlas-SNP
XYLT2	64132	hgsc.bcm.edu	37	17	48434008	48434008	+	Missense_Mutation	SNP	C	C	T	rs151294421	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	9.0	35.0	0.0	0.428571	0	C|0.996;T|0.004	0.004	strong	.	XYLT2	51	.	NM_022167	exon8	c.C1619T	p.T540I	AGAACACCTACGA	.	PASS	Atlas-SNP
ITPRIPL2	162073	hgsc.bcm.edu	37	16	19126578	19126578	+	Silent	SNP	T	T	C	rs114869688	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	38.0	106.0	0.0	0.431818	0	T|0.995;C|0.005	0.005	strong	ITPRIPL2,colon,carcinoma,+1,1	ITPRIPL2	40	1	NM_001034841	exon1	c.T795C	p.T265T	GGCCACTGTGCGT	.	PASS	Atlas-SNP
VRK2	7444	hgsc.bcm.edu	37	2	58350340	58350340	+	Silent	SNP	T	T	C	rs17049354	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	38.0	76.0	0.0	0.527778	0	T|0.962;C|0.038	0.038	strong	.	VRK2	46	.	NM_001130480	exon8	c.T648C	p.F216F	AGAGTTTACCAGC	.	PASS	Atlas-SNP
FGF12	2257	hgsc.bcm.edu	37	3	192078253	192078253	+	Missense_Mutation	SNP	T	T	C	rs142373936	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	92.0	214.0	0.0	0.431925	0	T|1.000;C|0.000	0.000	strong	.	FGF12	88	.	NM_021032	exon2	c.A274G	p.T92A	CAATGGTACCATC	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110491801	110491801	+	Silent	SNP	T	T	C	rs116618272	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	40.0	89.0	0.0	0.45977	0	T|0.993;C|0.007	0.007	strong	.	PKHD1L1	522	.	NM_177531	exon54	c.T9111C	p.F3037F	TTCTTTTTGGCAA	.	PASS	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383351	39383351	+	Missense_Mutation	SNP	T	T	C	rs146532415	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	400.0	149.0	336.0	1.0	0.3725	0.00297619	T|0.993;C|0.007	0.007	strong	.	KRTAP9-2	24	.	NM_031961	exon1	c.T445C	p.C149R	CCAGCCTGCTGTG	.	PASS	Atlas-SNP
CRYZ	1429	hgsc.bcm.edu	37	1	75175865	75175865	+	Missense_Mutation	SNP	C	C	T	rs17095822	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	303.0	145.0	229.0	0.0	0.478548	0	C|0.979;T|0.021	0.021	strong	.	CRYZ	28	.	NM_001130043	exon6	c.G547A	p.E183K	CTTCCTCAGTACC	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15794411	15794411	+	Silent	SNP	C	C	T	rs61731191	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	58.0	140.0	0.0	0.27619	0	C|0.985;T|0.015	0.015	strong	.	CYP4F12	89	.	NM_023944	exon7	c.C756T	p.D252D	CCATGACGGGCGG	.	PASS	Atlas-SNP
HELT	391723	hgsc.bcm.edu	37	4	185940196	185940196	+	Silent	SNP	A	A	T	rs370662812		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	60.0	112.0	0.0	0.526316	0	.	.	weak	.	HELT	34	.	NM_001029887	exon1	c.A114T	p.A38A	GATGGCAGGGAAG	.	PASS	Atlas-SNP
SEL1L3	23231	hgsc.bcm.edu	37	4	25849329	25849329	+	Missense_Mutation	SNP	T	T	C	rs16877661	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	52.0	107.0	0.0	0.504854	0	T|0.984;C|0.016	0.016	strong	.	SEL1L3	62	.	NM_015187	exon2	c.A320G	p.Q107R	CAAGGCTGAGAGC	.	PASS	Atlas-SNP
MPZL3	196264	hgsc.bcm.edu	37	11	118100634	118100634	+	Missense_Mutation	SNP	T	T	A	rs7105729	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	49.0	69.0	0.0	0.662162	0	T|0.954;A|0.046	0.046	strong	.	MPZL3	22	.	NM_198275	exon6	c.A683T	p.D228V	TCTGAATCCTGGA	.	PASS	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	37	17	15968887	15968887	+	Silent	SNP	T	T	C	rs7210057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	314.0	150.0	299.0	1.0	0.477707	0.00334448	T|0.979;C|0.021	0.021	strong	.	NCOR1	240	.	NM_001190440	exon32	c.A4911G	p.Q1637Q	CATCTGTTGTGAG	.	PASS	Atlas-SNP
C5orf47	133491	hgsc.bcm.edu	37	5	173416508	173416508	+	Missense_Mutation	SNP	C	C	T	rs115473626	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	21.0	55.0	0.0	0.428571	0	C|0.984;T|0.016	0.016	strong	.	C5orf47	14	.	NM_001144954	exon1	c.C242T	p.P81L	CGACCCCTGGTGT	.	PASS	Atlas-SNP
C10orf95	79946	hgsc.bcm.edu	37	10	104210861	104210861	+	Missense_Mutation	SNP	C	C	A	rs73349055	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	16.0	7.0	27.0	0.0	0.4375	0	C|0.954;A|0.046	0.046	strong	.	C10orf95	5	.	NM_024886	exon2	c.G127T	p.G43W	GGCCCCCCAGGCG	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6961950	6961950	+	Silent	SNP	T	T	C	rs145257845	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	300.0	163.0	310.0	0.0	0.543333	0	T|0.998;C|0.002	0.002	strong	.	LAMA1	458	.	NM_005559	exon52	c.A7446G	p.L2482L	CTCCAGTAAACAG	.	PASS	Atlas-SNP
IL16	3603	hgsc.bcm.edu	37	15	81592384	81592384	+	Missense_Mutation	SNP	C	C	T	rs17875513	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	21.0	58.0	0.0	0.42	0	C|0.955;T|0.045	0.045	strong	.	IL16	254	.	NM_001172128	exon14	c.C2717T	p.S906L	TGTCCTCGGGGTC	.	PASS	Atlas-SNP
ZYG11B	79699	hgsc.bcm.edu	37	1	53262456	53262456	+	Silent	SNP	G	G	A	rs11206020	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	55.0	126.0	0.0	0.419847	0	G|0.962;A|0.038	0.038	strong	.	ZYG11B	61	.	NM_024646	exon8	c.G1485A	p.R495R	TGTCAGGGTAAGT	.	PASS	Atlas-SNP
CLTCL1	8218	hgsc.bcm.edu	37	22	19196449	19196449	+	Missense_Mutation	SNP	T	T	C	rs182543131	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	53.0	103.0	0.0	0.552083	0	T|0.999;C|0.001	0.001	strong	.	CLTCL1	115	.	NM_001835	exon21	c.A3425G	p.Q1142R	GCTGACTGAACAA	.	PASS	Atlas-SNP
BCO2	83875	hgsc.bcm.edu	37	11	112071464	112071464	+	Missense_Mutation	SNP	C	C	T	rs115780398	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	35.0	78.0	0.0	0.546875	0	C|0.994;T|0.006	0.006	strong	BCO2,colon,carcinoma,0,1	BCO2	44	1	NM_031938	exon7	c.C994T	p.R332W	AATACGCGGTTTC	.	PASS	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	37	10	135012583	135012583	+	Missense_Mutation	SNP	C	C	A	rs111276772	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	28.0	23.0	0.0	0.509091	0	C|0.983;A|0.017	0.017	strong	.	KNDC1	155	.	NM_152643	exon14	c.C2571A	p.D857E	TGATGACCAGAGT	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167145106	167145106	+	Silent	SNP	C	C	A	rs58465962	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	50.0	89.0	0.0	1	0	C|0.964;A|0.036	0.036	strong	.	SCN9A	296	.	NM_002977	exon10	c.G1155T	p.V385V	GAAAATCACTACG	.	PASS	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120480583	120480583	+	Silent	SNP	G	G	A	rs7543643	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	62.0	135.0	0.0	0.504065	0	G|0.925;A|0.075	0.075	strong	.	NOTCH2	348	.	NM_001200001	exon20	c.C3234T	p.C1078C	CTGAACGCAAGTA	.	PASS	Atlas-SNP
CNGA2	1260	hgsc.bcm.edu	37	X	150912171	150912171	+	Missense_Mutation	SNP	G	G	A	rs150539917	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	34.0	91.0	0.0	0.425	0	G|0.964;A|0.036	0.036	strong	.	CNGA2	136	.	NM_005140	exon7	c.G1196A	p.R399Q	AGTTCCGAAAGGT	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15791074	15791074	+	Missense_Mutation	SNP	A	A	G	rs114254919	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	372.0	95.0	266.0	0.0	0.255376	0	A|0.989;G|0.011	0.011	strong	CYP4F12,colon,carcinoma,-1,1	CYP4F12	89	1	NM_023944	exon4	c.A364G	p.N122D	AAGGATAATCTCT	.	PASS	Atlas-SNP
CNGB1	1258	hgsc.bcm.edu	37	16	57935443	57935443	+	Missense_Mutation	SNP	C	C	A	rs16942445	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	46.0	97.0	0.0	0.494624	0	C|0.957;A|0.043	0.043	strong	.	CNGB1	105	.	NM_001297	exon28	c.G2881T	p.A961S	AGAGTGCGACTTT	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149489037	149489037	+	Missense_Mutation	SNP	T	T	C	rs1635802	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	38.0	60.0	0.0	0.506667	0	T|0.977;C|0.023	0.023	strong	.	.	.	.	NM_198455	exon35	c.T5378C	p.L1793P	GAGGCCTGCACAG	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	12049	12049	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	10.0	10.0	5.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.C1290T	p.F430F	CTCATTCACACGA	.	PASS	Atlas-SNP
ZNF362	149076	hgsc.bcm.edu	37	1	33745781	33745781	+	Missense_Mutation	SNP	G	G	A	rs143005937	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	81.0	103.0	0.0	0.591241	0	G|0.989;A|0.011	0.011	strong	.	ZNF362	31	.	NM_152493	exon5	c.G406A	p.A136T	GCGGGCGCGGGCA	.	PASS	Atlas-SNP
MYO5B	4645	hgsc.bcm.edu	37	18	47506874	47506874	+	Silent	SNP	G	G	T	rs16951352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	60.0	139.0	0.0	0.447761	0	G|0.993;T|0.007	0.007	strong	.	MYO5B	178	.	NM_001080467	exon9	c.C996A	p.I332I	GTGCAAGATAGAA	.	PASS	Atlas-SNP
KRTAP10-12	386685	hgsc.bcm.edu	37	21	46117553	46117553	+	Missense_Mutation	SNP	C	C	A	rs35076450	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	265.0	136.0	221.0	1.0	0.513208	0.00452489	C|0.995;A|0.005	0.005	strong	.	KRTAP10-12	21	.	NM_198699	exon1	c.C437A	p.P146Q	CCTCCCCGTGTCA	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	37	19	617573	617573	+	Missense_Mutation	SNP	G	G	A	rs142850300	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	25.0	37.0	0.0	0.657895	0	G|0.995;A|0.005	0.005	strong	.	POLRMT	91	.	NM_005035	exon19	c.C3578T	p.S1193F	TACTCAGAGCAGA	.	PASS	Atlas-SNP
C2orf43	60526	hgsc.bcm.edu	37	2	20886706	20886706	+	Missense_Mutation	SNP	T	T	C	rs147773589	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	89.0	191.0	0.0	0.532934	0	T|0.998;C|0.002	0.002	strong	.	C2orf43	28	.	NM_021925	exon7	c.A935G	p.D312G	ATCATGTCTGCCA	.	PASS	Atlas-SNP
KIF1C	10749	hgsc.bcm.edu	37	17	4918122	4918122	+	Silent	SNP	A	A	G	rs57144955	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	30.0	76.0	0.0	0.47619	0	A|0.964;G|0.036	0.036	strong	.	KIF1C	70	.	NM_006612	exon18	c.A1656G	p.P552P	CCAGCCAGATGGA	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144852477	144852477	+	Missense_Mutation	SNP	G	G	A	rs148370554	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	6.0	83.0	0.0	0.0508475	0	.	.	weak	.	PDE4DIP	817	.	NM_014644	exon44	c.C7022T	p.P2341L	GTACATGGCAGAG	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77476809	77476809	+	Silent	SNP	T	T	C	rs75039400	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	40.0	64.0	0.0	0.421053	0	T|0.980;C|0.020	0.020	strong	.	SHROOM3	134	.	NM_020859	exon2	c.T216C	p.A72A	GCAGGCTGGGGAT	.	PASS	Atlas-SNP
ADD2	119	hgsc.bcm.edu	37	2	70933494	70933494	+	Missense_Mutation	SNP	T	T	C	rs201443444	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	54.0	111.0	0.0	0.486486	0	T|0.978;C|0.022	0.022	strong	.	ADD2	261	.	NM_001185055	exon2	c.A95G	p.Q32R	TGCCCCTGCGGGG	.	PASS	Atlas-SNP
NLRP6	171389	hgsc.bcm.edu	37	11	284477	284477	+	Missense_Mutation	SNP	T	T	C	rs74044411	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	30.0	87.0	0.0	0.379747	0	T|0.940;C|0.060	0.060	strong	.	NLRP6	4	.	NM_138329	exon7	c.T2375C	p.V792A	ACAGGGTACAGCT	.	PASS	Atlas-SNP
TMEFF2	23671	hgsc.bcm.edu	37	2	192922499	192922499	+	Missense_Mutation	SNP	G	G	A	rs61744272	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	68.0	130.0	0.0	0.53125	0	G|0.982;A|0.018	0.018	strong	.	TMEFF2	54	.	NM_016192	exon5	c.C442T	p.H148Y	CTTCATGGACTGT	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057343	46057343	+	Silent	SNP	C	C	A	rs76468958	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	103.0	192.0	0.0	0.47032	0	C|0.960;A|0.040	0.040	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.C9A	p.A3A	GGCCGCCTCCACC	.	PASS	Atlas-SNP
PARP15	165631	hgsc.bcm.edu	37	3	122354796	122354796	+	Missense_Mutation	SNP	G	G	C	rs145474072	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	58.0	127.0	0.0	0.504348	0	G|0.995;C|0.005	0.005	strong	.	PARP15	115	.	NM_001113523	exon12	c.G1886C	p.R629P	AGGGACGTGCAGG	.	PASS	Atlas-SNP
CUL5	8065	hgsc.bcm.edu	37	11	107943124	107943124	+	Silent	SNP	T	T	C	rs111339569	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	28.0	81.0	0.0	0.451613	0	T|0.987;C|0.013	0.013	strong	.	CUL5	71	.	NM_003478	exon9	c.T940C	p.L314L	AAAGACTTGGAGG	.	PASS	Atlas-SNP
OR5AK2	390181	hgsc.bcm.edu	37	11	56756565	56756565	+	Silent	SNP	G	G	A	rs62001001	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	251.0	116.0	247.0	0.0	0.462151	0	G|0.987;A|0.013	0.013	strong	OR5AK2,NS,carcinoma,0,1	OR5AK2	45	1	NM_001005323	exon1	c.G177A	p.T59T	ACTCACGTACTTT	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220347907	220347907	+	Missense_Mutation	SNP	A	A	G	rs200747365	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	42.0	88.0	0.0	0.5	0	A|1.000;G|0.000	0.000	strong	.	SPEG	272	.	NM_005876	exon30	c.A5722G	p.M1908V	GTGACCATGCCCA	.	PASS	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45755646	45755646	+	Silent	SNP	C	C	T	rs146104157	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	79.0	140.0	0.0	0.44382	0	C|0.997;T|0.003	0.003	strong	.	C21orf2	10	.	NM_004928	exon3	c.G138A	p.T46T	CCTGAGCGTGATC	.	PASS	Atlas-SNP
ZMIZ2	83637	hgsc.bcm.edu	37	7	44804989	44804989	+	Missense_Mutation	SNP	G	G	A	rs114574038	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	34.0	68.0	0.0	0.441558	0	G|0.990;A|0.010	0.010	strong	.	ZMIZ2	82	.	NM_031449	exon16	c.G2053A	p.V685M	GTGCCCGTGAAGC	.	PASS	Atlas-SNP
ARHGEF2	9181	hgsc.bcm.edu	37	1	155935158	155935158	+	Silent	SNP	T	T	C	rs149517516	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	87.0	158.0	0.0	0.511765	0	T|0.995;C|0.005	0.005	strong	.	ARHGEF2	81	.	NM_001162383	exon6	c.A516G	p.S172S	GGACTGTGAGAGG	.	PASS	Atlas-SNP
STK32C	282974	hgsc.bcm.edu	37	10	134038817	134038817	+	Missense_Mutation	SNP	C	C	T	rs148669059	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	54.0	137.0	0.0	0.529412	0	C|0.996;T|0.004	0.004	strong	.	STK32C	61	.	NM_173575	exon7	c.G796A	p.V266I	CGTTGACAAAAGA	.	PASS	Atlas-SNP
CST4	1472	hgsc.bcm.edu	37	20	23669598	23669598	+	Silent	SNP	C	C	T	rs73902132	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	40.0	93.0	0.0	0.366972	0	C|0.964;T|0.036	0.036	strong	.	CST4	37	.	NM_001899	exon1	c.G9A	p.R3R	CAGAGGCCGGGCC	.	PASS	Atlas-SNP
LUZP6	767558	hgsc.bcm.edu	37	7	135612057	135612057	+	Missense_Mutation	SNP	G	G	C	rs78834486	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	33.0	80.0	0.0	0.540984	0	G|0.993;C|0.007	0.007	strong	.	.	.	.	NM_001128619	exon4	c.C142G	p.P48A	TACTTGGGATATT	.	PASS	Atlas-SNP
ZNF93	81931	hgsc.bcm.edu	37	19	20044886	20044886	+	Silent	SNP	T	T	C	rs10401345	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	81.0	65.0	0.0	1	0	T|0.908;C|0.092	0.092	strong	ZNF93,NS,carcinoma,0,1	ZNF93	81	1	NM_031218	exon4	c.T1122C	p.C374C	AGAATGTGGCAAA	.	PASS	Atlas-SNP
CEP68	23177	hgsc.bcm.edu	37	2	65298657	65298657	+	Missense_Mutation	SNP	A	A	G	rs13389745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	101.0	163.0	0.0	0.5	0	A|0.929;G|0.071	0.071	strong	.	CEP68	69	.	NM_015147	exon3	c.A427G	p.I143V	ACAACTATTTGCT	.	PASS	Atlas-SNP
APBA2	321	hgsc.bcm.edu	37	15	29398914	29398914	+	Silent	SNP	C	C	T	rs8032178	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	222.0	107.0	231.0	0.0	0.481982	0	C|0.932;T|0.068	0.068	strong	.	APBA2	132	.	NM_005503	exon11	c.C1809T	p.G603G	GAATGGCGGCCCG	.	PASS	Atlas-SNP
ABHD12	26090	hgsc.bcm.edu	37	20	25319977	25319977	+	Missense_Mutation	SNP	C	C	T	rs11904930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	48.0	126.0	0.0	0.444444	0	C|0.993;T|0.007	0.007	strong	.	ABHD12	46	.	NM_001042472	exon2	c.G202A	p.V68M	ACCACACGCCCTT	.	PASS	Atlas-SNP
EVPL	2125	hgsc.bcm.edu	37	17	74006079	74006079	+	Silent	SNP	G	G	A	rs79450818	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	70.0	107.0	0.0	0.608696	0	G|0.987;A|0.013	0.013	strong	.	EVPL	155	.	NM_001988	exon22	c.C3207T	p.D1069D	CTTCACGTCCACC	.	PASS	Atlas-SNP
TENM3	55714	hgsc.bcm.edu	37	4	183720831	183720831	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	10.0	8.0	3.0	0.0	0.8	0	.	.	none	.	.	.	.	NM_001080477	exon27	c.G7427A	p.S2476N	AGGTGAGCCGGCG	.	PASS	Atlas-SNP
SLC2A7	155184	hgsc.bcm.edu	37	1	9083094	9083094	+	Missense_Mutation	SNP	G	G	T	rs61744620	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	45.0	77.0	0.0	0.542169	0	G|0.974;T|0.026	0.026	strong	SLC2A7,rectum,carcinoma,-1,2	SLC2A7	56	2	NM_207420	exon3	c.C194A	p.A65E	AATGTTGCGTGTC	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	37	15	27777751	27777751	+	Silent	SNP	T	T	C	rs16950126	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	75.0	99.0	0.0	0.510204	0	T|0.932;C|0.068	0.068	strong	.	GABRG3	115	.	NM_033223	exon10	c.T1128C	p.Y376Y	GAACTATTCCCTC	.	PASS	Atlas-SNP
IPO13	9670	hgsc.bcm.edu	37	1	44433055	44433055	+	Silent	SNP	G	G	A	rs34392712	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	59.0	98.0	0.0	0.504274	0	G|0.989;A|0.011	0.011	strong	.	IPO13	86	.	NM_014652	exon19	c.G2682A	p.K894K	GAACAAGCACTGC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105411096	105411096	+	Missense_Mutation	SNP	T	T	G	rs146355838	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	254.0	252.0	238.0	2.0	0.992126	0.00840336	T|0.971;G|0.029	0.029	strong	.	AHNAK2	719	.	NM_138420	exon7	c.A10692C	p.L3564F	CGTCTTTAAACTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511781	195511781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	47.0	404.0	1.0	0.251337	0.00247525	.	.	none	MUC4_ENST00000463781,NS,carcinoma,+1,3	MUC4	1505	3	NM_018406	exon2	c.C6670T	p.P2224S	GAAGAGGGATGGC	.	PASS	Atlas-SNP
SLC22A24	283238	hgsc.bcm.edu	37	11	62886706	62886706	+	Missense_Mutation	SNP	C	C	T	rs116063135	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	84.0	165.0	0.0	0.518519	0	C|0.988;T|0.012	0.012	strong	.	SLC22A24	31	.	NM_001136506	exon3	c.G608A	p.R203H	AAGAAGCGCAGTA	.	PASS	Atlas-SNP
NEIL3	55247	hgsc.bcm.edu	37	4	178257364	178257364	+	Missense_Mutation	SNP	G	G	C	rs17064658	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	41.0	95.0	0.0	0.465909	0	G|0.975;C|0.025	0.025	strong	.	NEIL3	89	.	NM_018248	exon4	c.G516C	p.Q172H	AAAACAGAAAGGC	.	PASS	Atlas-SNP
DNMT3B	1789	hgsc.bcm.edu	37	20	31388080	31388080	+	Silent	SNP	C	C	T	rs17123657	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	56.0	94.0	0.0	0.528302	0	C|0.944;T|0.056	0.056	strong	DNMT3B_ENST00000201963,NS,carcinoma,+2,4	DNMT3B	196	4	NM_006892	exon17	c.C1881T	p.D627D	GAACGACGTGAGG	.	PASS	Atlas-SNP
TNFRSF25	8718	hgsc.bcm.edu	37	1	6525257	6525257	+	Silent	SNP	C	C	T	rs45438594	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	49.0	115.0	0.0	0.556818	0	C|0.965;T|0.035	0.035	strong	.	TNFRSF25	22	.	NM_148966	exon3	c.G186A	p.T62T	GGGCTCCGTGCAA	.	PASS	Atlas-SNP
SLMAP	7871	hgsc.bcm.edu	37	3	57743531	57743531	+	Silent	SNP	A	A	G	rs147270008		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	106.0	224.0	0.0	0.475336	0	A|1.000;G|0.000	0.000	weak	.	SLMAP	46	.	NM_007159	exon1	c.A153G	p.L51L	AGTGCTATCAAGG	.	PASS	Atlas-SNP
AURKC	6795	hgsc.bcm.edu	37	19	57743518	57743518	+	Silent	SNP	C	C	T	rs142351971	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	19.0	68.0	0.0	0.287879	0	C|0.999;T|0.001	0.001	strong	AURKC_ENST00000302804,colon,carcinoma,+2,2	AURKC	97	2	NM_001015878	exon3	c.C222T	p.L74L	GGTTCTCTTCAAG	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36841536	36841536	+	Missense_Mutation	SNP	G	G	A	rs142596886	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	23.0	72.0	0.0	0.410714	0	G|0.999;A|0.001	0.001	strong	.	KIAA1755	145	.	NM_001029864	exon14	c.C3511T	p.R1171C	TGAGGCGAGGGAC	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89839752	89839752	+	Silent	SNP	C	C	T	rs17232917	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	52.0	90.0	0.0	0.553191	0	C|0.960;T|0.040	0.040	strong	.	FANCA	99	.	NM_000135	exon22	c.G1941A	p.E647E	GGGCTCCTCAGCA	.	PASS	Atlas-SNP
EFCAB13	124989	hgsc.bcm.edu	37	17	45471443	45471443	+	Silent	SNP	G	G	A	rs7217678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	68.0	162.0	0.0	0.427673	0	G|0.977;A|0.023	0.023	strong	C17orf57,NS,carcinoma,+1,1	.	.	1	NM_152347	exon16	c.G1779A	p.T593T	CAACACGGAATGC	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47575291	47575291	+	Silent	SNP	A	A	G	rs79459609	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	50.0	117.0	0.0	0.515464	0	A|0.983;G|0.017	0.017	strong	.	ZC3H4	96	.	NM_015168	exon13	c.T1890C	p.P630P	CATGTCAGGATGC	.	PASS	Atlas-SNP
RAD21	5885	hgsc.bcm.edu	37	8	117864867	117864867	+	Missense_Mutation	SNP	A	A	C	rs75160167	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	86.0	197.0	0.0	0.423645	0	A|0.992;C|0.008	0.008	strong	.	RAD21	95	.	NM_006265	exon10	c.T1242G	p.D414E	GAATTCATCCAAA	.	PASS	Atlas-SNP
CXXC1	30827	hgsc.bcm.edu	37	18	47809710	47809710	+	Silent	SNP	A	A	G	rs150530383	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	74.0	108.0	0.0	0.503401	0	A|0.999;G|0.001	0.001	strong	.	CXXC1	50	.	NM_001101654	exon13	c.T1608C	p.D536D	ATACACATCACAG	.	PASS	Atlas-SNP
ARHGAP20	57569	hgsc.bcm.edu	37	11	110451470	110451470	+	Missense_Mutation	SNP	T	T	C	rs151169911	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	58.0	164.0	0.0	0.456693	0	T|0.999;C|0.001	0.001	strong	.	ARHGAP20	150	.	NM_020809	exon16	c.A2200G	p.I734V	AAAGAATTGCATC	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26699033	26699033	+	Silent	SNP	G	G	A	rs73920285	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	38.0	85.0	0.0	0.417582	0	G|0.953;A|0.047	0.047	strong	OTOF_ENST00000402415,NS,carcinoma,0,3	OTOF	524	3	NM_194248	exon23	c.C2829T	p.G943G	ATGCAGGCCCAGG	.	PASS	Atlas-SNP
CASP5	838	hgsc.bcm.edu	37	11	104871193	104871193	+	Silent	SNP	A	A	G	rs45501691	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	68.0	139.0	0.0	0.576271	0	A|0.954;G|0.046	0.046	strong	.	CASP5	213	.	NM_001136112	exon6	c.T786C	p.A262A	TCTGGCAGCAAAT	.	PASS	Atlas-SNP
NLRC5	84166	hgsc.bcm.edu	37	16	57060136	57060136	+	Missense_Mutation	SNP	G	G	T	rs149735722	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	19.0	44.0	1.0	0.413043	0.0227273	G|0.998;T|0.002	0.002	strong	NLRC5,NS,carcinoma,+1,1	NLRC5	186	1	NM_032206	exon5	c.G1281T	p.Q427H	AGGCCAGTCTGTG	.	scavenged	Atlas-SNP
ZNF559	84527	hgsc.bcm.edu	37	19	9453160	9453160	+	Nonsense_Mutation	SNP	C	C	T	rs150358404	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	33.0	49.0	0.0	0.559322	0	C|0.999;T|0.001	0.001	strong	ZNF559,NS,carcinoma,-1,4	ZNF559	77	4	NM_001202406	exon6	c.C1225T	p.R409X	CACAGGCGAACTC	.	PASS	Atlas-SNP
ZNF330	27309	hgsc.bcm.edu	37	4	142155072	142155072	+	Missense_Mutation	SNP	T	T	A	rs34631212	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	74.0	131.0	0.0	0.451219	0	T|0.968;A|0.032	0.032	strong	.	ZNF330	31	.	NM_014487	exon10	c.T892A	p.L298M	TCAGATTTGTTTA	.	PASS	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	37	12	21358933	21358933	+	Missense_Mutation	SNP	G	G	C	rs59502379	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	55.0	156.0	0.0	0.366667	0	G|0.988;C|0.012	0.012	strong	.	SLCO1B1	151	.	NM_006446	exon11	c.G1463C	p.G488A	TAGCAGGTTGCAA	.	PASS	Atlas-SNP
KITLG	4254	hgsc.bcm.edu	37	12	88912624	88912624	+	Silent	SNP	G	G	A	rs17015782	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	41.0	83.0	0.0	0.43617	0	G|0.988;A|0.012	0.012	strong	.	KITLG	26	.	NM_003994	exon4	c.C213T	p.S71S	CATCTCGCTTATC	.	PASS	Atlas-SNP
HGF	3082	hgsc.bcm.edu	37	7	81388042	81388042	+	Silent	SNP	T	T	C	rs5745635	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	148.0	159.0	0.0	1	0	T|0.896;C|0.104	0.104	strong	HGF,spleen,lymphoid_neoplasm,-2,1	HGF	171	1	NM_000601	exon3	c.A333G	p.E111E	GCCAAATTCTTTT	.	PASS	Atlas-SNP
HSD17B11	51170	hgsc.bcm.edu	37	4	88278484	88278484	+	Silent	SNP	T	T	G	rs34025653	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	68.0	179.0	0.0	0.386364	0	T|0.938;G|0.062	0.062	strong	.	HSD17B11	28	.	NM_016245	exon5	c.A642C	p.T214T	CAGACATGTTGTT	.	PASS	Atlas-SNP
SMTNL2	342527	hgsc.bcm.edu	37	17	4497137	4497137	+	Missense_Mutation	SNP	T	T	C	rs9916524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	45.0	129.0	0.0	0.381356	0	T|0.951;C|0.049	0.049	strong	.	SMTNL2	57	.	NM_001114974	exon4	c.T751C	p.W251R	TTCACGTGGTCTG	.	PASS	Atlas-SNP
LDB3	11155	hgsc.bcm.edu	37	10	88476458	88476458	+	Missense_Mutation	SNP	G	G	A	rs113817827	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	105.0	251.0	0.0	0.446809	0	G|0.998;A|0.002	0.002	strong	.	LDB3	164	.	NM_001171610	exon10	c.G1621A	p.V541I	GGGACCGTCCAGA	.	PASS	Atlas-SNP
B4GALNT4	338707	hgsc.bcm.edu	37	11	380390	380390	+	Silent	SNP	C	C	T	rs115057328	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	64.0	73.0	0.0	0.615385	0	C|0.995;T|0.005	0.005	strong	.	B4GALNT4	83	.	NM_178537	exon18	c.C2814T	p.A938A	GCTGGCCTTCGCG	.	PASS	Atlas-SNP
NSUN2	54888	hgsc.bcm.edu	37	5	6622139	6622139	+	Silent	SNP	G	G	T	rs148924682	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	48.0	118.0	0.0	0.440367	0	G|0.990;T|0.010	0.010	strong	NSUN2,NS,carcinoma,-1,1	NSUN2	82	1	NM_017755	exon6	c.C612A	p.V204V	AAAGGGGACATTC	.	PASS	Atlas-SNP
UPK3A	7380	hgsc.bcm.edu	37	22	45683309	45683309	+	Silent	SNP	C	C	T	rs62001037	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	30.0	67.0	0.0	0.447761	0	C|0.973;T|0.027	0.027	strong	.	UPK3A	14	.	NM_006953	exon3	c.C465T	p.P155P	CGCACCCCTGTCG	.	PASS	Atlas-SNP
LRRC24	441381	hgsc.bcm.edu	37	8	145748075	145748075	+	Silent	SNP	T	T	G	rs112652028	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	21.0	49.0	0.0	0.396226	0	T|0.986;G|0.014	0.014	strong	.	LRRC24	11	.	NM_001024678	exon5	c.A1326C	p.G442G	CAGCGCTCCCTCC	.	PASS	Atlas-SNP
OR2K2	26248	hgsc.bcm.edu	37	9	114090277	114090277	+	Missense_Mutation	SNP	G	G	A	rs73656223	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	44.0	85.0	0.0	0.564103	0	G|0.982;A|0.018	0.018	strong	.	OR2K2	77	.	NM_205859	exon1	c.C437T	p.T146M	GAGACCGTAGCCA	.	PASS	Atlas-SNP
PAPL	0	hgsc.bcm.edu	37	19	39575987	39575987	+	Silent	SNP	G	G	A	rs544041	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	121.0	126.0	0.0	0.991803	0	G|0.870;A|0.130	0.130	strong	.	.	.	.	NM_001004318	exon2	c.G78A	p.G26G	CCTGGGGGCTCCC	.	PASS	Atlas-SNP
GMPPA	29926	hgsc.bcm.edu	37	2	220370746	220370746	+	Silent	SNP	G	G	A	rs13428617	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	32.0	57.0	0.0	0.444444	0	G|0.979;A|0.021	0.021	strong	.	GMPPA	50	.	NM_205847	exon11	c.G945A	p.E315E	GGGTGAGGGTGTG	.	PASS	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45750713	45750713	+	Missense_Mutation	SNP	C	C	T	rs62000360	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	80.0	157.0	0.0	0.516129	0	C|0.976;T|0.024	0.024	strong	.	C21orf2	10	.	NM_004928	exon6	c.G635A	p.R212K	CTGCCCCTGTGGC	.	PASS	Atlas-SNP
POFUT2	23275	hgsc.bcm.edu	37	21	46685550	46685550	+	Silent	SNP	C	C	T	rs112907087	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	23.0	62.0	0.0	0.479167	0	C|0.992;T|0.008	0.008	strong	.	POFUT2	77	.	NM_133635	exon9	c.G1137A	p.R379R	AAAAAACCTGCAA	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18368524	18368524	+	Silent	SNP	C	C	T	rs61740686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	93.0	56.0	0.0	0.978947	0	C|0.964;T|0.036	0.036	strong	.	KIAA1683	190	.	NM_001145304	exon4	c.G3570A	p.T1190T	CACCCACGTGACG	.	PASS	Atlas-SNP
DNAJC21	134218	hgsc.bcm.edu	37	5	34937649	34937649	+	Silent	SNP	G	G	A	rs77480286	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	108.0	257.0	1.0	0.473684	0.00389105	G|0.992;A|0.008	0.008	strong	DNAJC21,caecum,carcinoma,0,1	DNAJC21	54	1	NM_001012339	exon5	c.G657A	p.A219A	GCAGGCGCATCGA	.	PASS	Atlas-SNP
GPR182	11318	hgsc.bcm.edu	37	12	57389536	57389536	+	Silent	SNP	G	G	A	rs61740222	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	53.0	88.0	0.0	0.514563	0	G|0.987;A|0.013	0.013	strong	.	GPR182	35	.	NM_007264	exon2	c.G543A	p.S181S	CCTCTCGGCCATC	.	PASS	Atlas-SNP
FNDC3B	64778	hgsc.bcm.edu	37	3	171969312	171969312	+	Silent	SNP	G	G	C	rs34553291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	17.0	29.0	0.0	0.435897	0	G|0.993;C|0.007	0.007	strong	FNDC3B,rectum,carcinoma,+1,1	FNDC3B	118	1	NM_001135095	exon6	c.G771C	p.S257S	AAAGTCGAATGAT	.	PASS	Atlas-SNP
INSL4	3641	hgsc.bcm.edu	37	9	5233664	5233664	+	Silent	SNP	A	A	G	rs7030463	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	33.0	55.0	0.0	0.540984	0	A|0.967;G|0.033	0.033	strong	INSL4,right_upper_lobe,carcinoma,+2,1	INSL4	20	1	NM_002195	exon2	c.A207G	p.S69S	GGTGTCAACCTCC	.	PASS	Atlas-SNP
NXN	64359	hgsc.bcm.edu	37	17	706933	706933	+	Missense_Mutation	SNP	C	C	T	rs61731770	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	52.0	93.0	0.0	0.590909	0	C|0.977;T|0.023	0.023	strong	.	NXN	32	.	NM_022463	exon7	c.G1114A	p.V372I	CGGCTACGAAGAA	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536357	1536357	+	Silent	SNP	G	G	A	rs112226694	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	37.0	99.0	0.0	0.486842	0	G|0.979;A|0.021	0.021	strong	.	PTX4	46	.	NM_001013658	exon3	c.C1005T	p.F335F	GATCACGAAGTGG	.	PASS	Atlas-SNP
CALHM2	51063	hgsc.bcm.edu	37	10	105207176	105207176	+	Silent	SNP	G	G	A	rs2232663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	85.0	77.0	0.0	1	0	G|0.925;A|0.075	0.075	strong	.	CALHM2	30	.	NM_015916	exon4	c.C705T	p.A235A	CACCTCGGCCGTG	.	PASS	Atlas-SNP
NUMA1	4926	hgsc.bcm.edu	37	11	71725612	71725612	+	Silent	SNP	A	A	G	rs142372284	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	39.0	54.0	0.0	0.448276	0	A|0.995;G|0.005	0.005	strong	.	NUMA1	142	.	NM_006185	exon15	c.T2937C	p.N979N	CAGCTCATTGCCC	.	PASS	Atlas-SNP
SERPINB12	89777	hgsc.bcm.edu	37	18	61234091	61234091	+	Silent	SNP	C	C	T	rs35623491	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	35.0	88.0	0.0	0.472973	0	C|0.962;T|0.038	0.038	strong	.	SERPINB12	55	.	NM_080474	exon7	c.C1065T	p.N355N	TGAAAACGGTACC	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7722048	7722048	+	Missense_Mutation	SNP	G	G	A	rs61743907	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	50.0	92.0	0.0	0.49505	0	G|0.989;A|0.011	0.011	strong	.	DNAH2	498	.	NM_020877	exon69	c.G10624A	p.A3542T	AACATCGCGGCTG	.	PASS	Atlas-SNP
ZACN	353174	hgsc.bcm.edu	37	17	74076504	74076504	+	Silent	SNP	G	G	A	rs8066946	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	45.0	74.0	0.0	0.56962	0	G|0.913;A|0.087	0.087	strong	.	ZACN	29	.	NM_180990	exon5	c.G543A	p.T181T	CAACACGGGTGCT	.	PASS	Atlas-SNP
CENPL	91687	hgsc.bcm.edu	37	1	173772506	173772506	+	Silent	SNP	T	T	G	rs16846420	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	85.0	176.0	0.0	0.497076	0	T|0.876;G|0.124	0.124	strong	.	CENPL	26	.	NM_001127181	exon6	c.A696C	p.A232A	TCCATTTGCAAGG	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110413806	110413806	+	Silent	SNP	G	G	A	rs200316129	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	56.0	136.0	0.0	0.523364	0	G|1.000;A|0.000	0.000	strong	PKHD1L1,NS,carcinoma,0,1	PKHD1L1	522	1	NM_177531	exon14	c.G1362A	p.Q454Q	TCTGCAGAAAGGA	.	PASS	Atlas-SNP
PDE6A	5145	hgsc.bcm.edu	37	5	149323781	149323781	+	Silent	SNP	G	G	A	rs149256612	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	24.0	67.0	0.0	0.363636	0	G|1.000;A|0.000	0.000	strong	.	PDE6A	98	.	NM_000440	exon1	c.C456T	p.N152N	GGGGACGTTAGCA	.	PASS	Atlas-SNP
MEGF8	1954	hgsc.bcm.edu	37	19	42874900	42874900	+	Silent	SNP	C	C	T	rs28483598	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	82.0	108.0	0.0	0.569444	0	C|0.981;T|0.019	0.019	strong	.	MEGF8	358	.	NM_001271938	exon40	c.C7053T	p.C2351C	CGTGTGCGTGAAC	.	PASS	Atlas-SNP
ZNF697	90874	hgsc.bcm.edu	37	1	120165412	120165412	+	Silent	SNP	G	G	A	rs61734323	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	72.0	154.0	0.0	0.470588	0	G|0.994;A|0.006	0.006	strong	.	ZNF697	26	.	NM_001080470	exon3	c.C1554T	p.N518N	CGGCTTGTTGCCC	.	PASS	Atlas-SNP
FBXO16	157574	hgsc.bcm.edu	37	8	28321153	28321153	+	Silent	SNP	A	A	G	rs7822086	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	58.0	172.0	0.0	0.43609	0	A|0.932;G|0.068	0.068	strong	.	FBXO16	29	.	NM_172366	exon4	c.T318C	p.P106P	GCTCCGAGGGTCC	.	PASS	Atlas-SNP
ZNF684	127396	hgsc.bcm.edu	37	1	41006341	41006341	+	Silent	SNP	T	T	C	rs74575870	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	311.0	133.0	287.0	0.0	0.427653	0	T|0.973;C|0.027	0.027	strong	.	ZNF684	37	.	NM_152373	exon3	c.T99C	p.Y33Y	CCTGTATTGGGAT	.	PASS	Atlas-SNP
CHSY3	337876	hgsc.bcm.edu	37	5	129520932	129520932	+	Silent	SNP	T	T	G	rs73788438	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	55.0	122.0	0.0	0.462185	0	T|0.966;G|0.034	0.034	strong	CHSY3,colon,carcinoma,+2,2	CHSY3	92	2	NM_175856	exon3	c.T2097G	p.L699L	AGGTCTTGGTCTT	.	PASS	Atlas-SNP
ARFGEF2	10564	hgsc.bcm.edu	37	20	47588949	47588949	+	Silent	SNP	G	G	A	rs116550473	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	32.0	64.0	0.0	0.477612	0	G|0.996;A|0.004	0.004	strong	.	ARFGEF2	160	.	NM_006420	exon11	c.G1512A	p.T504T	TCTGACGAGGATC	.	PASS	Atlas-SNP
PRKAG2	51422	hgsc.bcm.edu	37	7	151257665	151257665	+	Silent	SNP	A	A	G	rs28763998	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	45.0	119.0	0.0	0.45	0	A|0.955;G|0.045	0.045	strong	.	PRKAG2	86	.	NM_016203	exon15	c.T1623C	p.I541I	ACCCACAATACTA	.	PASS	Atlas-SNP
NBPF7	343505	hgsc.bcm.edu	37	1	120384162	120384162	+	Missense_Mutation	SNP	G	G	A	rs78204967	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	99.0	245.0	2.0	0.485294	0.00816326	G|0.983;A|0.017	0.017	strong	NBPF7,NS,carcinoma,0,1	NBPF7	46	1	NM_001047980	exon3	c.C400T	p.R134W	CTTCCCGTAACTT	.	scavenged	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29430356	29430356	+	Missense_Mutation	SNP	G	G	C	rs148433584	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	453.0	227.0	464.0	0.0	0.501104	0	G|0.995;C|0.005	0.005	strong	.	OR2H1	38	.	NM_030883	exon3	c.G810C	p.K270N	GGGCAAGTTCTTT	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71101206	71101206	+	Silent	SNP	A	A	G	rs75778420	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	22.0	70.0	0.0	0.407407	0	A|0.919;G|0.081	0.081	strong	.	HYDIN	788	.	NM_001198542	exon15	c.T2143C	p.L715L	TAATTAAGAGCGC	.	PASS	Atlas-SNP
SSFA2	6744	hgsc.bcm.edu	37	2	182780817	182780817	+	Missense_Mutation	SNP	C	C	T	rs16867510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	92.0	191.0	1.0	0.489362	0.0052356	C|0.965;T|0.035	0.035	strong	SSFA2,colon,carcinoma,0,1	SSFA2	130	1	NM_001130445	exon11	c.C2450T	p.A817V	GTGAGGCGCCGCG	.	scavenged	Atlas-SNP
TCEB3B	51224	hgsc.bcm.edu	37	18	44559578	44559578	+	Silent	SNP	G	G	A	rs149717505	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	77.0	170.0	0.0	0.5	0	G|0.998;A|0.002	0.002	strong	.	TCEB3B	141	.	NM_016427	exon1	c.C2058T	p.S686S	CTGGCTGGAGGGA	.	PASS	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	37	3	39180100	39180100	+	Missense_Mutation	SNP	G	G	A	rs80238762	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	236.0	111.0	236.0	1.0	0.470339	0.00423729	G|0.989;A|0.011	0.011	strong	.	TTC21A	96	.	NM_145755	exon28	c.G3871A	p.E1291K	GCCATTGAAATCT	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19960666	19960666	+	Missense_Mutation	SNP	G	G	A	rs115736959	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	19.0	24.0	0.0	0.5	0	G|0.985;A|0.015	0.015	strong	.	ARVCF	54	.	NM_001670	exon14	c.C2414T	p.A805V	ACCAACGCTGGCA	.	PASS	Atlas-SNP
GSG2	83903	hgsc.bcm.edu	37	17	3627619	3627619	+	Silent	SNP	C	C	T	rs1185511	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	7.0	5.0	0.0	0.0	0.714286	.	C|0.779;T|0.221	0.221	strong	.	GSG2	48	.	NM_031965	exon1	c.C390T	p.C130C	ACCCTGCGGCCCG	.	PASS	Atlas-SNP
TMEM64	169200	hgsc.bcm.edu	37	8	91637929	91637929	+	Silent	SNP	T	T	C	rs75193995	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	77.0	207.0	0.0	0.442529	0	T|0.995;C|0.005	0.005	strong	.	TMEM64	31	.	NM_001008495	exon3	c.A1113G	p.T371T	AGAAAATGTTAGG	.	PASS	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	37	22	26688401	26688401	+	Silent	SNP	T	T	C	rs16981666	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	32.0	62.0	0.0	0.533333	0	T|0.927;C|0.073	0.073	strong	.	SEZ6L	174	.	NM_001184777	exon2	c.T124C	p.L42L	AGCCCTTTGGGTC	.	PASS	Atlas-SNP
USP17L7	392197	hgsc.bcm.edu	37	8	11991328	11991328	+	Missense_Mutation	SNP	G	G	A	rs144333235	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	18.0	51.0	0.0	0.276923	0	G|0.983;A|0.017	0.017	strong	.	.	.	.	NM_001256869	exon1	c.C191T	p.P64L	TCCCTGGGAGCAA	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96648384	96648384	+	Missense_Mutation	SNP	T	T	C	rs73562939	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	98.0	212.0	0.0	0.455814	0	T|0.976;C|0.024	0.024	strong	.	UGGT2	127	.	NM_020121	exon7	c.A763G	p.T255A	TATTAGTCACAGC	.	PASS	Atlas-SNP
ORM2	5005	hgsc.bcm.edu	37	9	117094119	117094119	+	Silent	SNP	G	G	A	rs148394636	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	46.0	176.0	0.0	0.252747	0	G|0.931;A|0.069	0.069	strong	.	ORM2	13	.	NM_000608	exon5	c.G450A	p.E150E	GCCAGAGACGACC	.	PASS	Atlas-SNP
EIF4G2	1982	hgsc.bcm.edu	37	11	10821185	10821185	+	Silent	SNP	G	G	A	rs11542384	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	86.0	191.0	0.0	0.434343	0	T|0.000;G|0.885;C|0.000;A|0.115	0.115	strong	.	EIF4G2	89	.	NM_001172705	exon19	c.C2238T	p.S746S	TTGAGGGGATGGA	.	PASS	Atlas-SNP
PVR	5817	hgsc.bcm.edu	37	19	45150763	45150763	+	Silent	SNP	G	G	A	rs10421291	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	41.0	86.0	0.0	0.43617	0	G|0.937;A|0.063	0.063	strong	.	PVR	23	.	NM_001135769	exon2	c.G348A	p.E116E	CGTAGAGGATGAA	.	PASS	Atlas-SNP
CYLD	1540	hgsc.bcm.edu	37	16	50783696	50783696	+	Silent	SNP	C	C	T	rs34564491	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	26.0	50.0	0.0	0.433333	0	C|0.991;T|0.009	0.009	strong	.	CYLD	150	.	NM_001042355	exon3	c.C87T	p.S29S	ATGCAGCGTTACA	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82835852	82835852	+	Missense_Mutation	SNP	C	C	T	rs61733401	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	80.0	166.0	0.0	0.457143	0	C|0.965;T|0.035	0.035	strong	.	VCAN	498	.	NM_004385	exon8	c.C7030T	p.P2344S	GAAGGACCCACGG	.	PASS	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	37	3	37536020	37536020	+	Silent	SNP	C	C	T	rs62001860	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	312.0	150.0	326.0	1.0	0.480769	0.00306748	C|0.994;T|0.006	0.006	strong	.	ITGA9	98	.	NM_002207	exon5	c.C573T	p.H191H	GGAACACGGCTCC	.	PASS	Atlas-SNP
GPSM2	29899	hgsc.bcm.edu	37	1	109465084	109465084	+	Missense_Mutation	SNP	T	T	A	rs61758992	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	78.0	197.0	0.0	0.438202	0	T|1.000;A|0.000	0.000	weak	.	GPSM2	56	.	NM_013296	exon13	c.T1486A	p.L496I	GACTTATTAAGCC	.	PASS	Atlas-SNP
WFIKKN2	124857	hgsc.bcm.edu	37	17	48913352	48913352	+	Silent	SNP	G	G	A	rs117494161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	63.0	110.0	0.0	0.588785	0	G|0.982;A|0.018	0.018	strong	.	WFIKKN2	69	.	NM_175575	exon1	c.G54A	p.A18A	GGCAGCGCTGCTG	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32184785	32184785	+	Missense_Mutation	SNP	C	C	G	rs11963697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	95.0	178.0	0.0	0.452381	0	C|0.989;G|0.011;T|0.000	0.011	strong	.	NOTCH4	201	.	NM_004557	exon11	c.G1798C	p.V600L	CTCCAACGGGACA	.	PASS	Atlas-SNP
PREB	10113	hgsc.bcm.edu	37	2	27354306	27354306	+	Silent	SNP	C	C	T	rs61276776	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	38.0	96.0	0.0	0.436782	0	C|0.989;T|0.011	0.011	strong	.	PREB	37	.	NM_013388	exon9	c.G1230A	p.Q410Q	GGCACTCTGGAGC	.	PASS	Atlas-SNP
DCAF15	90379	hgsc.bcm.edu	37	19	14066772	14066772	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	5.0	87.0	0.0	0.0442478	0	.	.	none	.	DCAF15	30	.	NM_138353	exon4	c.T415C	p.Y139H	GACCTGTACCTGA	.	PASS	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	37	6	135359073	135359073	+	Silent	SNP	G	G	A	rs115458424	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	70.0	115.0	0.0	0.555556	0	G|0.979;A|0.021	0.021	strong	.	HBS1L	75	.	NM_001145207	exon5	c.C522T	p.P174P	ATCAAAGGGTTTG	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47754576	47754576	+	Missense_Mutation	SNP	A	A	C	rs200285580	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	333.0	48.0	293.0	0.0	0.144144	0	A|0.999;G|0.001	.	alt	.	PCNT	283	.	NM_006031	exon3	c.A533C	p.Q178P	ACCACCAACCGGA	.	PASS	Atlas-SNP
GPR150	285601	hgsc.bcm.edu	37	5	94957071	94957071	+	Silent	SNP	A	A	T	rs375018988		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	14.0	21.0	0.0	0.666667	0	.	.	weak	.	GPR150	7	.	NM_199243	exon1	c.A1092T	p.R364R	CCGGCGACAGCTG	.	PASS	Atlas-SNP
GCAT	23464	hgsc.bcm.edu	37	22	38211728	38211728	+	Silent	SNP	A	A	G	rs34340481	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	263.0	119.0	214.0	0.0	0.452471	0	A|0.958;G|0.042	0.042	strong	.	GCAT	27	.	NM_001171690	exon7	c.A951G	p.P317P	CCGGCCATACCTC	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160738803	160738803	+	Missense_Mutation	SNP	G	G	A	rs35675007	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	27.0	77.0	0.0	0.350649	0	G|0.996;A|0.004	0.004	strong	LY75,NS,carcinoma,+1,1	LY75	151	1	NM_002349	exon7	c.C1078T	p.R360C	CACAGCGGGTATC	.	PASS	Atlas-SNP
PPARGC1B	133522	hgsc.bcm.edu	37	5	149200008	149200008	+	Missense_Mutation	SNP	G	G	A	rs45518035	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	28.0	30.0	0.0	0.622222	0	G|0.994;A|0.006	0.006	strong	.	PPARGC1B	74	.	NM_133263	exon2	c.G91A	p.G31R	GGGTCCGGGGAGG	.	PASS	Atlas-SNP
ERBB2	2064	hgsc.bcm.edu	37	17	37863268	37863268	+	Silent	SNP	G	G	A	rs4252610	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	63.0	128.0	0.0	0.459854	0	G|0.982;A|0.018	0.018	strong	.	ERBB2	429	.	NM_004448	exon2	c.G99A	p.L33L	GAAGCTGCGGCTC	.	PASS	Atlas-SNP
PCDHAC2	56134	hgsc.bcm.edu	37	5	140346670	140346670	+	Silent	SNP	C	C	A	rs155809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	11.0	28.0	0.0	0.392857	0	C|0.979;A|0.021	0.021	strong	.	PCDHAC2	142	.	NM_031883	exon1	c.C319A	p.R107R	ATTGATCGGGAGG	.	PASS	Atlas-SNP
OAS2	4939	hgsc.bcm.edu	37	12	113444285	113444285	+	Silent	SNP	C	C	T	rs16942424	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	54.0	70.0	0.0	0.509434	0	C|0.957;T|0.043	0.043	strong	.	OAS2	86	.	NM_002535	exon8	c.C1536T	p.S512S	TAAATCCTCGGAC	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11252	11252	+	Missense_Mutation	SNP	A	A	G	rs3915952	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	13.0	13.0	12.0	0.0	1	0	A|0.936;G|0.064	0.064	strong	.	.	.	.	ENST00000361381	exon1	c.A493G	p.I165V	GCACTAATTTACA	.	PASS	Atlas-SNP
SLC25A37	51312	hgsc.bcm.edu	37	8	23429093	23429093	+	Missense_Mutation	SNP	G	G	T	rs116050502	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	40.0	50.0	0.0	0.615385	0	G|0.994;T|0.006	0.006	strong	.	SLC25A37	27	.	NM_016612	exon4	c.G742T	p.A248S	GCCCTCGCCGCGG	.	PASS	Atlas-SNP
SP100	6672	hgsc.bcm.edu	37	2	231380146	231380146	+	Missense_Mutation	SNP	G	G	A	rs61733089	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	40.0	80.0	0.0	0.512821	0	G|0.991;A|0.009	0.009	strong	.	SP100	167	.	NM_003113	exon25	c.G2431A	p.A811T	AACACCGCTGCAG	.	PASS	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103205949	103205949	+	Silent	SNP	G	G	C	rs78221963	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	31.0	70.0	0.0	0.476923	0	G|0.993;C|0.007	0.007	strong	.	RELN	593	.	NM_173054	exon34	c.C4986G	p.T1662T	CAAAAAGGTAGAT	.	PASS	Atlas-SNP
CLUAP1	23059	hgsc.bcm.edu	37	16	3576475	3576475	+	Missense_Mutation	SNP	A	A	C	rs35603863	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	55.0	97.0	0.0	0.514019	0	A|0.981;C|0.019	0.019	strong	.	CLUAP1	32	.	NM_015041	exon9	c.A919C	p.K307Q	CTGCTCAAGAGTG	.	PASS	Atlas-SNP
WHSC1L1	54904	hgsc.bcm.edu	37	8	38205133	38205133	+	Missense_Mutation	SNP	G	G	A	rs13034	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	86.0	224.0	0.0	0.455026	0	G|0.983;A|0.017	0.017	strong	.	WHSC1L1	137	.	NM_017778	exon2	c.C557T	p.T186M	GATTTCGTGTGCT	.	PASS	Atlas-SNP
RGPD3	653489	hgsc.bcm.edu	37	2	107084716	107084716	+	Missense_Mutation	SNP	C	C	T	rs190902687	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	437.0	193.0	341.0	0.0	0.441648	0	C|0.992;T|0.008	0.008	strong	.	RGPD3	316	.	NM_001144013	exon1	c.G29A	p.R10Q	ACGTACCGCTCCC	.	PASS	Atlas-SNP
ITGAD	3681	hgsc.bcm.edu	37	16	31422531	31422531	+	Silent	SNP	T	T	C	rs368058587		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	104.0	179.0	0.0	0.454148	0	.	.	weak	.	ITGAD	154	.	NM_005353	exon13	c.T1491C	p.P497P	CTTGCCTAGGGGG	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149522163	149522163	+	Missense_Mutation	SNP	C	C	G	rs73727642	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	23.0	85.0	0.0	0.348485	0	C|0.974;G|0.026	0.026	strong	.	.	.	.	NM_198455	exon96	c.C13950G	p.C4650W	AGGCTGCCGGGAG	.	PASS	Atlas-SNP
KIAA1009	22832	hgsc.bcm.edu	37	6	84925636	84925636	+	Silent	SNP	A	A	C	rs9449840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	31.0	74.0	0.0	0.5	0	A|0.936;C|0.064	0.064	strong	.	KIAA1009	119	.	NM_014895	exon4	c.T177G	p.L59L	TCCAAGAAGTCCT	.	PASS	Atlas-SNP
C2orf43	60526	hgsc.bcm.edu	37	2	21001192	21001192	+	Missense_Mutation	SNP	A	A	G	rs139472393	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	34.0	112.0	0.0	0.373626	0	A|0.999;G|0.001	0.001	strong	.	C2orf43	28	.	NM_021925	exon2	c.T32C	p.V11A	TCATGCACAGGAA	.	PASS	Atlas-SNP
GPR85	54329	hgsc.bcm.edu	37	7	112724147	112724147	+	Silent	SNP	G	G	A	rs28392728	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	39.0	91.0	0.0	0.414894	0	G|0.978;A|0.022	0.022	strong	.	GPR85	49	.	NM_001146265	exon3	c.C630T	p.H210H	TCGATCGTGGACG	.	PASS	Atlas-SNP
HAS1	3036	hgsc.bcm.edu	37	19	52223026	52223026	+	Silent	SNP	C	C	A	rs61736497	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	27.0	16.0	20.0	0.0	0.592593	0	C|0.947;A|0.053	0.053	strong	.	HAS1	61	.	NM_001523	exon2	c.G135T	p.P45P	GGCCAGCGGCACC	.	PASS	Atlas-SNP
UBE4B	10277	hgsc.bcm.edu	37	1	10211588	10211588	+	Silent	SNP	G	G	A	rs149899336	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	86.0	179.0	0.0	0.480447	0	G|0.999;A|0.001	0.001	strong	.	UBE4B	233	.	NM_001105562	exon21	c.G2895A	p.L965L	CAAGTTGTTGGTA	.	PASS	Atlas-SNP
FNDC3A	22862	hgsc.bcm.edu	37	13	49775997	49775997	+	Missense_Mutation	SNP	A	A	G	rs45604939	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	77.0	116.0	0.0	0.516779	0	A|0.954;G|0.046	0.046	strong	.	FNDC3A	93	.	NM_001079673	exon24	c.A3049G	p.T1017A	GAGTCAACATCCT	.	PASS	Atlas-SNP
PPL	5493	hgsc.bcm.edu	37	16	4935258	4935258	+	Missense_Mutation	SNP	A	A	T	rs145318499		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	54.0	151.0	0.0	0.362416	0	.	.	weak	.	PPL	168	.	NM_002705	exon22	c.T3398A	p.L1133H	CGGGTGAGATCGC	.	PASS	Atlas-SNP
CIZ1	25792	hgsc.bcm.edu	37	9	130938650	130938650	+	Silent	SNP	G	G	A	rs45475893	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	86.0	102.0	0.0	0.722689	0	G|0.994;A|0.006	0.006	strong	.	CIZ1	75	.	NM_001257975	exon11	c.C2013T	p.D671D	CAGGACGTCCCGG	.	PASS	Atlas-SNP
OR8U1	219417	hgsc.bcm.edu	37	11	56143113	56143113	+	Missense_Mutation	SNP	A	A	G	rs116344671	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	99.0	156.0	0.0	0.502538	0	A|0.974;G|0.026	0.026	strong	.	OR8U1	59	.	NM_001005204	exon1	c.A14G	p.N5S	ACATCAATTGCAC	.	PASS	Atlas-SNP
OR51S1	119692	hgsc.bcm.edu	37	11	4869792	4869792	+	Missense_Mutation	SNP	A	A	G	rs57238061	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	45.0	77.0	0.0	0.542169	0	A|0.944;G|0.056	0.056	strong	.	OR51S1	83	.	NM_001004758	exon1	c.T647C	p.L216S	GGGTCCAAACCCA	.	PASS	Atlas-SNP
MOB3A	126308	hgsc.bcm.edu	37	19	2078424	2078424	+	Silent	SNP	G	G	T	rs34059622	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	28.0	65.0	0.0	0.509091	0	G|0.982;T|0.018	0.018	strong	.	.	.	.	NM_130807	exon3	c.C136A	p.R46R	CCAGCCGCAGGTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179611680	179611680	+	Silent	SNP	G	G	A	rs72648911	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	99.0	181.0	0.0	0.521053	0	G|0.954;A|0.046	0.046	strong	.	TTN	18412	.	NM_133379	exon46	c.C15447T	p.Y5149Y	AGGTGTGTAGAAA	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47955167	47955167	+	Silent	SNP	A	A	G	rs17131941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	24.0	46.0	0.0	0.55814	0	A|0.981;G|0.019	0.019	strong	.	PKD1L1	328	.	NM_138295	exon8	c.T1090C	p.L364L	TATCCAACTGAAA	.	PASS	Atlas-SNP
HIP1	3092	hgsc.bcm.edu	37	7	75221693	75221693	+	Silent	SNP	C	C	T	rs144446822	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	35.0	49.0	0.0	0.648148	0	C|0.999;T|0.001	0.001	strong	.	HIP1	91	.	NM_005338	exon3	c.G324A	p.P108P	CACGTTCGGGTGT	.	PASS	Atlas-SNP
CASP4	837	hgsc.bcm.edu	37	11	104825597	104825597	+	Missense_Mutation	SNP	C	C	T	rs56226603	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	60.0	181.0	0.0	0.333333	0	C|0.969;T|0.031	0.031	strong	.	CASP4	57	.	NM_001225	exon2	c.G139A	p.D47N	TAGCATCGTAATA	.	PASS	Atlas-SNP
TMEM41B	440026	hgsc.bcm.edu	37	11	9305136	9305136	+	Silent	SNP	G	G	A	rs77349011	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	33.0	58.0	0.0	1	0	G|0.941;A|0.059	0.059	strong	TMEM41B,NS,haematopoietic_neoplasm,0,1	TMEM41B	22	1	NM_015012	exon7	c.C711T	p.V237V	AGGTGCGACACCT	.	PASS	Atlas-SNP
GRB10	2887	hgsc.bcm.edu	37	7	50742326	50742326	+	Missense_Mutation	SNP	T	T	C	rs185094083	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	26.0	66.0	0.0	0.38806	0	T|0.999;C|0.001	0.001	strong	.	GRB10	155	.	NM_005311	exon3	c.A169G	p.N57D	TATCGTTCACCAG	.	PASS	Atlas-SNP
TMEM45B	120224	hgsc.bcm.edu	37	11	129722512	129722512	+	Silent	SNP	C	C	T	rs115605173	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	248.0	132.0	235.0	0.0	0.532258	0	C|0.991;T|0.009	0.009	strong	.	TMEM45B	25	.	NM_138788	exon2	c.C135T	p.L45L	GCGTCTCGAGATC	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	37	8	41552840	41552840	+	Silent	SNP	G	G	A	rs34969689	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	85.0	173.0	0.0	0.472222	0	G|0.987;A|0.013	0.013	strong	.	ANK1	497	.	NM_001142446	exon28	c.C3093T	p.I1031I	CTCCACGATTACA	.	PASS	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52198619	52198619	+	Silent	SNP	C	C	A	rs78786003	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	52.0	118.0	0.0	0.468468	0	C|0.985;A|0.015	0.015	strong	.	ZNF217	227	.	NM_006526	exon1	c.G747T	p.A249A	TGTCTGCGCGCTG	.	PASS	Atlas-SNP
MGAT4A	11320	hgsc.bcm.edu	37	2	99256447	99256447	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	42.0	78.0	0.0	0.512195	0	.	.	none	.	MGAT4A	51	.	NM_012214	exon12	c.A1146T	p.K382N	TAATGGTTTCATA	.	PASS	Atlas-SNP
HDC	3067	hgsc.bcm.edu	37	15	50534789	50534789	+	Missense_Mutation	SNP	A	A	G	rs16963486	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	65.0	135.0	0.0	0.528455	0	A|0.975;G|0.025	0.025	strong	.	HDC	86	.	NM_002112	exon12	c.T1657C	p.F553L	CTGAAAAGCAGTC	.	PASS	Atlas-SNP
MDH2	4191	hgsc.bcm.edu	37	7	75684273	75684273	+	Silent	SNP	G	G	A	rs77424348	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	54.0	69.0	0.0	0.701299	0	G|0.984;A|0.016	0.016	strong	.	MDH2	35	.	NM_005918	exon2	c.G192A	p.V64V	CGGAGTGGCCGCA	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187524176	187524176	+	Missense_Mutation	SNP	G	G	A	rs200262460	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	71.0	122.0	0.0	0.577236	0	G|1.000;A|0.000	0.000	strong	.	FAT1	500	.	NM_005245	exon20	c.C11363T	p.P3788L	ACAGGTGGGCACC	.	PASS	Atlas-SNP
PCDHB12	56124	hgsc.bcm.edu	37	5	140589334	140589334	+	Silent	SNP	A	A	G	rs149716951	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	64.0	138.0	0.0	0.528926	0	A|0.994;G|0.006	0.006	strong	.	PCDHB12	179	.	NM_018932	exon1	c.A855G	p.S285S	TGCCTCAGAAGAT	.	PASS	Atlas-SNP
ATP2A3	489	hgsc.bcm.edu	37	17	3850910	3850910	+	Silent	SNP	A	A	G	rs55837933	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	26.0	38.0	0.0	0.604651	0	A|0.928;G|0.072	0.072	strong	.	ATP2A3	148	.	NM_174956	exon8	c.T870C	p.R290R	AGCGCCACGCAGC	.	PASS	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	37	1	247013733	247013733	+	Missense_Mutation	SNP	T	T	C	rs79472697		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	408.0	167.0	406.0	0.0	0.409314	0	.	.	weak	.	AHCTF1	187	.	NM_015446	exon33	c.A5602G	p.K1868E	CTTTTTTAGTAGT	.	PASS	Atlas-SNP
CEACAM1	634	hgsc.bcm.edu	37	19	43031514	43031514	+	Missense_Mutation	SNP	G	G	T	rs8111171	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	124.0	214.0	0.0	0.56621	0	G|0.888;T|0.112	0.112	strong	.	CEACAM1	43	.	NM_001184816	exon2	c.C103A	p.Q35K	TGAGCTGGGCAGT	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23915089	23915089	+	Missense_Mutation	SNP	G	G	T	rs139993038	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	71.0	190.0	1.0	0.387978	0.00526316	A|0.000;G|0.999;T|0.001	0.001	strong	SACS_ENST00000382298,NS,carcinoma,0,2	SACS	871	2	NM_014363	exon10	c.C2926A	p.R976S	CCAGACGAATAGT	.	scavenged	Atlas-SNP
LRFN2	57497	hgsc.bcm.edu	37	6	40400823	40400823	+	Silent	SNP	C	C	T	rs61731039	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	35.0	69.0	0.0	0.507246	0	C|0.950;T|0.050	0.050	strong	LRFN2,NS,carcinoma,-1,1	LRFN2	133	1	NM_020737	exon2	c.G30A	p.A10A	GCCAAACGCTAGC	.	PASS	Atlas-SNP
MAP1B	4131	hgsc.bcm.edu	37	5	71495320	71495320	+	Silent	SNP	G	G	A	rs115914542	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	87.0	122.0	0.0	0.533742	0	G|0.999;A|0.001	0.001	strong	MAP1B,rectum,carcinoma,0,2	MAP1B	243	2	NM_005909	exon5	c.G6138A	p.E2046E	TGCAGAGAAAATC	.	PASS	Atlas-SNP
HSD3B2	3284	hgsc.bcm.edu	37	1	119962118	119962118	+	Missense_Mutation	SNP	G	G	A	rs4986954	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	88.0	161.0	0.0	0.44898	0	G|0.996;A|0.004	0.004	strong	.	HSD3B2	48	.	NM_001166120	exon3	c.G220A	p.D74N	TGCCAGGACGTCT	.	PASS	Atlas-SNP
PROKR2	128674	hgsc.bcm.edu	37	20	5283051	5283051	+	Missense_Mutation	SNP	G	G	A	rs148868355	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	37.0	74.0	0.0	0.474359	0	G|0.999;A|0.001	0.001	strong	.	PROKR2	90	.	NM_144773	exon2	c.C790T	p.R264C	GCTTGCGAATCTG	.	PASS	Atlas-SNP
AKR1C2	1646	hgsc.bcm.edu	37	10	5043749	5043749	+	Missense_Mutation	SNP	G	G	A	rs147648222	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	328.0	172.0	297.0	0.0	0.52439	0	G|0.998;A|0.002	0.002	strong	.	AKR1C2	68	.	NM_001354	exon4	c.C209T	p.A70V	CCATCTGCAATCT	.	PASS	Atlas-SNP
HIP1R	9026	hgsc.bcm.edu	37	12	123341199	123341199	+	Missense_Mutation	SNP	A	A	C	rs7972242	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	42.0	108.0	0.0	0.477273	0	A|0.954;C|0.046	0.046	strong	.	HIP1R	68	.	NM_003959	exon17	c.A1546C	p.K516Q	CTGGAGAAGCTCA	.	PASS	Atlas-SNP
FILIP1	27145	hgsc.bcm.edu	37	6	76022541	76022541	+	Missense_Mutation	SNP	G	G	A	rs34807169	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	237.0	109.0	241.0	1.0	0.459916	0.00414938	G|0.973;A|0.027	0.027	strong	.	FILIP1	173	.	NM_015687	exon5	c.C3007T	p.P1003S	ATGTGGGCCTGTC	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52486850	52486850	+	Silent	SNP	G	G	A	rs8007166	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	60.0	111.0	0.0	0.521739	0	G|0.971;A|0.029	0.029	strong	.	NID2	201	.	NM_007361	exon13	c.C2721T	p.C907C	ATTGTAGCAGGTA	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110492328	110492328	+	Missense_Mutation	SNP	A	A	C	rs140472257	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	58.0	149.0	0.0	0.42029	0	A|0.993;C|0.007	0.007	strong	.	PKHD1L1	522	.	NM_177531	exon55	c.A9287C	p.Y3096S	CTTCTTACAGAGA	.	PASS	Atlas-SNP
N4BP2L2	10443	hgsc.bcm.edu	37	13	33110831	33110831	+	Missense_Mutation	SNP	C	C	T	rs149614093	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	85.0	184.0	0.0	0.442708	0	C|0.998;T|0.002	0.002	strong	.	N4BP2L2	90	.	NM_014887	exon2	c.G334A	p.A112T	CGTCTGCGGATAC	.	PASS	Atlas-SNP
KRTAP10-1	386677	hgsc.bcm.edu	37	21	45959279	45959279	+	Missense_Mutation	SNP	C	C	T	rs28644341	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	42.0	89.0	0.0	0.518519	0	C|0.991;T|0.009	0.009	strong	.	KRTAP10-1	34	.	NM_198691	exon1	c.G755A	p.C252Y	GGGGCACAGCAGG	.	PASS	Atlas-SNP
DSCR3	10311	hgsc.bcm.edu	37	21	38605694	38605694	+	Missense_Mutation	SNP	G	G	A	rs145630556	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	33.0	73.0	0.0	0.445946	0	G|0.998;A|0.002	0.002	strong	.	DSCR3	21	.	NM_006052	exon4	c.C401T	p.T134I	GTCTTTGTCAAGT	.	PASS	Atlas-SNP
PPP1R12C	54776	hgsc.bcm.edu	37	19	55606944	55606944	+	Missense_Mutation	SNP	G	G	A	rs35849605	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	39.0	56.0	0.0	0.513158	0	G|0.958;A|0.042	0.042	strong	.	PPP1R12C	46	.	NM_017607	exon10	c.C1255T	p.R419C	CAAAGCGCCTGGA	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121652964	121652964	+	Silent	SNP	T	T	C	rs139671030	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	52.0	116.0	0.0	0.45614	0	T|0.997;C|0.003	0.003	strong	.	PTPRZ1	605	.	NM_002851	exon12	c.T3864C	p.S1288S	GTACAGTAATGAT	.	PASS	Atlas-SNP
METTL15	196074	hgsc.bcm.edu	37	11	28351963	28351963	+	Missense_Mutation	SNP	A	A	T	rs11030280	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	117.0	229.0	1.0	0.483471	0.00436681	A|0.993;T|0.007	0.007	strong	.	METTL15	63	.	NM_001113528	exon7	c.A799T	p.I267F	TCTGCTATTTATA	.	PASS	Atlas-SNP
FAM26F	441168	hgsc.bcm.edu	37	6	116783585	116783585	+	Missense_Mutation	SNP	G	G	C	rs76716752	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	33.0	15.0	0.0	1	0	G|0.954;C|0.046	0.046	strong	.	FAM26F	12	.	NM_001010919	exon2	c.T493C	p.S165P	GTGCAGGACCTCC	.	PASS	Atlas-SNP
TMPRSS11F	389208	hgsc.bcm.edu	37	4	68934515	68934515	+	Silent	SNP	A	A	G	rs35687346	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	61.0	129.0	0.0	0.462121	0	A|0.955;G|0.045	0.045	strong	.	TMPRSS11F	79	.	NM_207407	exon7	c.T576C	p.S192S	GTTTGAAGATGTC	.	PASS	Atlas-SNP
BCL9L	283149	hgsc.bcm.edu	37	11	118770054	118770054	+	Silent	SNP	G	G	A	rs12277303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	55.0	112.0	0.0	0.578947	0	G|0.948;A|0.052	0.052	strong	.	BCL9L	254	.	NM_182557	exon8	c.C3570T	p.N1190N	CTGTGCGTTGGGA	.	PASS	Atlas-SNP
ZNF540	163255	hgsc.bcm.edu	37	19	38102955	38102955	+	Silent	SNP	T	T	C	rs115588579	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	26.0	68.0	0.0	0.509804	0	T|0.992;C|0.008	0.008	strong	.	ZNF540	75	.	NM_152606	exon5	c.T774C	p.L258L	ACAACTTAATCGA	.	PASS	Atlas-SNP
CHD3	1107	hgsc.bcm.edu	37	17	7792326	7792326	+	Missense_Mutation	SNP	C	C	T	rs931543	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	47.0	102.0	0.0	0.47	0	C|0.915;T|0.085	0.085	strong	.	CHD3	169	.	NM_001005273	exon1	c.C8T	p.A3V	TGAAGGCGGCAGA	.	PASS	Atlas-SNP
GPR26	2849	hgsc.bcm.edu	37	10	125447511	125447511	+	Silent	SNP	G	G	A	rs62640899	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	31.0	58.0	0.0	0.462687	0	G|0.970;A|0.030	0.030	strong	.	GPR26	47	.	NM_153442	exon3	c.G849A	p.A283A	CTTGGCGTACAGC	.	PASS	Atlas-SNP
PFAS	5198	hgsc.bcm.edu	37	17	8172141	8172141	+	Missense_Mutation	SNP	G	G	A	rs73975814	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	18.0	10.0	17.0	0.0	0.555556	0	G|0.994;A|0.006	0.006	strong	.	PFAS	91	.	NM_012393	exon27	c.G3673A	p.A1225T	GAGGGCGCCGTGC	.	PASS	Atlas-SNP
KRTAP4-9	100132386	hgsc.bcm.edu	37	17	39262091	39262091	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	64.0	126.0	0.0	0.344086	0	.	.	none	.	KRTAP4-9	110	.	NM_001146041	exon1	c.C451T	p.R151C	TGCTGCCGCCCCA	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	37	3	119449159	119449159	+	Missense_Mutation	SNP	G	G	A	rs61742290	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	69.0	108.0	0.0	0.526718	0	G|0.995;A|0.005	0.005	strong	C3orf15,NS,carcinoma,+1,2	.	.	2	NM_033364	exon8	c.G953A	p.R318Q	ATGCCCGGTGGTC	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32077653	32077653	+	Missense_Mutation	SNP	G	G	A	rs61745726	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	121.0	106.0	0.0	1	0	G|0.913;A|0.087	0.087	strong	.	PDZD2	306	.	NM_178140	exon18	c.G3623A	p.S1208N	ATGCCAGCCACCT	.	PASS	Atlas-SNP
PDE9A	5152	hgsc.bcm.edu	37	21	44179112	44179112	+	Missense_Mutation	SNP	C	C	G	rs146382324	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	71.0	99.0	0.0	0.533835	0	C|0.999;G|0.001	0.001	strong	.	PDE9A	69	.	NM_002606	exon11	c.C814G	p.L272V	CAGATGCTGAGCT	.	PASS	Atlas-SNP
TRPC5	7224	hgsc.bcm.edu	37	X	111020096	111020096	+	Silent	SNP	C	C	A	rs141761268	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	101.0	177.0	0.0	0.63125	0	C|0.998;A|0.002	0.002	strong	.	TRPC5	142	.	NM_012471	exon11	c.G2367T	p.G789G	CCGAGCCCCACCA	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5417093	5417093	+	Silent	SNP	G	G	T	rs60530083	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	32.0	28.0	0.0	0.603774	0	G|0.985;T|0.015	0.015	strong	.	TNRC18	311	.	NM_001080495	exon7	c.C2370A	p.R790R	AGACCAGCGACCT	.	PASS	Atlas-SNP
TMEM232	642987	hgsc.bcm.edu	37	5	109941887	109941887	+	Missense_Mutation	SNP	C	C	T	rs73224392	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	217.0	98.0	238.0	0.0	0.451613	0	C|0.965;T|0.035	0.035	strong	.	TMEM232	57	.	NM_001039763	exon9	c.G1004A	p.S335N	ATAATGCTTGAAA	.	PASS	Atlas-SNP
BRD1	23774	hgsc.bcm.edu	37	22	50217387	50217387	+	Silent	SNP	G	G	A	rs11912787	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	50.0	105.0	0.0	0.480769	0	G|0.899;A|0.101	0.101	strong	.	BRD1	144	.	NM_014577	exon1	c.C579T	p.F193F	CTTCTCGAAGCGG	.	PASS	Atlas-SNP
OR10K1	391109	hgsc.bcm.edu	37	1	158436201	158436201	+	Silent	SNP	T	T	C	rs76117330	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	62.0	131.0	0.0	0.446043	0	T|0.963;C|0.037	0.037	strong	.	OR10K1	80	.	NM_001004473	exon1	c.T850C	p.L284L	ACCCCATTGTTCA	.	PASS	Atlas-SNP
PLOD2	5352	hgsc.bcm.edu	37	3	145809622	145809622	+	Missense_Mutation	SNP	A	A	G	rs138948307	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	53.0	115.0	0.0	0.389706	0	A|0.999;G|0.001	0.001	strong	.	PLOD2	81	.	NM_182943	exon8	c.T844C	p.C282R	ATTCACAAAGAGT	.	PASS	Atlas-SNP
KIAA0141	9812	hgsc.bcm.edu	37	5	141313888	141313888	+	Silent	SNP	A	A	C	rs115183657	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	61.0	88.0	0.0	0.472868	0	A|0.991;C|0.009	0.009	strong	.	KIAA0141	44	.	NM_001142603	exon9	c.A981C	p.P327P	AGACCCAGCCTCT	.	PASS	Atlas-SNP
PEX16	9409	hgsc.bcm.edu	37	11	45932458	45932458	+	Silent	SNP	G	G	A	rs150774189	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	60.0	91.0	0.0	0.540541	0	G|0.995;A|0.005	0.005	strong	.	PEX16	24	.	NM_004813	exon10	c.C943T	p.L315L	TGACCAGGCCAAC	.	PASS	Atlas-SNP
ERN1	2081	hgsc.bcm.edu	37	17	62149423	62149423	+	Silent	SNP	G	G	A	rs374999844		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	29.0	72.0	0.0	0.453125	0	.	.	weak	.	ERN1	102	.	NM_001433	exon6	c.C396T	p.T132T	CTCTCCGGTCAGG	.	PASS	Atlas-SNP
LILRA2	11027	hgsc.bcm.edu	37	19	55098736	55098736	+	Missense_Mutation	SNP	G	G	C	rs73939007	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	257.0	115.0	228.0	1.0	0.447471	0.00438596	G|0.991;C|0.009	0.009	strong	.	LILRA2	99	.	NM_001130917	exon8	c.G1375C	p.V459L	GGCTTGGTCCTGG	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104014294	104014294	+	Missense_Mutation	SNP	C	C	T	rs150189813	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	209.0	107.0	195.0	0.0	0.511962	0	C|1.000;T|0.000	0.000	strong	.	STAB2	370	.	NM_017564	exon4	c.C380T	p.A127V	GTTGTGCTGAAGG	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8150428	8150428	+	Silent	SNP	G	G	A	rs34514496	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	26.0	40.0	0.0	0.490566	0	G|0.956;A|0.044	0.044	strong	.	FBN3	300	.	NM_032447	exon55	c.C6906T	p.A2302A	CACCTCGGCAAAG	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50531907	50531907	+	Silent	SNP	C	C	T	rs74528495	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	42.0	97.0	0.0	0.428571	0	C|0.994;T|0.006	0.006	strong	.	C10orf71	179	.	NM_001135196	exon3	c.C1317T	p.P439P	TGATCCCCCCTTT	.	PASS	Atlas-SNP
VARS	7407	hgsc.bcm.edu	37	6	31747833	31747833	+	Missense_Mutation	SNP	G	G	A	rs1076827	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	37.0	82.0	0.0	0.5	0	G|0.978;A|0.022	0.022	strong	.	VARS	76	.	NM_006295	exon26	c.C3023T	p.P1008L	ACGGCCGGGAAGT	.	PASS	Atlas-SNP
NOM1	64434	hgsc.bcm.edu	37	7	156745224	156745224	+	Silent	SNP	G	G	A	rs59371845	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	81.0	170.0	0.0	0.487952	0	G|0.950;A|0.050	0.050	strong	.	NOM1	73	.	NM_138400	exon2	c.G1044A	p.E348E	TGAGGAGACAGTG	.	PASS	Atlas-SNP
ARID3C	138715	hgsc.bcm.edu	37	9	34625800	34625800	+	Silent	SNP	G	G	A	rs144207435	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	80.0	142.0	0.0	0.547945	0	G|0.997;A|0.003	0.003	strong	ARID3C,NS,carcinoma,0,2	ARID3C	33	2	NM_001017363	exon2	c.C330T	p.L110L	TGCATCGAGCTCA	.	PASS	Atlas-SNP
ZNF236	7776	hgsc.bcm.edu	37	18	74640002	74640002	+	Missense_Mutation	SNP	G	G	A	rs76679748	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	99.0	180.0	0.0	0.495	0	G|0.996;A|0.004	0.004	strong	.	ZNF236	325	.	NM_007345	exon25	c.G4528A	p.A1510T	CAGGCCGCTGGGC	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33574784	33574784	+	Missense_Mutation	SNP	G	G	A	rs115275866	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	50.0	66.0	0.0	0.537634	0	G|0.993;A|0.007	0.007	strong	MYH7B,colon,carcinoma,0,1	MYH7B	145	1	NM_020884	exon15	c.G1126A	p.A376T	CTCATCGCCACCG	.	PASS	Atlas-SNP
KLHL2	11275	hgsc.bcm.edu	37	4	166149999	166149999	+	Missense_Mutation	SNP	A	A	G	rs80341433	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	576.0	285.0	736.0	0.0	0.494792	0	A|0.994;G|0.006	0.006	strong	.	KLHL2	42	.	NM_001161521	exon3	c.A205G	p.M69V	GAAGACATGGAAA	.	PASS	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91666248	91666248	+	Silent	SNP	T	T	C	rs28715808	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	86.0	135.0	0.0	0.554839	0	T|0.967;C|0.033	0.033	strong	.	C14orf159	57	.	NM_001102368	exon11	c.T1443C	p.T481T	ATCAACTGGTAAG	.	PASS	Atlas-SNP
NAT8	9027	hgsc.bcm.edu	37	2	73868446	73868446	+	Missense_Mutation	SNP	C	C	T	rs13424561	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	83.0	139.0	0.0	0.506098	0	C|0.956;T|0.044	0.044	strong	.	NAT8	26	.	NM_003960	exon2	c.G310A	p.E104K	CACGCTCACTCAG	.	PASS	Atlas-SNP
SERPINB3	6317	hgsc.bcm.edu	37	18	61322998	61322998	+	Missense_Mutation	SNP	G	G	A	rs73962331	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	71.0	215.0	0.0	0.349754	0	G|0.948;A|0.052	0.052	strong	.	SERPINB3	90	.	NM_006919	exon8	c.C1066T	p.P356S	AAGTAGGTGATGA	.	PASS	Atlas-SNP
COG5	10466	hgsc.bcm.edu	37	7	107204371	107204371	+	Missense_Mutation	SNP	C	C	T	rs73419464	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	64.0	93.0	0.0	0.571429	0	C|0.970;T|0.030	0.030	strong	.	COG5	78	.	NM_006348	exon1	c.G64A	p.A22T	CGTCAGCAGCAGA	.	PASS	Atlas-SNP
MMP17	4326	hgsc.bcm.edu	37	12	132329666	132329666	+	Silent	SNP	C	C	T	rs36031288	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	58.0	102.0	0.0	0.491525	0	C|0.961;T|0.039	0.039	strong	.	MMP17	77	.	NM_016155	exon7	c.C972T	p.P324P	CAGGCCCAGGAAG	.	PASS	Atlas-SNP
CD44	960	hgsc.bcm.edu	37	11	35223303	35223303	+	Silent	SNP	G	G	A	rs11033026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	160.0	170.0	0.0	0.993789	0	G|0.883;A|0.117	0.117	strong	.	CD44	48	.	NM_000610	exon9	c.G1122A	p.E374E	TCATGAGGAAGAA	.	PASS	Atlas-SNP
PASD1	139135	hgsc.bcm.edu	37	X	150840690	150840690	+	Missense_Mutation	SNP	G	G	T	rs370395923		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	48.0	84.0	0.0	0.417391	0	.	.	weak	.	PASD1	286	.	NM_173493	exon14	c.G1473T	p.E491D	GAAGGAGCAGCAG	.	PASS	Atlas-SNP
IL25	64806	hgsc.bcm.edu	37	14	23845061	23845061	+	Missense_Mutation	SNP	T	T	C	rs149802556	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	262.0	105.0	254.0	1.0	0.400763	0.00393701	T|1.000;C|0.000	0.000	strong	.	IL25	21	.	NM_022789	exon2	c.T506C	p.V169A	CTTGTGTGTGTGT	.	PASS	Atlas-SNP
PTCD2	79810	hgsc.bcm.edu	37	5	71618069	71618069	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	24.0	86.0	0.0	0.32	0	.	.	none	.	PTCD2	31	.	NM_024754	exon2	c.A198G	p.A66A	TGTTGCATGTAAT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152283367	152283367	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	622.0	48.0	509.0	0.0	0.0771704	0	.	.	none	.	FLG	900	.	NM_002016	exon3	c.A3995G	p.H1332R	GTGTGATGAGTGC	.	PASS	Atlas-SNP
LARS2	23395	hgsc.bcm.edu	37	3	45459030	45459030	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	29.0	143.0	0.0	0.29	0	.	.	none	.	LARS2	48	.	NM_015340	exon5	c.C420T	p.V140V	CGCAGTCGAGAGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179441917	179441917	+	Missense_Mutation	SNP	T	T	C	rs72646881	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	56.0	112.0	0.0	0.482759	0	T|0.967;C|0.033	0.033	strong	TTN_ENST00000359218,NS,carcinoma,+2,5	TTN	18412	5	NM_001267550	exon324	c.A69145G	p.I23049V	TACTGATTTCAAC	.	PASS	Atlas-SNP
CSH2	1443	hgsc.bcm.edu	37	17	61950694	61950694	+	Missense_Mutation	SNP	G	G	A	rs61763993	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	55.0	248.0	0.0	0.234043	0	G|0.980;A|0.020	0.020	strong	.	CSH2	37	.	NM_022645	exon2	c.C16T	p.R6W	ACGTCCGGGAGCC	.	PASS	Atlas-SNP
GRIK4	2900	hgsc.bcm.edu	37	11	120811161	120811161	+	Missense_Mutation	SNP	G	G	A	rs2230298	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	30.0	103.0	0.0	0.461538	0	G|0.964;A|0.036	0.036	strong	.	GRIK4	149	.	NM_014619	exon12	c.G1582A	p.V528I	TACCGCGTTCATA	.	PASS	Atlas-SNP
SRGAP2D	100996712	hgsc.bcm.edu	37	1	206566947	206566947	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	647.0	99.0	553.0	0.0	0.153014	0	.	.	none	.	.	.	.	NM_001271887	exon3	c.C289T	p.Q97X	AAAGCCCGGAATG	.	PASS	Atlas-SNP
TNR	7143	hgsc.bcm.edu	37	1	175335162	175335162	+	Silent	SNP	T	T	C	rs7516376	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	241.0	114.0	228.0	0.0	0.473029	0	T|0.929;C|0.071	0.071	strong	TNR,NS,carcinoma,-1,2	TNR	399	2	NM_003285	exon11	c.A2166G	p.P722P	AGAGGATGGGGTA	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62288730	62288730	+	Missense_Mutation	SNP	G	G	C	rs1286812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	111.0	223.0	0.0	0.506849	0	G|0.992;C|0.008	0.008	strong	.	INADL	179	.	NM_176877	exon15	c.G1797C	p.Q599H	CCTACAGCCAGAA	.	PASS	Atlas-SNP
KRBA2	124751	hgsc.bcm.edu	37	17	8273246	8273246	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	225.0	61.0	259.0	0.0	0.271111	0	.	.	none	.	KRBA2	34	.	NM_213597	exon2	c.G685A	p.V229I	ATAAGACAATAAC	.	PASS	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39253819	39253819	+	Missense_Mutation	SNP	G	G	C	rs201814486		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	46.0	240.0	0.0	0.275449	0	.	.	weak	.	KRTAP4-8	57	.	NM_031960	exon1	c.C518G	p.T173S	GGGCAGGTGGAGA	.	PASS	Atlas-SNP
RBM11	54033	hgsc.bcm.edu	37	21	15591968	15591968	+	Missense_Mutation	SNP	G	G	A	rs141942958	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	88.0	143.0	0.0	0.60274	0	G|0.995;A|0.005	0.005	strong	RBM11,NS,neuroblastoma,-1,1	RBM11	41	1	NM_144770	exon2	c.G181A	p.E61K	CACCCAGAATCGG	.	PASS	Atlas-SNP
SMG8	55181	hgsc.bcm.edu	37	17	57288251	57288251	+	Missense_Mutation	SNP	C	C	T	rs8068240	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	44.0	88.0	0.0	0.423077	0	C|0.967;T|0.033	0.033	strong	.	SMG8	79	.	NM_018149	exon1	c.C839T	p.P280L	AACCTCCTCGGAA	.	PASS	Atlas-SNP
SRL	6345	hgsc.bcm.edu	37	16	4245656	4245656	+	Silent	SNP	G	G	A	rs76988584	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	248.0	118.0	220.0	0.0	0.475806	0	G|0.992;A|0.008	0.008	strong	.	SRL	56	.	NM_001098814	exon5	c.C508T	p.L170L	TCTCTAGGAAATT	.	PASS	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39253797	39253797	+	Silent	SNP	G	G	A	rs142150852	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	227.0	81.0	274.0	0.0	0.356828	0	G|0.982;A|0.018	0.018	strong	KRTAP4-8,colon,carcinoma,-2,1	KRTAP4-8	57	1	NM_031960	exon1	c.C540T	p.C180C	GGAGGCGCAGCAC	.	PASS	Atlas-SNP
DEFB110	245913	hgsc.bcm.edu	37	6	49989622	49989622	+	Silent	SNP	A	A	G	rs9473719	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	46.0	86.0	0.0	0.516854	0	A|0.986;G|0.014	0.014	strong	.	DEFB110	5	.	NM_001037728	exon1	c.T27C	p.I9I	GTGCAGAATAAAG	.	PASS	Atlas-SNP
DLG5	9231	hgsc.bcm.edu	37	10	79603423	79603423	+	Silent	SNP	C	C	T	rs12257229	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	94.0	195.0	0.0	0.467662	0	C|0.888;T|0.112	0.112	strong	.	DLG5	154	.	NM_004747	exon6	c.G906A	p.L302L	GTCATACAGTTTG	.	PASS	Atlas-SNP
PLA1A	51365	hgsc.bcm.edu	37	3	119336962	119336962	+	Missense_Mutation	SNP	G	G	A	rs2692622	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	239.0	132.0	177.0	0.0	0.552301	0	G|0.946;A|0.054	0.054	strong	.	PLA1A	65	.	NM_015900	exon7	c.G851A	p.S284N	GTGCCAGCTACAA	.	PASS	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	37	2	166868775	166868775	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	119.0	179.0	0.0	0.626316	0	.	.	none	.	SCN1A	641	.	NM_001165963	exon19	c.T3723C	p.Y1241Y	ATCAATATATATA	.	PASS	Atlas-SNP
ATP13A1	57130	hgsc.bcm.edu	37	19	19766365	19766365	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	79.0	134.0	0.0	0.537415	0	.	.	none	.	ATP13A1	82	.	NM_020410	exon10	c.C1368T	p.I456I	TGCAGCGATGGCA	.	PASS	Atlas-SNP
HPSE	10855	hgsc.bcm.edu	37	4	84222208	84222208	+	Silent	SNP	A	A	G	rs11031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	66.0	121.0	0.0	0.492537	0	A|0.911;G|0.089	0.089	strong	.	HPSE	55	.	NM_001098540	exon11	c.T1377C	p.N459N	GGTGACATTATGG	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12381687	12381687	+	Missense_Mutation	SNP	G	G	A	rs116125922	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	44.0	76.0	0.0	0.494382	0	G|0.990;A|0.010	0.010	strong	.	VWDE	123	.	NM_001135924	exon23	c.C4268T	p.T1423I	TTACCTGTACTAC	.	PASS	Atlas-SNP
RRM2B	50484	hgsc.bcm.edu	37	8	103251034	103251034	+	Missense_Mutation	SNP	A	A	C	rs72554092	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	15.0	28.0	0.0	0.576923	0	A|0.975;C|0.025	0.025	strong	.	RRM2B	31	.	NM_001172477	exon1	c.T17G	p.L6R	GGGGGAAGACGCA	.	PASS	Atlas-SNP
CNKSR1	10256	hgsc.bcm.edu	37	1	26508997	26508997	+	Silent	SNP	C	C	T	rs2802347	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	93.0	156.0	0.0	0.510989	0	C|0.940;T|0.060	0.060	strong	.	CNKSR1	66	.	NM_006314	exon6	c.C546T	p.H182H	CTGCCACAACATC	.	PASS	Atlas-SNP
GPR35	2859	hgsc.bcm.edu	37	2	241569535	241569535	+	Missense_Mutation	SNP	C	C	T	rs115880579	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	27.0	94.0	0.0	0.45	0	C|0.993;T|0.007	0.007	strong	GPR35,NS,malignant_melanoma,-1,1	GPR35	43	1	NM_001195382	exon6	c.C259T	p.R87C	GAGACCCGCATCT	.	PASS	Atlas-SNP
GOLGA6L1	283767	hgsc.bcm.edu	37	15	22743130	22743130	+	Silent	SNP	C	C	T	rs376169003		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	256.0	45.0	169.0	0.0	0.175781	0	.	.	weak	.	GOLGA6L1	20	.	NM_001001413	exon8	c.C1515T	p.H505H	GATGCACGACCAG	.	PASS	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	37	3	140281768	140281768	+	Silent	SNP	G	G	A	rs35951028	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	127.0	114.0	0.0	0.992188	0	G|0.973;A|0.027	0.027	strong	.	CLSTN2	190	.	NM_022131	exon14	c.G2328A	p.G776G	CAATGGGCGCTAC	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	37	1	39853163	39853163	+	Silent	SNP	T	T	C	rs79901102	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	36.0	74.0	0.0	0.545455	0	T|0.975;C|0.025	0.025	strong	.	MACF1	909	.	NM_012090	exon54	c.T8463C	p.H2821H	AAACCATTGGGAA	.	PASS	Atlas-SNP
HEG1	57493	hgsc.bcm.edu	37	3	124732426	124732426	+	Missense_Mutation	SNP	G	G	A	rs113838848	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	72.0	123.0	0.0	0.553846	0	G|0.986;A|0.014	0.014	strong	.	HEG1	109	.	NM_020733	exon6	c.C1997T	p.S666F	GAGGAGGAGGAGG	.	PASS	Atlas-SNP
ANKRD36B	57730	hgsc.bcm.edu	37	2	98206013	98206013	+	Missense_Mutation	SNP	C	C	T	rs188661236	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	262.0	127.0	295.0	1.0	0.484733	0.00338983	C|0.989;T|0.011	0.011	strong	.	.	.	.	NM_025190	exon1	c.G136A	p.A46T	TATTGGCGTCATA	.	PASS	Atlas-SNP
LRRC16A	55604	hgsc.bcm.edu	37	6	25606442	25606442	+	Missense_Mutation	SNP	A	A	G	rs201300946	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	53.0	99.0	0.0	0.456897	0	.	.	weak	.	LRRC16A	168	.	NM_017640	exon35	c.A3788G	p.K1263R	CCCCCAAACCCAG	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47535816	47535816	+	Missense_Mutation	SNP	G	G	A	rs61735835	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	32.0	42.0	0.0	0.551724	0	G|0.991;A|0.009	0.009	strong	.	COL6A2	351	.	NM_058175	exon6	c.G832A	p.E278K	CCGGGAGAGCCTG	.	PASS	Atlas-SNP
DTNBP1	84062	hgsc.bcm.edu	37	6	15523388	15523388	+	Missense_Mutation	SNP	T	T	C	rs73369534	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	55.0	136.0	0.0	0.413534	0	T|0.967;C|0.033	0.033	strong	.	DTNBP1	56	.	NM_032122	exon10	c.A874G	p.R292G	TGGCTCTTAATTC	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113379720	113379720	+	Missense_Mutation	SNP	G	G	A	rs114838141	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	78.0	173.0	0.0	0.39	0	G|0.996;A|0.004	0.004	strong	.	KIAA2018	180	.	NM_001009899	exon7	c.C809T	p.S270F	TGCAAAGAATGAT	.	PASS	Atlas-SNP
OR10X1	128367	hgsc.bcm.edu	37	1	158549082	158549082	+	Missense_Mutation	SNP	A	A	T	rs61755876	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	207.0	100.0	185.0	0.0	0.483092	0	A|0.972;T|0.028	0.028	strong	.	OR10X1	96	.	NM_001004477	exon1	c.T608A	p.L203Q	CAAGACAGCCTAA	.	PASS	Atlas-SNP
KIAA0754	643314	hgsc.bcm.edu	37	1	39879517	39879517	+	Missense_Mutation	SNP	G	G	A	rs587523	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	191.0	96.0	179.0	0.0	0.502618	0	G|0.932;A|0.068	0.068	strong	.	KIAA0754	93	.	NM_015038	exon1	c.G3580A	p.E1194K	CTGGAGGAACCCA	.	PASS	Atlas-SNP
GIMAP6	474344	hgsc.bcm.edu	37	7	150325177	150325177	+	Missense_Mutation	SNP	C	C	T	rs11974345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	23.0	47.0	0.0	0.442308	0	C|0.960;T|0.040	0.040	strong	GIMAP6,NS,carcinoma,+1,1	GIMAP6	60	1	NM_001244072	exon3	c.G719A	p.G240D	GAGCCGCCAGCCA	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114386723	114386723	+	Silent	SNP	G	G	A	rs7979406	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	121.0	216.0	0.0	0.489879	0	G|0.971;A|0.029	0.029	strong	.	RBM19	117	.	NM_001146699	exon10	c.C1191T	p.D397D	GGCCAGGTCCTCC	.	PASS	Atlas-SNP
POLR3A	11128	hgsc.bcm.edu	37	10	79781326	79781326	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	29.0	77.0	0.0	0.42029	0	.	.	none	.	POLR3A	104	.	NM_007055	exon8	c.A1163G	p.K388R	AGAATTTTGGCCA	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179069413	179069413	+	Missense_Mutation	SNP	A	A	G	rs374415765		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	35.0	134.0	0.0	0.315315	0	.	.	weak	.	C5orf60	24	.	NM_001142306	exon5	c.T761C	p.I254T	TGTCTTATGCGTC	.	PASS	Atlas-SNP
SORCS2	57537	hgsc.bcm.edu	37	4	7741941	7741941	+	Missense_Mutation	SNP	G	G	A	rs189272447	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	19.0	8.0	20.0	0.0	0.421053	0	G|0.999;A|0.001	0.001	strong	.	SORCS2	98	.	NM_020777	exon27	c.G3430A	p.V1144M	TCAGGCGTGGTCC	.	PASS	Atlas-SNP
CCS	9973	hgsc.bcm.edu	37	11	66366682	66366682	+	Missense_Mutation	SNP	G	G	A	rs61731812	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	57.0	80.0	0.0	0.626374	0	G|0.996;A|0.004	0.004	strong	.	CCS	22	.	NM_005125	exon3	c.G208A	p.G70R	GGCACGGGGCGGC	.	PASS	Atlas-SNP
SNX4	8723	hgsc.bcm.edu	37	3	125179676	125179676	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	94.0	203.0	0.0	0.479592	0	.	.	none	.	SNX4	29	.	NM_003794	exon10	c.G883A	p.E295K	CATCTTCCAAAAT	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295972	20295972	+	Missense_Mutation	SNP	G	G	A	rs76952476	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	383.0	171.0	486.0	0.0	0.446475	0	G|0.977;A|0.023	0.023	strong	OR4N2,NS,carcinoma,+1,5	OR4N2	125	5	NM_001004723	exon1	c.G365A	p.R122H	TTGACCGCTACAT	.	PASS	Atlas-SNP
ROBO2	6092	hgsc.bcm.edu	37	3	77614215	77614215	+	Missense_Mutation	SNP	T	T	C	rs185792666	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	44.0	61.0	0.0	0.536585	0	T|0.996;C|0.004	0.004	strong	.	ROBO2	527	.	NM_002942	exon12	c.T1793C	p.I598T	GAGCGATCAACCC	.	PASS	Atlas-SNP
RPP40	10799	hgsc.bcm.edu	37	6	4996611	4996611	+	Missense_Mutation	SNP	T	T	G	rs61730291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	47.0	132.0	0.0	0.479592	0	T|0.971;G|0.029	0.029	strong	.	RPP40	36	.	NM_006638	exon6	c.A603C	p.Q201H	CTGAATTTGGTAC	.	PASS	Atlas-SNP
SERPINA5	5104	hgsc.bcm.edu	37	14	95058477	95058477	+	Silent	SNP	G	G	A	rs6117	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	77.0	126.0	0.0	0.620968	0	G|0.956;A|0.044	0.044	strong	.	SERPINA5	69	.	NM_000624	exon6	c.G1122A	p.S374S	CAGGTCGGCCCGC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228559225	228559225	+	Missense_Mutation	SNP	G	G	A	rs200269110	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	20.0	8.0	12.0	0.0	0.4	0	.	.	weak	.	OBSCN	2142	.	NM_001271223	exon105	c.G23617A	p.E7873K	CTGCGCGAGCCAC	.	PASS	Atlas-SNP
LYPD4	147719	hgsc.bcm.edu	37	19	42343355	42343355	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	49.0	112.0	0.0	0.480392	0	.	.	none	.	LYPD4	30	.	NM_173506	exon2	c.G5C	p.G2A	TGGGGTCCCATGG	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	37	4	114279770	114279770	+	Silent	SNP	T	T	C	rs145557320	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	45.0	74.0	0.0	0.483871	0	T|0.992;C|0.008	0.008	strong	.	ANK2	576	.	NM_001148	exon38	c.T9996C	p.S3332S	ATCCAGTGTAGAT	.	PASS	Atlas-SNP
UBR2	23304	hgsc.bcm.edu	37	6	42562027	42562027	+	Missense_Mutation	SNP	A	A	T	rs6905054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	22.0	64.0	0.0	0.333333	0	A|0.966;T|0.034	0.034	strong	.	UBR2	134	.	NM_001184801	exon4	c.A516T	p.E172D	CTCTGAAATTGAG	.	PASS	Atlas-SNP
ASTN2	23245	hgsc.bcm.edu	37	9	119249690	119249690	+	Missense_Mutation	SNP	C	C	T	rs16933591	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	50.0	70.0	0.0	0.632911	0	C|0.979;T|0.021	0.021	strong	ASTN2_ENST00000361477,NS,carcinoma,0,1	ASTN2	307	1	NM_014010	exon19	c.G3292A	p.V1098I	TACTGACTTCAGG	.	PASS	Atlas-SNP
PLA1A	51365	hgsc.bcm.edu	37	3	119347623	119347623	+	Missense_Mutation	SNP	C	C	A	rs115172544	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	65.0	156.0	0.0	0.460993	0	C|0.984;A|0.016	0.016	strong	.	PLA1A	65	.	NM_015900	exon10	c.C1197A	p.F399L	GAAATTCAAGTTT	.	PASS	Atlas-SNP
FXR1	8087	hgsc.bcm.edu	37	3	180630500	180630500	+	Silent	SNP	C	C	T	rs1805578	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	304.0	168.0	312.0	1.0	0.552632	0.00320513	C|0.961;T|0.039	0.039	strong	.	FXR1	75	.	NM_001013438	exon1	c.C27T	p.R9R	GGTTCGCGGCTCT	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8150353	8150353	+	Silent	SNP	C	C	T	rs61729617	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	21.0	36.0	0.0	0.446809	0	C|0.967;T|0.033	0.033	strong	.	FBN3	300	.	NM_032447	exon55	c.G6981A	p.G2327G	GCCACCCCCACAG	.	PASS	Atlas-SNP
TRIP10	9322	hgsc.bcm.edu	37	19	6751103	6751103	+	Missense_Mutation	SNP	G	G	A	rs139253875	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	65.0	118.0	0.0	0.445205	0	G|0.999;A|0.001	0.001	strong	TRIP10_ENST00000313244,NS,carcinoma,0,2	TRIP10	104	2	NM_004240	exon14	c.G1519A	p.E507K	ATGGCCGAGGGTG	.	PASS	Atlas-SNP
HDHD2	84064	hgsc.bcm.edu	37	18	44660923	44660923	+	Missense_Mutation	SNP	C	C	T	rs7230131	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	46.0	128.0	0.0	0.494624	0	C|0.966;T|0.034	0.034	strong	.	HDHD2	12	.	NM_032124	exon3	c.G254A	p.R85Q	TGTTTCCGCTCTA	.	PASS	Atlas-SNP
LEPROTL1	23484	hgsc.bcm.edu	37	8	29994923	29994923	+	Missense_Mutation	SNP	G	G	A	rs77053651	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	56.0	118.0	0.0	0.414815	0	G|0.984;A|0.016	0.016	strong	.	LEPROTL1	16	.	NM_001128208	exon4	c.G415A	p.V139M	CAACCCGTGCTGA	.	PASS	Atlas-SNP
AMZ1	155185	hgsc.bcm.edu	37	7	2752026	2752026	+	Silent	SNP	G	G	A	rs61743920	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	22.0	55.0	0.0	0.55	0	G|0.988;A|0.012	0.012	strong	.	AMZ1	41	.	NM_133463	exon7	c.G1011A	p.P337P	GGAGCCGTCAGTG	.	PASS	Atlas-SNP
ZNF93	81931	hgsc.bcm.edu	37	19	20044810	20044810	+	Missense_Mutation	SNP	C	C	T	rs75974774	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	47.0	70.0	0.0	0.51087	0	C|0.998;T|0.002	0.002	strong	.	ZNF93	81	.	NM_031218	exon4	c.C1046T	p.A349V	GCAAAGCCTTTAT	.	PASS	Atlas-SNP
IGSF9	57549	hgsc.bcm.edu	37	1	159898437	159898437	+	Missense_Mutation	SNP	G	G	A	rs35574000	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	56.0	96.0	0.0	0.538462	0	G|0.987;A|0.013	0.013	strong	.	IGSF9	123	.	NM_001135050	exon19	c.C2741T	p.P914L	GGACTGGGTGGGG	.	PASS	Atlas-SNP
KLHL32	114792	hgsc.bcm.edu	37	6	97533193	97533193	+	Silent	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	4.0	52.0	0.0	0.0481928	0	.	.	none	KLHL32,mouth,carcinoma,+1,1	KLHL32	85	1	NM_052904	exon6	c.C603A	p.S201S	GACCTCCCTGAGT	.	PASS	Atlas-SNP
TMCO4	255104	hgsc.bcm.edu	37	1	20009837	20009837	+	Missense_Mutation	SNP	G	G	C	rs116650784	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	95.0	175.0	0.0	0.472637	0	G|0.975;C|0.025	0.025	strong	.	TMCO4	46	.	NM_181719	exon16	c.C1601G	p.A534G	CCTGGGGCCAGCA	.	PASS	Atlas-SNP
IGF2R	3482	hgsc.bcm.edu	37	6	160469542	160469542	+	Silent	SNP	A	A	G	rs8191809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	33.0	65.0	0.0	0.485294	0	A|0.988;G|0.012	0.012	strong	.	IGF2R	251	.	NM_000876	exon18	c.A2481G	p.A827A	ATATGCATCGGCT	.	PASS	Atlas-SNP
OR13C4	138804	hgsc.bcm.edu	37	9	107289352	107289352	+	Missense_Mutation	SNP	T	T	C	rs61738891	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	32.0	86.0	0.0	0.390244	0	T|0.992;C|0.008	0.008	strong	.	OR13C4	55	.	NM_001001919	exon1	c.A139G	p.I47V	TTGCTATGATCAG	.	PASS	Atlas-SNP
CCDC125	202243	hgsc.bcm.edu	37	5	68588029	68588029	+	Missense_Mutation	SNP	T	T	C	rs112794294	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	79.0	240.0	0.0	0.438889	0	T|0.986;C|0.014	0.014	strong	.	CCDC125	41	.	NM_176816	exon9	c.A1085G	p.H362R	TTAAGGTGCTTCC	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70818150	70818150	+	Missense_Mutation	SNP	C	C	G	rs12187098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	76.0	165.0	0.0	0.439306	0	C|0.971;G|0.029	0.029	strong	.	BDP1	204	.	NM_018429	exon23	c.C5026G	p.Q1676E	TCAGCACAAATGA	.	PASS	Atlas-SNP
VPS54	51542	hgsc.bcm.edu	37	2	64160864	64160864	+	Missense_Mutation	SNP	G	G	C	rs34015596	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	50.0	88.0	0.0	0.568182	0	G|0.970;C|0.030	0.030	strong	.	VPS54	57	.	NM_016516	exon12	c.C1682G	p.S561C	GATGAAGAATCAG	.	PASS	Atlas-SNP
TJP3	27134	hgsc.bcm.edu	37	19	3747890	3747890	+	Silent	SNP	C	C	T	rs10409928	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	76.0	91.0	0.0	0.575758	0	C|0.946;T|0.054	0.054	strong	.	TJP3	79	.	NM_001267561	exon19	c.C2448T	p.Y816Y	CGACTACGAGACG	.	PASS	Atlas-SNP
USP17L2	377630	hgsc.bcm.edu	37	8	11996074	11996074	+	Missense_Mutation	SNP	T	T	C	rs142023572	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	50.0	120.0	0.0	0.403226	0	T|0.955;C|0.045	0.045	strong	USP17L2,bladder,carcinoma,+2,1	USP17L2	47	1	NM_201402	exon1	c.A196G	p.K66E	GCTTCTTCCTGGG	.	scavenged	Atlas-SNP
CLCC1	23155	hgsc.bcm.edu	37	1	109479953	109479953	+	Missense_Mutation	SNP	G	G	A	rs150665002	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	54.0	97.0	0.0	0.509434	0	G|1.000;A|0.000	0.000	strong	.	CLCC1	55	.	NM_001048210	exon10	c.C1129T	p.R377W	TATCCCGTGGCCG	.	PASS	Atlas-SNP
OR2AE1	81392	hgsc.bcm.edu	37	7	99474007	99474007	+	Missense_Mutation	SNP	T	T	C	rs60737583	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	42.0	91.0	0.0	0.461538	0	T|0.932;C|0.068	0.068	strong	.	OR2AE1	32	.	NM_001005276	exon1	c.A650G	p.Y217C	AAGACATAGGATG	.	PASS	Atlas-SNP
FSCN2	25794	hgsc.bcm.edu	37	17	79495890	79495890	+	Silent	SNP	C	C	T	rs117946784	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	10.0	5.0	9.0	0.0	0.5	0	C|0.990;T|0.010	0.010	strong	.	FSCN2	35	.	NM_001077182	exon1	c.C333T	p.F111F	CTTCTTCGGAGGC	.	PASS	Atlas-SNP
TRERF1	55809	hgsc.bcm.edu	37	6	42233529	42233529	+	Silent	SNP	G	G	A	rs79466811	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	42.0	87.0	0.0	0.4375	0	G|0.981;A|0.019	0.019	strong	.	TRERF1	124	.	NM_033502	exon6	c.C1444T	p.L482L	CAGGTAGGTGCAT	.	PASS	Atlas-SNP
SLC16A5	9121	hgsc.bcm.edu	37	17	73096199	73096199	+	Silent	SNP	C	C	T	rs142993518	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	52.0	130.0	0.0	0.422764	0	C|0.998;T|0.002	0.002	strong	.	SLC16A5	80	.	NM_001271765	exon5	c.C441T	p.G147G	GATGGGCGTCTCC	.	PASS	Atlas-SNP
HLA-DOA	3111	hgsc.bcm.edu	37	6	32976013	32976013	+	Silent	SNP	G	G	A	rs78635760	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	60.0	66.0	0.0	0.674157	0	G|0.984;A|0.016	0.016	strong	HLA-DOA,colon,carcinoma,0,1	HLA-DOA	22	1	NM_002119	exon2	c.C108T	p.P36P	GAAGGCGGGTCCG	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151859495	151859495	+	Missense_Mutation	SNP	C	C	G	rs115580901	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	93.0	158.0	0.0	0.528409	0	C|0.998;G|0.002	0.002	strong	.	MLL3	1564	.	NM_170606	exon43	c.G11167C	p.A3723P	TCTCAGCCTTTTC	.	PASS	Atlas-SNP
TMEM200B	399474	hgsc.bcm.edu	37	1	29447765	29447765	+	Silent	SNP	G	G	T	rs115927590	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	23.0	72.0	0.0	0.410714	0	G|0.990;T|0.010	0.010	strong	.	TMEM200B	9	.	NM_001171868	exon2	c.C576A	p.S192S	ACGCGGGGACGGG	.	PASS	Atlas-SNP
NOS3	4846	hgsc.bcm.edu	37	7	150710392	150710392	+	Silent	SNP	G	G	A	rs3730011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	41.0	68.0	0.0	0.546667	0	G|0.995;A|0.005	0.005	strong	NOS3,NS,carcinoma,+2,1	NOS3	131	1	NM_000603	exon25	c.G3180A	p.E1060E	CGACGAGGTGCAG	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201046164	201046164	+	Missense_Mutation	SNP	C	C	T	rs114191482	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	368.0	187.0	311.0	0.0	0.508152	0	C|0.997;T|0.003	0.003	strong	.	CACNA1S	249	.	NM_000069	exon12	c.G1711A	p.V571I	AGATGACGATGAA	.	PASS	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	37	16	3606947	3606947	+	Missense_Mutation	SNP	G	G	T	rs116349864	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	46.0	108.0	0.0	0.511111	0	G|0.985;T|0.015	0.015	strong	.	NLRC3	103	.	NM_178844	exon8	c.C2148A	p.D716E	CAAAGCGTCTGCC	.	PASS	Atlas-SNP
CHST12	55501	hgsc.bcm.edu	37	7	2472599	2472599	+	Missense_Mutation	SNP	C	C	A	rs17132395	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	10.0	8.0	10.0	0.0	0.8	0	C|0.976;A|0.024	0.024	strong	.	CHST12	39	.	NM_018641	exon2	c.C325A	p.R109S	TCCCCGCGCGACG	.	PASS	Atlas-SNP
PTGFRN	5738	hgsc.bcm.edu	37	1	117452869	117452869	+	Missense_Mutation	SNP	C	C	G	rs77292583	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	8.0	4.0	16.0	0.0	0.5	0	C|0.978;G|0.022	0.022	strong	PTGFRN,NS,carcinoma,0,1	PTGFRN	91	1	NM_020440	exon1	c.C44G	p.S15W	TCCTGTCGTTGGG	.	PASS	Atlas-SNP
TMEM156	80008	hgsc.bcm.edu	37	4	39033851	39033851	+	Missense_Mutation	SNP	G	G	A	rs61732938	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	37.0	79.0	0.0	0.493333	0	G|0.998;A|0.002	0.002	strong	.	TMEM156	31	.	NM_024943	exon1	c.C83T	p.P28L	CCTTTCGGTGTCT	.	PASS	Atlas-SNP
OR4S2	219431	hgsc.bcm.edu	37	11	55419147	55419147	+	Silent	SNP	C	C	T	rs74538149	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	72.0	111.0	1.0	0.986301	0.00900901	C|0.988;T|0.012	0.012	strong	.	OR4S2	89	.	NM_001004059	exon1	c.C768T	p.Y256Y	TATGTACATGCGC	.	PASS	Atlas-SNP
MYO10	4651	hgsc.bcm.edu	37	5	16682062	16682062	+	Silent	SNP	C	C	T	rs16868979	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	64.0	111.0	0.0	0.503937	0	C|0.960;T|0.040	0.040	strong	MYO10,NS,carcinoma,0,1	MYO10	198	1	NM_012334	exon31	c.G4107A	p.P1369P	CTCCTCCGGCGTG	.	PASS	Atlas-SNP
CIZ1	25792	hgsc.bcm.edu	37	9	130948018	130948018	+	Silent	SNP	G	G	A	rs45545033	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	43.0	49.0	0.0	0.68254	0	G|0.962;A|0.038	0.038	strong	.	CIZ1	75	.	NM_001257975	exon5	c.C486T	p.L162L	GGCTGCGAGGCCT	.	PASS	Atlas-SNP
ALDH8A1	64577	hgsc.bcm.edu	37	6	135271178	135271178	+	Missense_Mutation	SNP	T	T	C	rs56954234	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	43.0	87.0	0.0	0.390909	0	T|0.985;C|0.015	0.015	strong	.	ALDH8A1	68	.	NM_022568	exon1	c.A14G	p.N5S	AGTGCGTTTGTTC	.	PASS	Atlas-SNP
LIPE	3991	hgsc.bcm.edu	37	19	42906914	42906914	+	Missense_Mutation	SNP	G	G	T	rs7246232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	57.0	115.0	0.0	0.467213	0	G|0.970;T|0.030	0.030	strong	.	LIPE	83	.	NM_005357	exon9	c.C2812A	p.R938S	CGGCACGGACGCC	.	PASS	Atlas-SNP
FAM114A1	92689	hgsc.bcm.edu	37	4	38933869	38933869	+	Missense_Mutation	SNP	C	C	T	rs36058104	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	106.0	257.0	0.0	0.40613	0	C|0.979;T|0.021	0.021	strong	.	FAM114A1	42	.	NM_138389	exon12	c.C1337T	p.S446L	ACATGTCGTCCAT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179614059	179614059	+	Silent	SNP	T	T	C	rs16866490	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	29.0	74.0	0.0	0.5	0	T|0.991;C|0.009	0.009	strong	.	TTN	18412	.	NM_133379	exon46	c.A13068G	p.Q4356Q	CTGACATTGTATG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11532787	11532787	+	Silent	SNP	C	C	T	rs73290804	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	78.0	132.0	0.0	0.490566	0	C|0.978;T|0.022	0.022	strong	.	DNAH9	695	.	NM_001372	exon7	c.C1404T	p.S468S	GTTCAGCGGCGTC	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188392	140188392	+	Silent	SNP	C	C	G	rs7707144	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	29.0	83.0	0.0	0.315217	0	C|0.937;G|0.063	0.063	strong	PCDHA4_ENST00000530339,NS,carcinoma,0,2	PCDHA4	419	2	NM_031500	exon1	c.C1620G	p.A540A	CGATGCCGGCGTG	.	PASS	Atlas-SNP
ZNF276	92822	hgsc.bcm.edu	37	16	89790020	89790020	+	Silent	SNP	C	C	T	rs34629175	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	66.0	107.0	0.0	0.536585	0	C|0.976;T|0.024	0.024	strong	.	ZNF276	70	.	NM_001113525	exon4	c.C909T	p.P303P	CCTGCCCAGCACG	.	PASS	Atlas-SNP
ST7L	54879	hgsc.bcm.edu	37	1	113153536	113153536	+	Silent	SNP	T	T	C	rs35364712	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	268.0	134.0	254.0	0.0	0.5	0	T|0.984;C|0.016	0.016	strong	.	ST7L	31	.	NM_138729	exon3	c.A378G	p.T126T	GCTCTCTGTTCCT	.	PASS	Atlas-SNP
DGKI	9162	hgsc.bcm.edu	37	7	137150665	137150665	+	Silent	SNP	T	T	C	rs35245703	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	28.0	92.0	0.0	0.368421	0	T|0.910;C|0.090	0.090	strong	.	DGKI	335	.	NM_004717	exon27	c.A2625G	p.E875E	GGCTTGTTCCACC	.	PASS	Atlas-SNP
HAO1	54363	hgsc.bcm.edu	37	20	7920986	7920986	+	Silent	SNP	C	C	T	rs33931524	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	53.0	100.0	0.0	0.540816	0	C|0.966;T|0.034	0.034	strong	.	HAO1	71	.	NM_017545	exon1	c.G84A	p.R28R	CCCAGACCTGTAA	.	PASS	Atlas-SNP
DCAF8L2	347442	hgsc.bcm.edu	37	X	27765405	27765405	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	7.0	45.0	0.0	0.125	0	.	.	none	.	DCAF8L2	79	.	NM_001136533	exon1	c.G393A	p.E131E	AGAGGAGGAGGAG	.	PASS	Atlas-SNP
EFCAB3	146779	hgsc.bcm.edu	37	17	60451185	60451185	+	Missense_Mutation	SNP	G	G	C	rs6504103	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	71.0	145.0	0.0	0.489655	0	G|0.983;C|0.017	0.017	strong	.	EFCAB3	71	.	NM_001144933	exon2	c.G45C	p.K15N	TGGAAAGATTAAT	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128381861	128381861	+	Missense_Mutation	SNP	G	G	A	rs61743523	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	40.0	69.0	0.0	0.540541	0	G|0.993;A|0.007	0.007	strong	.	MYO7B	359	.	NM_001080527	exon29	c.G3935A	p.R1312Q	TCCTCCGAGGAGT	.	PASS	Atlas-SNP
STK40	83931	hgsc.bcm.edu	37	1	36820015	36820015	+	Silent	SNP	T	T	C	rs115120808	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	81.0	184.0	0.0	0.468208	0	T|0.990;C|0.010	0.010	strong	.	STK40	53	.	NM_032017	exon7	c.A573G	p.K191K	GATATTTTTCTGT	.	PASS	Atlas-SNP
SSBP4	170463	hgsc.bcm.edu	37	19	18542201	18542201	+	Silent	SNP	C	C	T	rs113198578	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	425.0	236.0	367.0	0.0	0.555294	0	C|0.976;T|0.024	0.024	strong	SSBP4,NS,neuroblastoma,0,1	SSBP4	19	1	NM_032627	exon6	c.C408T	p.N136N	CCCCAACGCCCCC	.	PASS	Atlas-SNP
GLRA4	441509	hgsc.bcm.edu	37	X	102979184	102979184	+	Missense_Mutation	SNP	G	G	A	rs16984014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	98.0	144.0	0.0	0.653333	0	0|0.009;A|0.067	0.067	strong	.	GLRA4	86	.	NM_001024452	exon4	c.C316T	p.R106C	ACAGGCGTGGGTC	.	PASS	Atlas-SNP
LAMB1	3912	hgsc.bcm.edu	37	7	107591720	107591720	+	Silent	SNP	G	G	A	rs25660	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	150.0	152.0	0.0	1	0	G|0.957;A|0.043	0.043	strong	.	LAMB1	185	.	NM_002291	exon24	c.C3342T	p.C1114C	CTCGCTGCAGGTG	.	PASS	Atlas-SNP
CRB2	286204	hgsc.bcm.edu	37	9	126133252	126133252	+	Silent	SNP	C	C	T	rs55965026	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	33.0	59.0	0.0	0.647059	0	C|0.962;T|0.038	0.038	strong	.	CRB2	86	.	NM_173689	exon7	c.C1920T	p.C640C	CACGTGCGCTGAT	.	PASS	Atlas-SNP
SYNE4	163183	hgsc.bcm.edu	37	19	36497747	36497747	+	Missense_Mutation	SNP	C	C	G	rs77925409	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	36.0	81.0	0.0	0.423529	0	C|0.979;G|0.021	0.021	strong	.	.	.	.	NM_001039876	exon4	c.G523C	p.A175P	CCAGGGCTGCCCA	.	PASS	Atlas-SNP
PCYOX1	51449	hgsc.bcm.edu	37	2	70503954	70503954	+	Silent	SNP	G	G	T	rs36012096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	199.0	89.0	197.0	0.0	0.447236	0	G|0.926;T|0.074	0.074	strong	.	PCYOX1	34	.	NM_016297	exon6	c.G948T	p.P316P	CACTCCGTTGAAT	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4308360	4308360	+	Missense_Mutation	SNP	C	C	T	rs11981816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	72.0	153.0	0.0	0.486486	0	C|0.967;T|0.033	0.033	strong	.	SDK1	361	.	NM_001079653	exon20	c.C2018T	p.P673L	TGGCTCCCCGTGG	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110408347	110408347	+	Silent	SNP	C	C	T	rs6469258	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	25.0	61.0	0.0	0.510204	0	C|0.975;T|0.025	0.025	strong	PKHD1L1,NS,carcinoma,+2,1	PKHD1L1	522	1	NM_177531	exon11	c.C903T	p.P301P	TTTCCCCGTCAGA	.	PASS	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	37	3	130287096	130287096	+	Silent	SNP	C	C	T	rs61730501	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	126.0	243.0	0.0	0.510121	0	C|0.993;T|0.007	0.007	strong	.	COL6A6	497	.	NM_001102608	exon5	c.C2049T	p.S683S	CCAAAGCGACATT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179401015	179401015	+	Missense_Mutation	SNP	G	G	A	rs72629779	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	85.0	178.0	0.0	0.47486	0	G|0.990;A|0.010	0.010	strong	.	TTN	18412	.	NM_001267550	exon357	c.C100459T	p.P33487S	ATTTGGGAGTGAT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536047	1536047	+	Missense_Mutation	SNP	T	T	C	rs59554810	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	23.0	56.0	0.0	0.5	0	T|0.942;C|0.058	0.058	strong	.	PTX4	46	.	NM_001013658	exon3	c.A1315G	p.I439V	TCCCGATGGCAAG	.	PASS	Atlas-SNP
SLC27A3	11000	hgsc.bcm.edu	37	1	153750650	153750650	+	Missense_Mutation	SNP	G	G	A	rs35102232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	16.0	37.0	0.0	0.444444	0	G|0.979;A|0.021	0.021	strong	.	SLC27A3	42	.	NM_024330	exon5	c.G1316A	p.R439H	CAGAACGTGGCCA	.	PASS	Atlas-SNP
NUBP2	10101	hgsc.bcm.edu	37	16	1838050	1838050	+	Missense_Mutation	SNP	A	A	G	rs57822546	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	36.0	78.0	0.0	0.45	0	A|0.895;G|0.105	0.105	strong	.	NUBP2	25	.	NM_012225	exon5	c.A598G	p.T200A	CACTGCACGGTGA	.	PASS	Atlas-SNP
ADRA2A	150	hgsc.bcm.edu	37	10	112838135	112838135	+	Silent	SNP	C	C	G	rs142434876	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	97.0	145.0	0.0	0.563953	0	C|0.998;G|0.002	0.002	strong	.	ADRA2A	38	.	NM_000681	exon1	c.C381G	p.L127L	GGCGCTCGACGTG	.	PASS	Atlas-SNP
MAPKAP1	79109	hgsc.bcm.edu	37	9	128206855	128206855	+	Silent	SNP	C	C	T	rs35549826	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	67.0	112.0	1.0	0.403614	0.00892857	C|0.994;T|0.006	0.006	strong	MAPKAP1_ENST00000265960,NS,carcinoma,-1,4	MAPKAP1	68	4	NM_001006617	exon11	c.G1368A	p.T456T	TAGATACGTGAGT	.	scavenged	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	37	9	136577770	136577770	+	Silent	SNP	C	C	T	rs147188337	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	42.0	59.0	0.0	0.724138	0	C|0.996;T|0.004	0.004	strong	.	SARDH	112	.	NM_007101	exon10	c.G1299A	p.P433P	CTTCTCCGGGCGC	.	PASS	Atlas-SNP
FAM83G	644815	hgsc.bcm.edu	37	17	18881225	18881225	+	Missense_Mutation	SNP	T	T	A	rs200348726	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	35.0	54.0	0.0	0.59322	0	T|1.000;A|0.000	0.000	strong	.	FAM83G	51	.	NM_001039999	exon5	c.A1754T	p.D585V	TAGTCGTCATCAT	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105417738	105417738	+	Silent	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	265.0	107.0	371.0	0.0	0.403774	0	.	.	none	.	AHNAK2	719	.	NM_138420	exon7	c.C4050G	p.S1350S	GTCCACGGAGGCC	.	PASS	Atlas-SNP
HIST1H2BH	8345	hgsc.bcm.edu	37	6	26252148	26252148	+	Silent	SNP	C	C	T	rs61746493	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	91.0	136.0	0.0	0.532164	0	C|0.968;T|0.032	0.032	strong	.	HIST1H2BH	36	.	NM_003524	exon1	c.C270T	p.I90I	GACCATCACCTCC	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39915677	39915677	+	Missense_Mutation	SNP	G	G	A	rs34603507	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	17.0	27.0	0.0	0.653846	0	G|0.970;A|0.030	0.030	strong	.	PLEKHG2	329	.	NM_022835	exon19	c.G3904A	p.A1302T	GCCCCCGCAGCCT	.	PASS	Atlas-SNP
TATDN3	128387	hgsc.bcm.edu	37	1	212969889	212969889	+	Missense_Mutation	SNP	G	G	A	rs55709122	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	52.0	78.0	0.0	0.525253	0	G|0.997;A|0.003	0.003	strong	.	TATDN3	23	.	NM_001146170	exon3	c.G130A	p.E44K	GTTGCCGAACATT	.	PASS	Atlas-SNP
ULK1	8408	hgsc.bcm.edu	37	12	132404101	132404101	+	Silent	SNP	C	C	T	rs143340589	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	28.0	102.0	0.0	0.363636	0	C|0.998;T|0.002	0.002	strong	.	ULK1	92	.	NM_003565	exon25	c.C2769T	p.A923A	CCGGGCCGGCAAG	.	PASS	Atlas-SNP
FAM179B	23116	hgsc.bcm.edu	37	14	45473265	45473265	+	Silent	SNP	G	G	A	rs17092470	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	16.0	27.0	0.0	0.432432	0	G|0.948;A|0.052	0.052	strong	.	FAM179B	115	.	NM_015091	exon4	c.G2340A	p.V780V	TACAGTGTATGCT	.	PASS	Atlas-SNP
GPR17	2840	hgsc.bcm.edu	37	2	128408747	128408747	+	Silent	SNP	C	C	A	rs34722685	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	44.0	84.0	0.0	0.5	0	C|0.985;A|0.015	0.015	strong	.	GPR17	56	.	NM_005291	exon3	c.C522A	p.L174L	GCCCCTCTACGCA	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122396424	122396424	+	Silent	SNP	C	C	A	rs73415652	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	68.0	119.0	0.0	0.552846	0	C|0.963;A|0.037	0.037	strong	.	WDR66	143	.	NM_001178003	exon12	c.C1977A	p.P659P	CAACCCCGAAGGT	.	PASS	Atlas-SNP
ZFP36	7538	hgsc.bcm.edu	37	19	39898521	39898521	+	Missense_Mutation	SNP	C	C	T	rs2229272	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	32.0	18.0	25.0	0.0	0.5625	0	C|0.998;T|0.002	0.002	strong	.	ZFP36	19	.	NM_003407	exon2	c.C181T	p.P61S	CGCCTGCCTGGCC	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	37	1	243328226	243328226	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	616.0	236.0	527.0	0.0	0.383117	0	.	.	none	.	CEP170	153	.	NM_014812	exon13	c.T3036C	p.S1012S	TCTCCCACTGGAC	.	PASS	Atlas-SNP
LRRC55	219527	hgsc.bcm.edu	37	11	56949529	56949529	+	Silent	SNP	C	C	T	rs80306837	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	66.0	185.0	0.0	0.464789	0	C|0.952;T|0.048	0.048	strong	.	LRRC55	52	.	NM_001005210	exon1	c.C162T	p.P54P	CTGGCCCGGGCCA	.	PASS	Atlas-SNP
S1PR1	1901	hgsc.bcm.edu	37	1	101704772	101704772	+	Silent	SNP	C	C	A	rs150493209	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	62.0	164.0	0.0	0.446043	0	C|1.000;A|0.000	0.000	strong	.	S1PR1	87	.	NM_001400	exon2	c.C232A	p.R78R	TTCCACCGACCCA	.	PASS	Atlas-SNP
ZBED2	79413	hgsc.bcm.edu	37	3	111312965	111312965	+	Silent	SNP	A	A	T	rs34083626	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	304.0	136.0	265.0	1.0	0.447368	0.00377358	A|0.950;T|0.050	0.050	strong	.	ZBED2	22	.	NM_024508	exon2	c.T84A	p.I28I	CTCACTAATCTCT	.	PASS	Atlas-SNP
ZKSCAN2	342357	hgsc.bcm.edu	37	16	25266547	25266547	+	Missense_Mutation	SNP	C	C	A	rs113273135	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	58.0	92.0	0.0	0.574257	0	C|0.991;A|0.009	0.009	strong	ZKSCAN2,NS,carcinoma,-1,1	ZKSCAN2	90	1	NM_001012981	exon2	c.G566T	p.R189L	GGCCGACGTTCTC	.	PASS	Atlas-SNP
ITGA4	3676	hgsc.bcm.edu	37	2	182376480	182376480	+	Missense_Mutation	SNP	T	T	A	rs35322532	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	149.0	192.0	0.0	1	0	T|0.987;A|0.013	0.013	strong	.	ITGA4	142	.	NM_000885	exon17	c.T1900A	p.S634T	CAGGTTTCTGCAA	.	PASS	Atlas-SNP
DIABLO	56616	hgsc.bcm.edu	37	12	122692958	122692958	+	Silent	SNP	C	C	T	rs35426428	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	168.0	130.0	1.0	1	0.00769231	C|0.906;T|0.094	0.094	strong	DIABLO,NS,carcinoma,-2,1	DIABLO	16	1	NM_019887	exon7	c.G690A	p.S230S	CTGCTCCGACTCA	.	PASS	Atlas-SNP
SMCO2	0	hgsc.bcm.edu	37	12	27628521	27628521	+	Silent	SNP	G	G	C	rs77197438	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	30.0	65.0	0.0	0.483871	0	G|0.993;C|0.007	0.007	strong	.	.	.	.	NM_001145010	exon5	c.G369C	p.L123L	GTGTCTGAAGGGC	.	PASS	Atlas-SNP
SLURP1	57152	hgsc.bcm.edu	37	8	143822612	143822612	+	Silent	SNP	G	G	A	rs62636564	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	41.0	74.0	0.0	0.518987	0	G|0.979;A|0.021	0.021	strong	.	SLURP1	16	.	NM_020427	exon3	c.C261T	p.A87A	GTGGGCGGCCCCG	.	PASS	Atlas-SNP
MRC2	9902	hgsc.bcm.edu	37	17	60767303	60767303	+	Missense_Mutation	SNP	G	G	A	rs77299955	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	38.0	75.0	0.0	0.452381	0	G|0.991;A|0.009	0.009	strong	.	MRC2	126	.	NM_006039	exon25	c.G3622A	p.G1208S	TACGTGGGCTGGC	.	PASS	Atlas-SNP
PGLYRP2	114770	hgsc.bcm.edu	37	19	15587103	15587103	+	Silent	SNP	C	C	T	rs35973013	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	76.0	125.0	0.0	0.558824	0	C|0.981;T|0.019	0.019	strong	.	PGLYRP2	116	.	NM_052890	exon2	c.G378A	p.A126A	CAGCCCCGCCAGC	.	PASS	Atlas-SNP
ZNF678	339500	hgsc.bcm.edu	37	1	227842561	227842561	+	Missense_Mutation	SNP	A	A	G	rs116552491	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	23.0	49.0	0.0	0.5	0	A|0.996;G|0.004	0.004	strong	.	ZNF678	137	.	NM_178549	exon4	c.A775G	p.S259G	ATTCATAGTGGAG	.	PASS	Atlas-SNP
C7orf71	285941	hgsc.bcm.edu	37	7	26678910	26678910	+	Silent	SNP	C	C	T	rs111516571	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	20.0	38.0	0.0	0.952381	0	C|0.925;T|0.075	0.075	strong	.	C7orf71	6	.	NM_001145531	exon2	c.C147T	p.L49L	GGGCCTCGGGGAA	.	PASS	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117848368	117848368	+	Missense_Mutation	SNP	C	C	T	rs61729478	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	108.0	181.0	0.0	0.654545	0	C|0.990;T|0.010	0.010	strong	.	TNC	282	.	NM_002160	exon3	c.G1642A	p.V548M	GGCACACGCACTG	.	PASS	Atlas-SNP
C17orf50	146853	hgsc.bcm.edu	37	17	34091130	34091130	+	Missense_Mutation	SNP	C	C	A	rs140052043	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	34.0	71.0	0.0	0.447368	0	C|0.993;A|0.007	0.007	strong	.	C17orf50	4	.	NM_145272	exon2	c.C118A	p.Q40K	GACAACCAGAGGC	.	PASS	Atlas-SNP
TNS3	64759	hgsc.bcm.edu	37	7	47343079	47343079	+	Missense_Mutation	SNP	A	A	G	rs61731305	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	55.0	73.0	0.0	0.585106	0	A|0.989;G|0.011	0.011	strong	.	TNS3	140	.	NM_022748	exon22	c.T2926C	p.S976P	TACCGGAGAACTC	.	PASS	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	37	5	140573759	140573759	+	Missense_Mutation	SNP	C	C	T	rs17844584	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	68.0	147.0	1.0	0.468966	0.00680272	C|0.993;T|0.007	0.007	strong	PCDHB10,colon,carcinoma,0,1	PCDHB10	177	1	NM_018930	exon1	c.C1634T	p.A545V	GAGAGGCGCTGGT	.	scavenged	Atlas-SNP
TIGD7	91151	hgsc.bcm.edu	37	16	3349300	3349300	+	Missense_Mutation	SNP	C	C	G	rs151295470	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	300.0	142.0	264.0	0.0	0.473333	0	C|1.000;G|0.000	0.000	weak	.	TIGD7	41	.	NM_033208	exon2	c.G1315C	p.V439L	ACCACACCCTATC	.	PASS	Atlas-SNP
WDR26	80232	hgsc.bcm.edu	37	1	224607296	224607296	+	Silent	SNP	T	T	C	rs142827296	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	46.0	77.0	0.0	0.46	0	T|0.999;C|0.001	0.001	strong	WDR26_ENST00000414423,NS,carcinoma,0,2	WDR26	104	2	NM_025160	exon5	c.A786G	p.A262A	GTCTTCTGCATGG	.	PASS	Atlas-SNP
SCAF1	58506	hgsc.bcm.edu	37	19	50157980	50157980	+	Silent	SNP	G	G	A	rs61741228	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	29.0	53.0	0.0	0.439394	0	G|0.993;A|0.007	0.007	strong	.	SCAF1	78	.	NM_021228	exon9	c.G3471A	p.L1157L	GGGTCTGCCCCCT	.	PASS	Atlas-SNP
PINK1	65018	hgsc.bcm.edu	37	1	20975047	20975047	+	Silent	SNP	T	T	C	rs45499398	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	52.0	81.0	0.0	0.514852	0	T|0.989;C|0.011	0.011	strong	.	PINK1	37	.	NM_032409	exon6	c.T1173C	p.D391D	GGCTGATGAGAGC	.	PASS	Atlas-SNP
FAM101A	144347	hgsc.bcm.edu	37	12	124798797	124798797	+	Missense_Mutation	SNP	C	C	T	rs116090335	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	80.0	114.0	0.0	0.555556	0	C|0.998;T|0.002	0.002	strong	.	FAM101A	10	.	NM_181709	exon3	c.C134T	p.A45V	TCTATGCGCCCGT	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238243369	238243369	+	Silent	SNP	G	G	A	rs10201909	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	72.0	128.0	1.0	0.483221	0.0078125	G|0.933;A|0.067	0.067	strong	COL6A3,colon,carcinoma,-1,2	COL6A3	608	2	NM_004369	exon41	c.C9129T	p.R3043R	AATGACGCGGTCC	.	scavenged	Atlas-SNP
CYLC1	1538	hgsc.bcm.edu	37	X	83128911	83128911	+	Missense_Mutation	SNP	G	G	C	rs12008888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	44.0	106.0	0.0	0.483516	0	0|0.017;C|0.055	0.055	strong	.	CYLC1	272	.	NM_021118	exon4	c.G1195C	p.D399H	AAAAAGGATGCAA	.	PASS	Atlas-SNP
SCML4	256380	hgsc.bcm.edu	37	6	108029133	108029133	+	Silent	SNP	C	C	T	rs61742583	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	78.0	138.0	0.0	0.45614	0	C|0.991;T|0.009	0.009	strong	.	SCML4	65	.	NM_198081	exon7	c.G1056A	p.V352V	AAACCACACCACG	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305760	39305760	+	Missense_Mutation	SNP	C	C	T	rs427961		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	44.0	150.0	0.0	0.488889	0	T|1.000;|0.000	1.000	weak	.	KRTAP4-5	34	.	NM_033188	exon1	c.G260A	p.R87K	GTGGTCCTGCAGC	.	PASS	Atlas-SNP
FAM71E2	284418	hgsc.bcm.edu	37	19	55870319	55870319	+	Silent	SNP	C	C	T	rs143731075	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	30.0	83.0	0.0	0.454545	0	C|0.983;T|0.017	0.017	strong	.	FAM71E2	41	.	NM_001145402	exon9	c.G1917A	p.Q639Q	CTTCCCCTGGCCC	.	PASS	Atlas-SNP
SCARF1	8578	hgsc.bcm.edu	37	17	1538561	1538561	+	Missense_Mutation	SNP	G	G	A	rs8072430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	25.0	53.0	0.0	0.367647	0	G|0.979;A|0.021	0.021	strong	.	SCARF1	46	.	NM_003693	exon11	c.C1984T	p.R662W	GGGGCCGCCGGTG	.	PASS	Atlas-SNP
PRKG1	5592	hgsc.bcm.edu	37	10	53822344	53822344	+	Silent	SNP	T	T	C	rs113994747	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	68.0	121.0	0.0	0.571429	0	T|0.976;C|0.024	0.024	strong	.	PRKG1	167	.	NM_006258	exon7	c.T888C	p.L296L	CTTTCTTAGAACT	.	PASS	Atlas-SNP
ESYT3	83850	hgsc.bcm.edu	37	3	138176436	138176436	+	Silent	SNP	A	A	G	rs35605373	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	75.0	130.0	0.0	0.487013	0	A|0.975;G|0.025	0.025	strong	.	ESYT3	64	.	NM_031913	exon4	c.A531G	p.A177A	CAAGGCACACACT	.	PASS	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	37	19	12807187	12807187	+	Missense_Mutation	SNP	C	C	T	rs6511833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	33.0	44.0	0.0	0.478261	0	C|0.880;T|0.120	0.120	strong	.	FBXW9	30	.	NM_032301	exon1	c.G209A	p.R70K	GAAACCCTGGACG	.	PASS	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162910136	162910136	+	Missense_Mutation	SNP	A	A	G	rs112257004	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	53.0	121.0	0.0	0.414062	0	A|0.990;G|0.010	0.010	strong	.	HMMR	64	.	NM_001142556	exon14	c.A1643G	p.Q548R	AGCAACAGGAGGA	.	PASS	Atlas-SNP
MMP15	4324	hgsc.bcm.edu	37	16	58079268	58079268	+	Missense_Mutation	SNP	C	C	T	rs141377329	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	51.0	77.0	0.0	0.566667	0	C|0.997;T|0.003	0.003	strong	.	MMP15	58	.	NM_002428	exon10	c.C1928T	p.T643I	GCCTCACCTACGC	.	PASS	Atlas-SNP
INPP5B	3633	hgsc.bcm.edu	37	1	38411444	38411444	+	Missense_Mutation	SNP	C	C	T	rs56993041	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	118.0	191.0	1.0	0.548837	0.0052356	C|0.978;T|0.022	0.022	strong	.	INPP5B	76	.	NM_005540	exon3	c.G136A	p.G46S	GGCCGCCGTGCTC	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32023903	32023903	+	Missense_Mutation	SNP	G	G	C	rs440160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	63.0	101.0	0.0	0.5	0	G|0.931;C|0.069	0.069	strong	.	TNXB	553	.	NM_019105	exon24	c.C8192G	p.P2731R	GGCTCCGGGGCCT	.	PASS	Atlas-SNP
ZNF668	79759	hgsc.bcm.edu	37	16	31075364	31075364	+	Silent	SNP	G	G	A	rs34889904	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	29.0	38.0	0.0	0.483333	0	G|0.990;A|0.010	0.010	strong	.	ZNF668	121	.	NM_001172669	exon3	c.C486T	p.P162P	GCGGAAGGGCAGT	.	PASS	Atlas-SNP
CEP135	9662	hgsc.bcm.edu	37	4	56837458	56837458	+	Missense_Mutation	SNP	A	A	G	rs141602415	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	57.0	141.0	0.0	0.467213	0	A|0.998;G|0.002	0.002	strong	CEP135,NS,carcinoma,+1,1	CEP135	115	1	NM_025009	exon10	c.A1133G	p.E378G	AGAAAGAAAAGGA	.	PASS	Atlas-SNP
POF1B	79983	hgsc.bcm.edu	37	X	84600948	84600948	+	Missense_Mutation	SNP	T	T	C	rs60768249	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	106.0	228.0	0.0	0.524752	0	T|0.958;C|0.042	0.042	strong	.	POF1B	77	.	NM_024921	exon6	c.A641G	p.Q214R	ATGGCTTGGATTT	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144991428	144991428	+	Silent	SNP	G	G	A	rs11998271	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	22.0	40.0	0.0	0.52381	0	G|0.957;A|0.043	0.043	strong	.	PLEC	1144	.	NM_201380	exon32	c.C12972T	p.D4324D	CACGCCGTCCGAG	.	PASS	Atlas-SNP
SEMA5B	54437	hgsc.bcm.edu	37	3	122634665	122634665	+	Missense_Mutation	SNP	G	G	C	rs34037493	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	280.0	144.0	255.0	0.0	0.514286	0	G|0.970;C|0.030	0.030	strong	.	SEMA5B	303	.	NM_001256347	exon13	c.C1923G	p.D641E	GGAGCTGTCCTCG	.	PASS	Atlas-SNP
GNA13	10672	hgsc.bcm.edu	37	17	63049709	63049709	+	Missense_Mutation	SNP	C	C	T	rs116700192	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	102.0	104.0	0.0	0.971429	0	C|0.988;T|0.012	0.012	strong	.	GNA13	69	.	NM_006572	exon2	c.G421A	p.V141I	AGAAAACCCTTGT	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19403331	19403331	+	Silent	SNP	G	G	A	rs142064832	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	88.0	195.0	0.0	0.455959	0	G|0.999;A|0.001	0.001	strong	.	UBR4	415	.	NM_020765	exon105	c.C15390T	p.N5130N	CATGTCGTTGTGG	.	PASS	Atlas-SNP
TPRX1	284355	hgsc.bcm.edu	37	19	48305731	48305731	+	Silent	SNP	G	G	T	rs79291962	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	60.0	111.0	0.0	0.465116	0	G|0.993;T|0.007	0.007	strong	.	TPRX1	46	.	NM_198479	exon2	c.C537A	p.I179I	GCCTGGGATCGGG	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229772285	229772285	+	Missense_Mutation	SNP	C	C	T	rs115230066	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	253.0	130.0	215.0	0.0	0.513834	0	C|0.999;T|0.001	0.001	strong	.	URB2	152	.	NM_014777	exon4	c.C1925T	p.S642L	AGATCTCGAACCT	.	PASS	Atlas-SNP
PADI2	11240	hgsc.bcm.edu	37	1	17413127	17413127	+	Silent	SNP	G	G	A	rs35184728	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	62.0	84.0	0.0	0.563636	0	G|0.976;A|0.024	0.024	strong	PADI2,NS,malignant_melanoma,-1,1	PADI2	72	1	NM_007365	exon7	c.C723T	p.Y241Y	ACCCGTGTACTTG	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4458536	4458536	+	Silent	SNP	T	T	C	rs144321472	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	39.0	59.0	0.0	0.609375	0	T|0.995;C|0.005	0.005	strong	.	MYBBP1A	69	.	NM_014520	exon1	c.A84G	p.L28L	CTTCAATAGGCCA	.	PASS	Atlas-SNP
TCEB3	6924	hgsc.bcm.edu	37	1	24078234	24078234	+	Missense_Mutation	SNP	T	T	C	rs34394004	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	36.0	63.0	0.0	0.486486	0	T|0.935;C|0.065	0.065	strong	.	TCEB3	61	.	NM_003198	exon4	c.T1217C	p.L406S	CTAATTTGGATAG	.	PASS	Atlas-SNP
KLF4	9314	hgsc.bcm.edu	37	9	110249415	110249415	+	Silent	SNP	T	T	C	rs45596731	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	269.0	171.0	270.0	1.0	0.635688	0.0037037	T|0.996;C|0.004	0.004	strong	.	KLF4	106	.	NM_004235	exon4	c.A1158G	p.R386R	CCACGATCGTCTT	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	70841703	70841703	+	Missense_Mutation	SNP	A	A	G	rs116730273	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	310.0	142.0	273.0	0.0	0.458065	0	A|0.994;G|0.006	0.006	strong	.	HYDIN	788	.	NM_001270974	exon86	c.T15146C	p.M5049T	GTCACCATGTGAT	.	PASS	Atlas-SNP
CLTCL1	8218	hgsc.bcm.edu	37	22	19178854	19178854	+	Missense_Mutation	SNP	G	G	A	rs190366603	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	51.0	91.0	0.0	0.579545	0	G|0.999;A|0.001	0.001	strong	CLTCL1,NS,carcinoma,0,1	CLTCL1	115	1	NM_001835	exon27	c.C4285T	p.R1429W	CCAGCCGGGGTGA	.	PASS	Atlas-SNP
SLC25A13	10165	hgsc.bcm.edu	37	7	95820500	95820500	+	Silent	SNP	C	C	T	rs78247004	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	34.0	77.0	0.0	0.507463	0	C|0.985;T|0.015	0.015	strong	SLC25A13,NS,carcinoma,-1,2	SLC25A13	131	2	NM_001160210	exon7	c.G675A	p.S225S	AAGGAGCGAATTA	.	PASS	Atlas-SNP
NFRKB	4798	hgsc.bcm.edu	37	11	129752426	129752426	+	Silent	SNP	G	G	A	rs76967949	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	51.0	89.0	0.0	0.6	0	G|0.985;A|0.015	0.015	strong	.	NFRKB	101	.	NM_006165	exon8	c.C1077T	p.A359A	CGGCTCGGCCAGG	.	PASS	Atlas-SNP
RAB25	57111	hgsc.bcm.edu	37	1	156039960	156039960	+	Missense_Mutation	SNP	C	C	T	rs115837676	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	317.0	157.0	331.0	1.0	0.495268	0.00302115	C|0.996;T|0.004	0.004	strong	RAB25,NS,carcinoma,-1,1	RAB25	18	1	NM_020387	exon5	c.C524T	p.A175V	TCTTTGCGAAGGT	.	PASS	Atlas-SNP
GRAMD3	65983	hgsc.bcm.edu	37	5	125696127	125696127	+	Missense_Mutation	SNP	A	A	G	rs78682130	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	80.0	181.0	0.0	0.380952	0	A|0.975;G|0.025	0.025	strong	.	GRAMD3	30	.	NM_001146319	exon1	c.A104G	p.K35R	AAGTGAAGCCAGT	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160087410	160087410	+	Missense_Mutation	SNP	C	C	T	rs77049231	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	94.0	193.0	0.0	0.569697	0	C|0.980;T|0.020	0.020	strong	.	TANC1	157	.	NM_033394	exon27	c.C5473T	p.H1825Y	GTTTCTCATCTGT	.	PASS	Atlas-SNP
CCDC142	84865	hgsc.bcm.edu	37	2	74708453	74708453	+	Silent	SNP	A	A	T	rs115125840	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	56.0	173.0	0.0	0.388889	0	A|0.997;T|0.003	0.003	strong	.	CCDC142	40	.	NM_032779	exon3	c.T1155A	p.L385L	TGTGGGAAGGCTG	.	PASS	Atlas-SNP
DDX47	51202	hgsc.bcm.edu	37	12	12980305	12980305	+	Missense_Mutation	SNP	G	G	A	rs373273540		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	73.0	118.0	0.0	0.62931	0	.	.	weak	DDX47,colon,carcinoma,+1,1	DDX47	37	1	NM_016355	exon11	c.G1232A	p.R411Q	TTGCCCGAATGGT	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50406646	50406646	+	Silent	SNP	A	A	G	rs143601538	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	302.0	158.0	323.0	0.0	0.523179	0	A|0.999;G|0.001	0.001	strong	.	SALL4	168	.	NM_020436	exon2	c.T2376C	p.N792N	TTGACTATTGGCC	.	PASS	Atlas-SNP
NXPE1	120400	hgsc.bcm.edu	37	11	114393066	114393066	+	Missense_Mutation	SNP	A	A	G	rs34993124	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	74.0	172.0	0.0	0.459627	0	A|0.982;G|0.018	0.018	strong	.	NXPE1	8	.	NM_152315	exon6	c.T842C	p.I281T	CGGTCAATTTCCC	.	PASS	Atlas-SNP
SMC2	10592	hgsc.bcm.edu	37	9	106901506	106901506	+	Silent	SNP	A	A	G	rs16923746	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	66.0	177.0	0.0	0.340206	0	A|0.935;G|0.065	0.065	strong	.	SMC2	127	.	NM_006444	exon25	c.A3504G	p.V1168V	TACAGTAGCCAGA	.	PASS	Atlas-SNP
ZCCHC9	84240	hgsc.bcm.edu	37	5	80604427	80604427	+	Silent	SNP	C	C	T	rs149561750	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	78.0	187.0	1.0	0.433333	0.00534759	C|0.998;T|0.002	0.002	strong	ZCCHC9,bladder,carcinoma,0,1	ZCCHC9	26	1	NM_001131036	exon3	c.C432T	p.P144P	TTGCCCCGCCGCC	.	scavenged	Atlas-SNP
CDKN1A	1026	hgsc.bcm.edu	37	6	36652135	36652135	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	23.0	41.0	0.0	0.425926	0	.	.	none	CDKN1A,NS,carcinoma,+1,1	CDKN1A	27	1	NM_001220778	exon2	c.G257A	p.R86Q	GAGGCCGGGATGA	.	PASS	Atlas-SNP
GALNT4	8693	hgsc.bcm.edu	37	12	89916781	89916781	+	Missense_Mutation	SNP	G	G	T	rs139995124	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	46.0	82.0	0.0	0.547619	0	G|0.996;T|0.004	0.004	strong	.	GALNT4	38	.	NM_003774	exon1	c.C1546A	p.Q516K	AATTTTGCATTCC	.	PASS	Atlas-SNP
PTGIR	5739	hgsc.bcm.edu	37	19	47124579	47124579	+	Silent	SNP	C	C	T	rs2229130	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	62.0	136.0	0.0	0.5	0	C|0.984;T|0.016	0.016	strong	.	PTGIR	31	.	NM_000960	exon3	c.G1119A	p.T373T	GGACGACGTTCCC	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128381717	128381717	+	Missense_Mutation	SNP	G	G	A	rs2245408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	51.0	78.0	0.0	0.566667	0	G|0.990;A|0.010	0.010	strong	.	MYO7B	359	.	NM_001080527	exon29	c.G3791A	p.R1264Q	TCGCCCGGTGTGA	.	PASS	Atlas-SNP
PTCRA	171558	hgsc.bcm.edu	37	6	42893328	42893328	+	Missense_Mutation	SNP	T	T	C	rs115331994	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	50.0	62.0	0.0	0.588235	0	T|0.994;C|0.006	0.006	strong	.	PTCRA	24	.	NM_001243168	exon4	c.T799C	p.C267R	GCCTGGTGCTCAA	.	PASS	Atlas-SNP
SEMA3D	223117	hgsc.bcm.edu	37	7	84697540	84697540	+	Missense_Mutation	SNP	C	C	T	rs148351346	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	46.0	99.0	0.0	0.469388	0	C|0.999;T|0.001	0.001	strong	.	SEMA3D	177	.	NM_152754	exon5	c.G556A	p.D186N	GAGGATCGAAAGG	.	PASS	Atlas-SNP
SOWAHD	347454	hgsc.bcm.edu	37	X	118893390	118893390	+	Missense_Mutation	SNP	A	A	G	rs12841259	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	59.0	100.0	0.0	0.608247	0	A|0.958;G|0.042	0.042	strong	.	.	.	.	NM_001105576	exon1	c.A760G	p.T254A	GGGTGCACCAACC	.	PASS	Atlas-SNP
HECA	51696	hgsc.bcm.edu	37	6	139488364	139488364	+	Silent	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	59.0	95.0	0.0	0.614583	0	.	.	none	.	HECA	45	.	NM_016217	exon2	c.C1215G	p.L405L	GGCGCTCCCGGTG	.	PASS	Atlas-SNP
TBC1D16	125058	hgsc.bcm.edu	37	17	77984168	77984168	+	Silent	SNP	G	G	A	rs35393459	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	64.0	141.0	0.0	0.571429	0	G|0.967;A|0.033	0.033	strong	.	TBC1D16	48	.	NM_019020	exon3	c.C570T	p.V190V	CGGACTGACCGTC	.	PASS	Atlas-SNP
FLII	2314	hgsc.bcm.edu	37	17	18148944	18148944	+	Silent	SNP	C	C	G	rs113208618	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	42.0	76.0	0.0	0.456522	0	C|0.964;G|0.036	0.036	strong	.	FLII	79	.	NM_002018	exon28	c.G3534C	p.V1178V	CTCAGTCACTGCA	.	PASS	Atlas-SNP
KRT79	338785	hgsc.bcm.edu	37	12	53215684	53215684	+	Missense_Mutation	SNP	G	G	A	rs73303800	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	40.0	64.0	0.0	0.547945	0	G|0.990;A|0.010	0.010	strong	.	KRT79	78	.	NM_175834	exon9	c.C1580T	p.T527M	TTGACCGTAGTGG	.	PASS	Atlas-SNP
AQP12B	653437	hgsc.bcm.edu	37	2	241622008	241622008	+	Missense_Mutation	SNP	G	G	A	rs187845451	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	245.0	98.0	165.0	0.0	0.4	0	G|0.991;A|0.009	0.009	strong	AQP12B,colon,carcinoma,+2,1	AQP12B	33	1	NM_001102467	exon1	c.C247T	p.H83Y	CCCCGTGCGCCAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506483	195506483	+	Missense_Mutation	SNP	T	T	C	rs201375109	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	6.0	72.0	0.0	0.12766	0	C|0.002;G|0.002;T|0.996	0.002	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A11968G	p.T3990A	AGGAAGTGTCGGT	.	scavenged	Atlas-SNP
NUP133	55746	hgsc.bcm.edu	37	1	229622236	229622236	+	Missense_Mutation	SNP	G	G	A	rs35442997	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	74.0	146.0	0.0	0.420455	0	G|0.990;A|0.010	0.010	strong	.	NUP133	111	.	NM_018230	exon11	c.C1382T	p.P461L	ATGATAGGAACAC	.	PASS	Atlas-SNP
AAED1	195827	hgsc.bcm.edu	37	9	99417000	99417000	+	Missense_Mutation	SNP	C	C	T	rs9886834	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	41.0	90.0	0.0	0.594203	0	C|0.901;T|0.099	0.099	strong	.	.	.	.	NM_153698	exon2	c.G248A	p.R83K	AAACTCCTGGGGA	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057766	46057766	+	Missense_Mutation	SNP	G	G	C	rs142146787	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	53.0	155.0	0.0	0.30814	0	G|1.000;C|0.000	0.000	weak	.	KRTAP10-10	37	.	NM_181688	exon1	c.G432C	p.Q144H	CCAGCAGGCCTGC	.	PASS	Atlas-SNP
GABRA4	2557	hgsc.bcm.edu	37	4	46995387	46995387	+	Missense_Mutation	SNP	C	C	T	rs16859837	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	192.0	185.0	0.0	0.989691	0	C|0.984;T|0.016	0.016	strong	.	GABRA4	129	.	NM_000809	exon1	c.G55A	p.A19T	GGAGGGCGAAACT	.	PASS	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	37	9	116811184	116811184	+	Silent	SNP	G	G	A	rs7852282	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	38.0	55.0	0.0	0.633333	0	G|0.921;A|0.079	0.079	strong	.	ZNF618	184	.	NM_133374	exon14	c.G1323A	p.K441K	GGTGAAGGTGAAA	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169469088	169469088	+	Silent	SNP	G	G	C	rs6555882	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	242.0	225.0	0.0	1	0	G|0.867;C|0.133	0.133	strong	.	DOCK2	389	.	NM_004946	exon38	c.G3828C	p.L1276L	GCAGCTGAAGGAG	.	PASS	Atlas-SNP
DUOX1	53905	hgsc.bcm.edu	37	15	45427345	45427345	+	Silent	SNP	C	C	T	rs78022423	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	95.0	170.0	0.0	0.461165	0	C|0.976;T|0.024	0.024	strong	.	DUOX1	125	.	NM_017434	exon6	c.C351T	p.G117G	TCCCGGCTGCCCC	.	PASS	Atlas-SNP
OR7G2	390882	hgsc.bcm.edu	37	19	9213396	9213396	+	Missense_Mutation	SNP	G	G	A	rs7247751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	102.0	207.0	0.0	0.472222	0	G|0.968;A|0.032	0.032	strong	OR7G2,NS,carcinoma,+1,1	OR7G2	48	1	NM_001005193	exon1	c.C587T	p.P196L	AAGAGCGGGATTT	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112722854	112722854	+	Missense_Mutation	SNP	G	G	A	rs7588635	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	94.0	219.0	1.0	0.467662	0.00456621	G|0.947;A|0.053	0.053	strong	.	MERTK	112	.	NM_006343	exon5	c.G844A	p.A282T	ATCAAAGGTAAGC	.	PASS	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	37	4	6602378	6602378	+	Silent	SNP	G	G	A	rs73796294	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	40.0	80.0	0.0	0.506329	0	G|0.959;A|0.041	0.041	strong	.	MAN2B2	80	.	NM_015274	exon10	c.G1434A	p.S478S	TGCCTCGGTCTAC	.	PASS	Atlas-SNP
BRPF3	27154	hgsc.bcm.edu	37	6	36177597	36177597	+	Silent	SNP	C	C	T	rs73730485	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	53.0	88.0	0.0	0.464912	0	C|0.987;T|0.013	0.013	strong	.	BRPF3	93	.	NM_015695	exon5	c.C1771T	p.L591L	CTGGAGCTGATGC	.	PASS	Atlas-SNP
GFI1B	8328	hgsc.bcm.edu	37	9	135864547	135864547	+	Missense_Mutation	SNP	G	G	A	rs62638686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	41.0	112.0	0.0	0.338843	0	A|0.017;G|0.983;T|0.000	0.017	strong	.	GFI1B	37	.	NM_004188	exon5	c.G610A	p.A204T	GGCCACGCTGTGA	.	PASS	Atlas-SNP
B9D1	27077	hgsc.bcm.edu	37	17	19246667	19246667	+	Silent	SNP	A	A	G	rs7212549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	40.0	59.0	0.0	0.487805	0	A|0.980;G|0.020	0.020	strong	.	B9D1	8	.	NM_015681	exon7	c.T580C	p.L194L	GCCCCAACACACC	.	PASS	Atlas-SNP
KRTAP4-9	100132386	hgsc.bcm.edu	37	17	39261793	39261793	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	14.0	115.0	0.0	0.184211	0	.	.	none	.	KRTAP4-9	110	.	NM_001146041	exon1	c.G153A	p.R51R	CTGCAGGCCCCAG	.	PASS	Atlas-SNP
ZNF157	7712	hgsc.bcm.edu	37	X	47272970	47272970	+	Missense_Mutation	SNP	A	A	G	rs61736398	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	53.0	150.0	0.0	0.381295	0	A|0.984;G|0.016	0.016	strong	.	ZNF157	46	.	NM_003446	exon4	c.A1498G	p.T500A	CGTTGTACAATGA	.	PASS	Atlas-SNP
TRPM5	29850	hgsc.bcm.edu	37	11	2428434	2428434	+	Silent	SNP	G	G	A	rs369339407		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	70.0	101.0	0.0	0.569106	0	.	.	weak	.	TRPM5	86	.	NM_014555	exon20	c.C3033T	p.A1011A	GGGCGGGGCCAGG	.	PASS	Atlas-SNP
OR2S2	56656	hgsc.bcm.edu	37	9	35957728	35957728	+	Missense_Mutation	SNP	C	C	T	rs2233563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	57.0	103.0	0.0	0.57	0	C|0.975;T|0.025	0.025	strong	.	OR2S2	46	.	NM_019897	exon1	c.G368A	p.R123H	ACATAGCGATCAA	.	PASS	Atlas-SNP
OR14A16	284532	hgsc.bcm.edu	37	1	247978768	247978768	+	Silent	SNP	G	G	A	rs61740923	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	84.0	191.0	0.0	0.413793	0	G|0.986;A|0.014	0.014	strong	.	OR14A16	90	.	NM_001001966	exon1	c.C264T	p.N88N	AATGGAGTTGTTG	.	PASS	Atlas-SNP
GDF5	8200	hgsc.bcm.edu	37	20	34022344	34022344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	4.0	97.0	0.0	0.0454545	0	.	.	none	.	GDF5	66	.	NM_000557	exon2	c.G869A	p.G290D	TCCCAGCCAGATC	.	PASS	Atlas-SNP
PMS2	5395	hgsc.bcm.edu	37	7	6026787	6026787	+	Missense_Mutation	SNP	C	C	T	rs115052399	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	48.0	89.0	0.0	0.470588	0	C|0.995;T|0.005	0.005	strong	.	PMS2	88	.	NM_000535	exon11	c.G1609A	p.E537K	CTTTCTCCTGAGA	.	PASS	Atlas-SNP
C4orf40	401137	hgsc.bcm.edu	37	4	71024552	71024552	+	Missense_Mutation	SNP	C	C	G	rs143985138	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	303.0	136.0	325.0	0.0	0.448845	0	C|0.987;G|0.013	0.013	strong	.	C4orf40	19	.	NM_214711	exon3	c.C583G	p.P195A	CCTTCACCAGCTG	.	PASS	Atlas-SNP
PARK2	5071	hgsc.bcm.edu	37	6	162475167	162475167	+	Missense_Mutation	SNP	T	T	G	rs9456735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	53.0	98.0	0.0	0.546392	0	T|0.977;G|0.023	0.023	strong	.	PARK2	96	.	NM_004562	exon5	c.A574C	p.M192L	CACTCATCCGGTT	.	PASS	Atlas-SNP
REL	5966	hgsc.bcm.edu	37	2	61148988	61148988	+	Missense_Mutation	SNP	C	C	G	rs34661029	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	132.0	105.0	0.0	1	0	C|0.993;G|0.007	0.007	strong	.	REL	48	.	NM_002908	exon11	c.C1178G	p.P393R	CTGGGCCCATCTC	.	PASS	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	37	12	25672955	25672955	+	Missense_Mutation	SNP	C	C	T	rs35450203	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	89.0	158.0	0.0	0.559748	0	C|0.980;T|0.020	0.020	strong	.	IFLTD1	121	.	NM_001145728	exon7	c.G853A	p.A285T	CGTCAGCATCTAA	.	PASS	Atlas-SNP
IGSF9B	22997	hgsc.bcm.edu	37	11	133789790	133789790	+	Missense_Mutation	SNP	G	G	C	rs200373794	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	46.0	92.0	0.0	0.505495	0	.	.	weak	.	IGSF9B	290	.	NM_014987	exon18	c.C3830G	p.T1277S	GCCAGAGTGGTGA	.	PASS	Atlas-SNP
ZNF280B	140883	hgsc.bcm.edu	37	22	22842484	22842484	+	Missense_Mutation	SNP	C	C	T	rs57235089	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	266.0	110.0	286.0	0.0	0.413534	0	C|0.973;T|0.027	0.027	strong	.	ZNF280B	67	.	NM_080764	exon4	c.G1240A	p.V414I	CAAAGACCGACGA	.	PASS	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	37	1	152325456	152325456	+	Silent	SNP	G	G	A	rs73007787	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	399.0	226.0	404.0	1.0	0.566416	0.00247525	G|0.940;A|0.060	0.060	strong	.	FLG2	431	.	NM_001014342	exon3	c.C4806T	p.A1602A	AGATCCGGCTTGG	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970811	151970811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	801.0	39.0	725.0	0.0	0.0486891	0	.	.	none	.	MLL3	1564	.	NM_170606	exon7	c.A991G	p.I331V	GGTCAATGTGTTC	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3214939	3214939	+	Missense_Mutation	SNP	C	C	A	rs199766052	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	29.0	22.0	0.0	0.5	0	.	.	weak	.	PITRM1	109	.	NM_014889	exon1	c.G26T	p.G9V	CACAGGCCCTGCC	.	PASS	Atlas-SNP
NBPF7	343505	hgsc.bcm.edu	37	1	120386922	120386922	+	Splice_Site	SNP	A	A	T	rs12068863	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	40.0	83.0	0.0	0.366972	0	A|0.957;T|0.043	0.043	strong	.	NBPF7	46	.	NM_001047980	exon2	c.235+2T>A	.	GATCTTACTGTAT	.	PASS	Atlas-SNP
TET3	200424	hgsc.bcm.edu	37	2	74275174	74275174	+	Silent	SNP	C	C	T	rs73951129	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	65.0	121.0	0.0	0.53719	0	C|0.984;T|0.016	0.016	strong	.	TET3	101	.	NM_144993	exon1	c.C1725T	p.L575L	AGAGCTCATCCGG	.	PASS	Atlas-SNP
RELA	5970	hgsc.bcm.edu	37	11	65422374	65422374	+	Silent	SNP	C	C	T	rs7116571	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	69.0	131.0	0.0	0.463087	0	C|0.965;T|0.035	0.035	strong	.	RELA	44	.	NM_021975	exon11	c.G1131A	p.S377S	CAAGGCCGAGGCC	.	PASS	Atlas-SNP
CHST5	23563	hgsc.bcm.edu	37	16	75563352	75563352	+	Missense_Mutation	SNP	C	C	T	rs7206332	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	27.0	58.0	0.0	0.490909	0	C|0.974;T|0.026	0.026	strong	CHST5,middle_lobe,carcinoma,+1,1	CHST5	47	1	NM_024533	exon3	c.G931A	p.A311T	TGAAGGCGTAGAG	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108143299	108143299	+	Missense_Mutation	SNP	A	A	G	rs3092857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	51.0	203.0	0.0	0.359155	0	A|0.985;G|0.015	0.015	strong	ATM_ENST00000278616,colon,carcinoma,-1,7	ATM	1657	7	NM_000051	exon21	c.A3118G	p.M1040V	GTAAGAATGGCCC	.	PASS	Atlas-SNP
TGFBI	7045	hgsc.bcm.edu	37	5	135392482	135392482	+	Missense_Mutation	SNP	T	T	G	rs200219644	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	117.0	178.0	0.0	0.541667	0	.	.	weak	.	TGFBI	76	.	NM_000358	exon12	c.T1676G	p.L559W	GACTCTTGGGTAA	.	PASS	Atlas-SNP
C2orf44	80304	hgsc.bcm.edu	37	2	24260862	24260862	+	Silent	SNP	A	A	G	rs115270382	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	72.0	126.0	0.0	0.461538	0	A|0.992;G|0.008	0.008	strong	.	C2orf44	56	.	NM_025203	exon2	c.T1503C	p.S501S	CAGAGGACTCTGG	.	PASS	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	37	9	104385646	104385646	+	Silent	SNP	A	A	G	rs138253972	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	121.0	169.0	0.0	0.661202	0	A|1.000;G|0.000	0.000	strong	.	GRIN3A	186	.	NM_133445	exon5	c.T2568C	p.D856D	GTCAGCATCTATT	.	PASS	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	37	11	73796683	73796683	+	Missense_Mutation	SNP	T	T	C	rs1095423	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	47.0	97.0	0.0	0.465347	0	T|0.951;C|0.049	0.049	strong	.	C2CD3	288	.	NM_015531	exon21	c.A3890G	p.Y1297C	TCATGATAGACAG	.	PASS	Atlas-SNP
ZNF284	342909	hgsc.bcm.edu	37	19	44590753	44590753	+	Silent	SNP	T	T	C	rs114253786	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	74.0	196.0	0.0	0.496644	0	T|0.995;C|0.005	0.005	strong	.	ZNF284	38	.	NM_001037813	exon5	c.T1122C	p.N374N	TTGTAATGTATGT	.	PASS	Atlas-SNP
ALOX15	246	hgsc.bcm.edu	37	17	4539171	4539171	+	Silent	SNP	G	G	T	rs11568113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	77.0	160.0	0.0	0.513333	0	G|0.973;T|0.027	0.027	strong	.	ALOX15	70	.	NM_001140	exon8	c.C1044A	p.R348R	AGAGCTGCGCACC	.	PASS	Atlas-SNP
ACACA	31	hgsc.bcm.edu	37	17	35470031	35470031	+	Silent	SNP	T	T	G	rs55811414	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	57.0	126.0	0.0	0.459677	0	G|0.034;T|0.966	0.034	strong	.	ACACA	395	.	NM_198834	exon51	c.A6444C	p.R2148R	GCTTTCTCGGTCA	.	PASS	Atlas-SNP
GIMAP2	26157	hgsc.bcm.edu	37	7	150390255	150390255	+	Missense_Mutation	SNP	T	T	C	rs115945256	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	55.0	119.0	0.0	0.436508	0	T|0.995;C|0.005	0.005	strong	.	GIMAP2	39	.	NM_015660	exon3	c.T881C	p.M294T	ACAGCATGTGCAA	.	PASS	Atlas-SNP
FBN2	2201	hgsc.bcm.edu	37	5	127670412	127670412	+	Silent	SNP	T	T	G	rs28763943	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	30.0	62.0	0.0	0.441176	0	T|0.975;G|0.025	0.025	strong	.	FBN2	858	.	NM_001999	exon31	c.A4098C	p.T1366T	CCTACCTGTACAT	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545889	47545889	+	Silent	SNP	C	C	G	rs61735829	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	86.0	148.0	0.0	0.518072	0	C|0.982;G|0.018	0.018	strong	COL6A2_ENST00000357838,NS,carcinoma,+2,3	COL6A2	351	3	NM_058175	exon26	c.C2160G	p.R720R	CCGGCGCCAGAAG	.	PASS	Atlas-SNP
ZNF841	284371	hgsc.bcm.edu	37	19	52569479	52569479	+	Silent	SNP	G	G	A	rs61738706	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	21.0	48.0	0.0	0.396226	0	G|0.979;A|0.021	0.021	strong	.	ZNF841	183	.	NM_001136499	exon7	c.C1656T	p.Y552Y	TCCACCGTAATTA	.	PASS	Atlas-SNP
TH	7054	hgsc.bcm.edu	37	11	2190982	2190982	+	Silent	SNP	A	A	G	rs7950050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	62.0	121.0	0.0	0.534483	0	A|0.952;G|0.048	0.048	strong	.	TH	43	.	NM_199292	exon3	c.T303C	p.A101A	GGCCACAGCCTCC	.	PASS	Atlas-SNP
POLR3D	661	hgsc.bcm.edu	37	8	22107707	22107707	+	Silent	SNP	C	C	T	rs34435413	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	52.0	97.0	0.0	0.464286	0	C|0.993;T|0.007	0.007	strong	.	POLR3D	26	.	NM_001722	exon8	c.C1041T	p.D347D	TCTGGACGTGACC	.	PASS	Atlas-SNP
NECAB3	63941	hgsc.bcm.edu	37	20	32248088	32248088	+	Silent	SNP	C	C	T	rs146604647	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	23.0	69.0	0.0	0.425926	0	C|0.996;T|0.004	0.004	strong	.	NECAB3	27	.	NM_031232	exon6	c.G501A	p.L167L	GGCCTCCAGGGTA	.	PASS	Atlas-SNP
TICRR	90381	hgsc.bcm.edu	37	15	90145118	90145118	+	Silent	SNP	T	T	A	rs202042800	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	36.0	80.0	0.0	0.486486	0	T|1.000;A|0.000	0.000	strong	.	.	.	.	NM_152259	exon12	c.T2478A	p.P826P	TGTGCCTTTTTTG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11550413	11550413	+	Silent	SNP	T	T	C	rs61745426	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	59.0	129.0	0.0	0.450382	0	T|0.988;C|0.012	0.012	strong	.	DNAH9	695	.	NM_001372	exon12	c.T1995C	p.D665D	TGAGGATTGGTGC	.	PASS	Atlas-SNP
IGSF9	57549	hgsc.bcm.edu	37	1	159900655	159900655	+	Missense_Mutation	SNP	G	G	A	rs140306211	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	71.0	152.0	0.0	0.486301	0	G|0.994;A|0.006	0.006	strong	.	IGSF9	123	.	NM_001135050	exon14	c.C1640T	p.A547V	CGCTTGGCCCTGG	.	PASS	Atlas-SNP
SLC13A1	6561	hgsc.bcm.edu	37	7	122787306	122787306	+	Missense_Mutation	SNP	G	G	A	rs10231144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	79.0	95.0	0.0	0.580882	0	G|0.989;A|0.011	0.011	strong	.	SLC13A1	110	.	NM_022444	exon7	c.C719T	p.T240M	AAACACGTAAGTT	.	PASS	Atlas-SNP
SGCD	6444	hgsc.bcm.edu	37	5	156184786	156184786	+	Silent	SNP	G	G	A	rs187204080	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	217.0	98.0	201.0	0.0	0.451613	0	G|0.998;A|0.002	0.002	strong	.	SGCD	52	.	NM_172244	exon8	c.G770A	p.X257X	CTGGTTGACCTCG	.	PASS	Atlas-SNP
CPNE7	27132	hgsc.bcm.edu	37	16	89645345	89645345	+	Missense_Mutation	SNP	C	C	A	rs9944362	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	58.0	78.0	0.0	0.58	0	C|0.998;A|0.002	0.002	strong	.	CPNE7	56	.	NM_014427	exon3	c.C438A	p.H146Q	TAAGCACTTCCTG	.	PASS	Atlas-SNP
KIRREL2	84063	hgsc.bcm.edu	37	19	36353880	36353880	+	Missense_Mutation	SNP	G	G	A	rs35775934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	65.0	65.0	0.0	1	0	G|0.959;A|0.041	0.041	strong	KIRREL2_ENST00000262625,NS,carcinoma,-1,2	KIRREL2	170	2	NM_199180	exon13	c.G1667A	p.S556N	GCAGCAGCGACGG	.	PASS	Atlas-SNP
S100A3	6274	hgsc.bcm.edu	37	1	153520203	153520203	+	Silent	SNP	G	G	A	rs41265164	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	74.0	156.0	0.0	0.506849	0	A|0.147;C|0.000;G|0.853;T|0.000	0.147	strong	.	S100A3	7	.	NM_002960	exon3	c.C261T	p.H87H	GTACTCGTGGCAG	.	PASS	Atlas-SNP
ORM2	5005	hgsc.bcm.edu	37	9	117094159	117094159	+	Missense_Mutation	SNP	G	G	A	rs148221879	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	152.0	194.0	0.0	0.706977	0	G|0.997;A|0.003	0.003	strong	.	ORM2	13	.	NM_000608	exon5	c.G490A	p.D164N	GCTCTCGACTGCT	.	PASS	Atlas-SNP
CLASRP	11129	hgsc.bcm.edu	37	19	45561014	45561014	+	Silent	SNP	A	A	G	rs76953457	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	29.0	75.0	0.0	0.414286	0	A|0.990;G|0.010	0.010	strong	.	CLASRP	44	.	NM_007056	exon7	c.A471G	p.A157A	GCTGGCAGAGAAG	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	37	8	8175868	8175868	+	Silent	SNP	C	C	T	rs114026601	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	68.0	91.0	0.0	0.623853	0	C|0.988;T|0.012	0.012	strong	.	.	.	.	NM_001080826	exon5	c.G4017A	p.S1339S	CTCCTCCGAGGTG	.	PASS	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	37	11	18731905	18731905	+	Silent	SNP	T	T	A	rs114511413	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	53.0	133.0	0.0	0.481818	0	T|0.991;A|0.009	0.009	strong	.	IGSF22	211	.	NM_173588	exon17	c.A2670T	p.P890P	GCTGGATGGCACA	.	PASS	Atlas-SNP
ZFP28	140612	hgsc.bcm.edu	37	19	57050521	57050521	+	Missense_Mutation	SNP	G	G	A	rs199655023	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	26.0	37.0	0.0	0.45614	0	.	.	weak	.	ZFP28	99	.	NM_020828	exon1	c.G134A	p.G45E	CCCGGGGAAGGCC	.	PASS	Atlas-SNP
OR2A4	79541	hgsc.bcm.edu	37	6	132021722	132021722	+	Silent	SNP	G	G	A	rs145289654	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	935.0	254.0	770.0	2.0	0.271658	0.0025974	G|0.995;A|0.005	0.005	strong	.	OR2A4	17	.	NM_030908	exon1	c.C820T	p.L274L	ACAGCAGGAGATA	.	PASS	Atlas-SNP
ANAPC16	119504	hgsc.bcm.edu	37	10	73992862	73992862	+	Silent	SNP	C	C	G	rs9275	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	26.0	40.0	0.0	0.577778	0	G|0.064;C|0.936	0.064	strong	.	ANAPC16	10	.	NM_001242546	exon5	c.C321G	p.P107P	CACCCCCTCTTCA	.	PASS	Atlas-SNP
RAP1GAP	5909	hgsc.bcm.edu	37	1	21932598	21932598	+	Silent	SNP	G	G	A	rs150973141	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	50.0	106.0	0.0	0.438596	0	G|0.999;A|0.001	0.001	strong	.	RAP1GAP	119	.	NM_001145658	exon18	c.C1581T	p.F527F	GGGCGCGAAGCTC	.	PASS	Atlas-SNP
MRPS9	64965	hgsc.bcm.edu	37	2	105708936	105708936	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	46.0	81.0	0.0	0.511111	0	.	.	none	.	MRPS9	32	.	NM_182640	exon8	c.G729C	p.R243S	GCAGAGGTTTCGA	.	PASS	Atlas-SNP
GAB4	128954	hgsc.bcm.edu	37	22	17445710	17445710	+	Silent	SNP	C	C	T	rs5992599	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	127.0	208.0	1.0	0.490348	0.00480769	C|0.954;T|0.046	0.046	strong	.	GAB4	95	.	NM_001037814	exon8	c.G1422A	p.T474T	GCTCTGCGTGGAG	.	PASS	Atlas-SNP
USP44	84101	hgsc.bcm.edu	37	12	95927172	95927172	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	66.0	0.0	0.460526	0	.	.	none	.	USP44	83	.	NM_032147	exon2	c.T861C	p.V287V	CTGAAGAACAGAA	.	PASS	Atlas-SNP
SETD9	133383	hgsc.bcm.edu	37	5	56205559	56205559	+	Silent	SNP	C	C	T	rs80198735	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	34.0	75.0	0.0	0.346939	0	C|0.987;T|0.013	0.013	strong	.	.	.	.	NM_153706	exon1	c.C87T	p.S29S	CCTAAGCCACAAC	.	PASS	Atlas-SNP
OR11A1	26531	hgsc.bcm.edu	37	6	29395180	29395180	+	Missense_Mutation	SNP	A	A	G	rs61978565	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	44.0	60.0	0.0	0.586667	0	A|0.957;G|0.043	0.043	strong	OR11A1,NS,carcinoma,0,1	OR11A1	30	1	NM_013937	exon1	c.T239C	p.M80T	TTTGGCATCACTG	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186043899	186043899	+	Silent	SNP	T	T	C	rs77026548	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	61.0	119.0	0.0	0.484127	0	T|0.967;C|0.033	0.033	strong	.	HMCN1	797	.	NM_031935	exon53	c.T8166C	p.N2722N	TGTTAATATTGCT	.	PASS	Atlas-SNP
KLHL26	55295	hgsc.bcm.edu	37	19	18779728	18779728	+	Silent	SNP	C	C	T	rs73533829	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	18.0	24.0	0.0	0.5	0	C|0.988;T|0.012	0.012	strong	.	KLHL26	43	.	NM_018316	exon3	c.C1521T	p.G507G	TGCCGGCGGCCGC	.	PASS	Atlas-SNP
TNFRSF1B	7133	hgsc.bcm.edu	37	1	12253003	12253003	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	58.0	76.0	0.0	0.527273	0	.	.	none	.	TNFRSF1B	28	.	NM_001066	exon6	c.G635A	p.G212E	CCCCAGGGGCAGT	.	PASS	Atlas-SNP
FOXC1	2296	hgsc.bcm.edu	37	6	1612243	1612243	+	Silent	SNP	T	T	G	rs73406891	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	24.0	43.0	0.0	0.393443	0	T|0.963;G|0.037	0.037	strong	.	FOXC1	19	.	NM_001453	exon1	c.T1563G	p.S521S	CAACTCTCCAGTG	.	PASS	Atlas-SNP
TBC1D8B	54885	hgsc.bcm.edu	37	X	106083304	106083304	+	Silent	SNP	A	A	G	rs56825776	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	318.0	318.0	338.0	1.0	1	0.00295858	A|0.923;G|0.077	0.077	strong	.	TBC1D8B	181	.	NM_198881	exon9	c.A1380G	p.S460S	ACAGTCATGGAAA	.	PASS	Atlas-SNP
GATA3	2625	hgsc.bcm.edu	37	10	8100632	8100632	+	Silent	SNP	T	T	C	rs2228254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	27.0	55.0	0.0	0.586957	0	T|0.959;C|0.041	0.041	strong	.	GATA3	182	.	NM_002051	exon3	c.T606C	p.R202R	CTCCCGTGGCAGC	.	PASS	Atlas-SNP
SETD1A	9739	hgsc.bcm.edu	37	16	30978324	30978324	+	Silent	SNP	C	C	A	rs11866157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	54.0	81.0	0.0	0.54	0	C|0.968;A|0.032	0.032	strong	.	SETD1A	143	.	NM_014712	exon9	c.C2625A	p.I875I	GGGCATCGAGGCT	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15931975	15931975	+	Silent	SNP	G	G	A	rs28570191	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	58.0	87.0	0.0	0.591837	0	G|0.951;A|0.049	0.049	strong	.	MYH11	520	.	NM_001040114	exon2	c.C135T	p.F45F	TGCCTCGAAGCCC	.	PASS	Atlas-SNP
USP29	57663	hgsc.bcm.edu	37	19	57641887	57641887	+	Missense_Mutation	SNP	A	A	G	rs74511605	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	74.0	132.0	0.0	0.616667	0	A|0.995;G|0.005	0.005	strong	.	USP29	186	.	NM_020903	exon4	c.A1844G	p.Q615R	CAAGCCAAGAGCA	.	PASS	Atlas-SNP
ZBED4	9889	hgsc.bcm.edu	37	22	50279749	50279749	+	Silent	SNP	C	C	T	rs61731524	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	28.0	61.0	0.0	0.388889	0	C|0.998;T|0.002	0.002	strong	.	ZBED4	102	.	NM_014838	exon2	c.C2439T	p.I813I	CAGCATCGGGAAG	.	PASS	Atlas-SNP
SEMG2	6407	hgsc.bcm.edu	37	20	43851101	43851101	+	Silent	SNP	T	T	C	rs2233902	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	78.0	158.0	0.0	0.516556	0	T|0.985;C|0.015	0.015	strong	.	SEMG2	92	.	NM_003008	exon2	c.T828C	p.D276D	TCAAGATCAAGAG	.	PASS	Atlas-SNP
PWWP2B	170394	hgsc.bcm.edu	37	10	134218802	134218802	+	Silent	SNP	G	G	T	rs76160300	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	52.0	116.0	0.0	0.55914	0	G|0.993;T|0.007	0.007	strong	.	PWWP2B	33	.	NM_001098637	exon2	c.G798T	p.V266V	AGAGGTGGTCAAG	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38376804	38376804	+	Missense_Mutation	SNP	T	T	C	rs78748271	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	299.0	147.0	284.0	1.0	0.491639	0.00352113	T|0.979;C|0.021	0.021	strong	.	WDR87	191	.	NM_031951	exon6	c.A7390G	p.T2464A	ATGGGGTCTTTAA	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	21049286	21049286	+	Missense_Mutation	SNP	C	C	T	rs16970832	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	60.0	88.0	0.0	0.625	0	C|0.944;T|0.056	0.056	strong	.	DNAH3	1142	.	NM_017539	exon34	c.G4747A	p.V1583I	TCGCAACGATCTT	.	PASS	Atlas-SNP
ACVRL1	94	hgsc.bcm.edu	37	12	52306898	52306898	+	Missense_Mutation	SNP	C	C	T	rs199542304	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	12.0	24.0	0.0	0.285714	0	.	.	weak	.	ACVRL1	60	.	NM_000020	exon3	c.C77T	p.P26L	TGAAGCCGTCTCG	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746399	143746399	+	Missense_Mutation	SNP	T	T	C	rs73379623	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	43.0	89.0	0.0	0.472527	0	T|0.992;C|0.008	0.008	strong	.	.	.	.	NM_003724	exon2	c.A1079G	p.N360S	GCATCGTTCATGT	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40384035	40384035	+	Missense_Mutation	SNP	G	G	A	rs367618328		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	639.0	130.0	585.0	1.0	0.203443	0.0017094	.	.	weak	FCGBP,NS,haematopoietic_neoplasm,-1,1	FCGBP	416	1	NM_003890	exon21	c.C9575T	p.A3192V	AAACCCGCGTCGC	.	scavenged	Atlas-SNP
ATP8A1	10396	hgsc.bcm.edu	37	4	42576646	42576646	+	Missense_Mutation	SNP	C	C	T	rs61755862	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	84.0	206.0	0.0	0.442105	0	C|0.975;T|0.025	0.025	strong	ATP8A1_ENST00000264449,NS,carcinoma,+1,2	ATP8A1	206	2	NM_001105529	exon14	c.G1285A	p.V429I	AAGCAACTCCCGC	.	PASS	Atlas-SNP
ZNF257	113835	hgsc.bcm.edu	37	19	22256347	22256347	+	Silent	SNP	G	G	A	rs10423157	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	26.0	55.0	0.0	0.42623	0	G|0.927;A|0.073	0.073	strong	.	ZNF257	156	.	NM_033468	exon3	c.G207A	p.E69E	ACATGAGATGGTA	.	PASS	Atlas-SNP
KLHL20	27252	hgsc.bcm.edu	37	1	173735378	173735378	+	Silent	SNP	T	T	C	rs7536773	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	330.0	135.0	303.0	0.0	0.409091	0	T|0.875;C|0.125	0.125	strong	.	KLHL20	54	.	NM_014458	exon8	c.T1245C	p.L415L	CTTTCTTTATGCT	.	PASS	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	37	5	33881385	33881385	+	Missense_Mutation	SNP	G	G	C	rs16891862	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	72.0	130.0	0.0	0.439024	0	C|0.011;G|0.989	0.011	strong	.	ADAMTS12	464	.	NM_030955	exon2	c.C328G	p.Q110E	ATCCTTGATTGAC	.	PASS	Atlas-SNP
SLC5A8	160728	hgsc.bcm.edu	37	12	101551065	101551065	+	Missense_Mutation	SNP	G	G	A	rs113062899	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	67.0	128.0	0.0	0.567797	0	G|0.987;A|0.013	0.013	strong	.	SLC5A8	102	.	NM_145913	exon15	c.C1825T	p.R609C	ACAAACGAGTCCC	.	PASS	Atlas-SNP
THEG	51298	hgsc.bcm.edu	37	19	373531	373531	+	Nonsense_Mutation	SNP	C	C	T	rs73489977	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	86.0	134.0	0.0	0.518072	0	C|0.960;T|0.040	0.040	strong	.	THEG	58	.	NM_016585	exon4	c.G504A	p.W168X	AGAGGGCCTGGAA	.	PASS	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23744844	23744844	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	7.0	127.0	0.0	0.0614035	0	.	.	none	.	HOMEZ	80	.	NM_020834	exon2	c.G1593A	p.E531E	CTCCTCCTCTTCC	.	PASS	Atlas-SNP
IL16	3603	hgsc.bcm.edu	37	15	81589340	81589340	+	Silent	SNP	C	C	T	rs201624502	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	89.0	176.0	0.0	0.514451	0	C|0.999;T|0.001	0.001	strong	.	IL16	254	.	NM_001172128	exon13	c.C1974T	p.A658A	CTCTGCCGGCTGC	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73574948	73574948	+	Silent	SNP	C	C	T	rs73277900	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	27.0	59.0	0.0	0.5	0	C|0.984;T|0.016	0.016	strong	.	CDH23	365	.	NM_022124	exon68	c.C9978T	p.N3326N	GCGCAACGCCCGC	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121251924	121251924	+	Silent	SNP	C	C	T	rs41390550	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	260.0	117.0	317.0	0.0	0.45	0	C|0.982;T|0.018	0.018	strong	.	POLQ	273	.	NM_199420	exon6	c.G873A	p.P291P	CAAAAGCGGTACA	.	PASS	Atlas-SNP
COX2	5743	hgsc.bcm.edu	37	MT	8027	8027	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	14.0	13.0	5.0	0.0	0.928571	0	.	.	none	.	.	.	.	ENST00000361739	exon1	c.G442A	p.A148T	ATTGAAGCCCCCA	.	PASS	Atlas-SNP
C7orf72	100130988	hgsc.bcm.edu	37	7	50173702	50173702	+	Splice_Site	SNP	A	A	G	rs78990563	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	29.0	49.0	0.0	0.54717	0	A|0.997;G|0.003	0.003	strong	.	C7orf72	26	.	NM_001161834	exon4	c.729-2A>G	.	CTTCATAGAGCTT	.	PASS	Atlas-SNP
TUBGCP2	10844	hgsc.bcm.edu	37	10	135106718	135106718	+	Silent	SNP	G	G	A	rs3008344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	26.0	60.0	0.0	0.448276	0	G|0.996;A|0.004	0.004	strong	.	TUBGCP2	79	.	NM_001256617	exon8	c.C933T	p.F311F	GTACTCGAAGGAA	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	37	19	622834	622834	+	Missense_Mutation	SNP	C	C	G	rs146178977	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	36.0	66.0	0.0	0.642857	0	C|0.997;G|0.003	0.003	strong	.	POLRMT	91	.	NM_005035	exon7	c.G1442C	p.R481P	AGCATCCGCACCA	.	PASS	Atlas-SNP
HIST1H2AL	8332	hgsc.bcm.edu	37	6	27833342	27833342	+	Silent	SNP	C	C	T	rs11966705	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	248.0	122.0	245.0	0.0	0.491935	0	C|0.975;T|0.025	0.025	strong	.	HIST1H2AL	14	.	NM_003511	exon1	c.C210T	p.A70A	CAACGCCGCCCGC	.	PASS	Atlas-SNP
SLC26A4	5172	hgsc.bcm.edu	37	7	107342294	107342294	+	Missense_Mutation	SNP	T	T	G	rs17154335	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	43.0	89.0	0.0	0.467391	0	T|0.952;G|0.048	0.048	strong	.	SLC26A4	117	.	NM_000441	exon17	c.T1826G	p.V609G	ATGCTGTTTCAAC	.	PASS	Atlas-SNP
CELSR3	1951	hgsc.bcm.edu	37	3	48699134	48699134	+	Silent	SNP	G	G	T	rs76423828	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	33.0	46.0	0.0	0.485294	0	G|0.995;T|0.005	0.005	strong	.	CELSR3	237	.	NM_001407	exon1	c.C934A	p.R312R	GTGCCCGGTTCGC	.	PASS	Atlas-SNP
OR4K13	390433	hgsc.bcm.edu	37	14	20502779	20502779	+	Missense_Mutation	SNP	C	C	T	rs144683363	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	39.0	107.0	0.0	0.453488	0	C|0.985;T|0.015	0.015	strong	.	OR4K13	68	.	NM_001004714	exon1	c.G139A	p.V47M	CAGTCACCAAGAT	.	PASS	Atlas-SNP
SUN1	23353	hgsc.bcm.edu	37	7	883088	883088	+	Missense_Mutation	SNP	G	G	A	rs116520953	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	43.0	63.0	0.0	0.589041	0	G|0.996;A|0.004	0.004	strong	.	SUN1	157	.	NM_001171945	exon7	c.G652A	p.V218M	AAGGACGTGCTCA	.	PASS	Atlas-SNP
PSKH2	85481	hgsc.bcm.edu	37	8	87060793	87060793	+	Silent	SNP	T	T	A	rs28483271	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	69.0	150.0	0.0	0.485915	0	T|0.966;A|0.034	0.034	strong	.	PSKH2	79	.	NM_033126	exon3	c.A1056T	p.G352G	TGCAGATCCAGGA	.	PASS	Atlas-SNP
ORM2	5005	hgsc.bcm.edu	37	9	117093856	117093856	+	Missense_Mutation	SNP	G	G	A	rs142633392	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	135.0	208.0	0.0	0.625	0	G|0.995;A|0.005	0.005	strong	.	ORM2	13	.	NM_000608	exon4	c.G338A	p.R113Q	GAGGCCGAGAACA	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82785096	82785096	+	Silent	SNP	G	G	A	rs61744360	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	270.0	125.0	264.0	1.0	0.462963	0.00378788	G|0.998;A|0.002	0.002	strong	.	PCLO	1506	.	NM_014510	exon2	c.C861T	p.D287D	TACTATGTCTGCC	.	PASS	Atlas-SNP
GPR179	440435	hgsc.bcm.edu	37	17	36487412	36487412	+	Silent	SNP	G	G	A	rs111770829	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	92.0	168.0	0.0	0.44878	0	G|0.981;A|0.019	0.019	strong	.	GPR179	170	.	NM_001004334	exon11	c.C2040T	p.D680D	CAGCTCGTCCTGT	.	PASS	Atlas-SNP
ABCC10	89845	hgsc.bcm.edu	37	6	43412935	43412935	+	Silent	SNP	T	T	C	rs2125740	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	234.0	103.0	225.0	0.0	0.440171	0	T|0.940;C|0.060	0.060	strong	.	ABCC10	118	.	NM_001198934	exon14	c.T2913C	p.Y971Y	CGTGTATGCGACC	.	PASS	Atlas-SNP
CCT3	7203	hgsc.bcm.edu	37	1	156281999	156281999	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	48.0	86.0	0.0	0.521739	0	.	.	none	.	CCT3	61	.	NM_005998	exon11	c.C988T	p.R330W	CTATCCGGGCCCC	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141331098	141331098	+	Missense_Mutation	SNP	G	G	A	rs115735066	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	45.0	106.0	0.0	0.381356	0	G|0.991;A|0.009	0.009	strong	.	PCDH12	133	.	NM_016580	exon2	c.C2938T	p.H980Y	CTCGGTGGTTTGG	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149509048	149509048	+	Silent	SNP	C	C	T	rs115723456	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	52.0	83.0	0.0	0.5	0	C|0.989;T|0.011	0.011	strong	.	.	.	.	NM_198455	exon68	c.C9594T	p.S3198S	AGCCTCCTGTGGC	.	PASS	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	37	5	140573655	140573655	+	Silent	SNP	C	C	T	rs17844572	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	395.0	107.0	374.0	0.0	0.270886	0	C|0.986;T|0.014	0.014	strong	.	PCDHB10	177	.	NM_018930	exon1	c.C1530T	p.N510N	GGACAACGGCCAC	.	PASS	Atlas-SNP
AIRE	326	hgsc.bcm.edu	37	21	45712983	45712983	+	Silent	SNP	T	T	C	rs61737072	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	20.0	32.0	0.0	0.434783	0	T|0.951;C|0.049	0.049	strong	.	AIRE	61	.	NM_000383	exon10	c.T1203C	p.P401P	TCCGCCTTCTGCA	.	PASS	Atlas-SNP
MSH2	4436	hgsc.bcm.edu	37	2	47637439	47637439	+	Silent	SNP	C	C	T	rs1800151	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	55.0	106.0	0.0	0.426357	0	C|0.977;T|0.023	0.023	strong	.	MSH2	198	.	NM_000251	exon3	c.C573T	p.L191L	TCTCCTCATCCAG	.	PASS	Atlas-SNP
IL10RA	3587	hgsc.bcm.edu	37	11	117870257	117870257	+	Silent	SNP	C	C	T	rs146193205	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	30.0	67.0	0.0	0.566038	0	C|0.999;T|0.001	0.001	strong	.	IL10RA	46	.	NM_001558	exon7	c.C1638T	p.A546A	CCTTGCCCCTCTA	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151165106	151165106	+	Missense_Mutation	SNP	T	T	G	rs35491609	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	348.0	156.0	324.0	0.0	0.448276	0	T|0.992;G|0.008	0.008	strong	IGSF10,NS,carcinoma,-1,1	IGSF10	279	1	NM_178822	exon4	c.A2663C	p.Q888P	GAATGTTGATTGG	.	PASS	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	37	5	7885907	7885907	+	Missense_Mutation	SNP	C	C	G	rs10064631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	92.0	176.0	0.0	0.467005	0	C|0.948;G|0.052	0.052	strong	.	MTRR	74	.	NM_024010	exon7	c.C1078G	p.L360V	CTGCAGCTTGAAG	.	PASS	Atlas-SNP
ABCA1	19	hgsc.bcm.edu	37	9	107578478	107578478	+	Silent	SNP	C	C	T	rs2230807	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	87.0	148.0	0.0	0.550633	0	T|0.049;G|0.134	0.049	strong	.	ABCA1	244	.	NM_005502	exon25	c.G3684A	p.R1228R	TGAGAGCCGGTCA	.	PASS	Atlas-SNP
ARMCX2	9823	hgsc.bcm.edu	37	X	100912065	100912065	+	Silent	SNP	C	C	T	rs78189978	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	46.0	116.0	0.0	0.621622	0	C|0.981;T|0.019	0.019	strong	.	ARMCX2	75	.	NM_014782	exon5	c.G510A	p.A170A	AGTCTCCGCTTCT	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26423477	26423477	+	Missense_Mutation	SNP	G	G	A	rs7284177	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	21.0	61.0	0.0	0.375	0	G|0.931;A|0.069	0.069	strong	.	MYO18B	322	.	NM_032608	exon43	c.G7537A	p.G2513S	TCCTCCGGCTCCA	.	PASS	Atlas-SNP
NMU	10874	hgsc.bcm.edu	37	4	56466734	56466734	+	Missense_Mutation	SNP	G	G	T	rs12108463	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	91.0	230.0	0.0	0.42723	0	G|0.960;T|0.040	0.040	strong	.	NMU	17	.	NM_006681	exon8	c.C444A	p.F148L	ACTTTGGAATTCT	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	133898949	133898949	+	Silent	SNP	C	C	T	rs61741629	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	42.0	48.0	0.0	0.617647	0	C|0.971;T|0.029	0.029	strong	.	TG	416	.	NM_003235	exon9	c.C1332T	p.I444I	AGCCATCCGAGCA	.	PASS	Atlas-SNP
ZNF746	155061	hgsc.bcm.edu	37	7	149174758	149174758	+	Silent	SNP	G	G	A	rs61746598	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	47.0	69.0	0.0	0.552941	0	G|0.960;A|0.040	0.040	strong	.	ZNF746	68	.	NM_001163474	exon5	c.C609T	p.G203G	CTCCACGCCCAGG	.	PASS	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	37	1	152326516	152326516	+	Missense_Mutation	SNP	T	T	C	rs16833974	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	349.0	175.0	271.0	0.0	0.501433	0	T|0.932;C|0.068	0.068	strong	.	FLG2	431	.	NM_001014342	exon3	c.A3746G	p.H1249R	TGGCTATGTCTAG	.	PASS	Atlas-SNP
IL12RB2	3595	hgsc.bcm.edu	37	1	67787286	67787286	+	Silent	SNP	T	T	C	rs2307147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	35.0	56.0	0.0	0.448718	0	T|0.926;C|0.074	0.074	strong	.	IL12RB2	94	.	NM_001559	exon3	c.T78C	p.D26D	TGCAGATGCGTGC	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27802457	27802457	+	Silent	SNP	T	T	C	rs12329054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	59.0	96.0	0.0	0.578431	0	T|0.986;C|0.014	0.014	strong	.	C2orf16	357	.	NM_032266	exon1	c.T3018C	p.G1006G	CAATGGTATATCC	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16259497	16259497	+	Missense_Mutation	SNP	G	G	T	rs60707953	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	38.0	88.0	0.0	0.452381	0	G|0.992;T|0.008	0.008	strong	.	ABCC6	110	.	NM_001171	exon23	c.C3289A	p.L1097I	CGTAGAGGAGAAA	.	PASS	Atlas-SNP
DLK1	8788	hgsc.bcm.edu	37	14	101200514	101200514	+	Missense_Mutation	SNP	G	G	T	rs116078181	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	54.0	126.0	0.0	0.606742	0	G|0.981;T|0.019	0.019	strong	.	DLK1	57	.	NM_003836	exon5	c.G433T	p.V145L	ACCTGCGTGGATG	.	PASS	Atlas-SNP
DDX43	55510	hgsc.bcm.edu	37	6	74125283	74125283	+	Silent	SNP	T	T	C	rs138615882	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	43.0	61.0	0.0	0.551282	0	T|0.997;C|0.003	0.003	strong	.	DDX43	69	.	NM_018665	exon15	c.T1809C	p.I603I	ATTGATTAATATT	.	PASS	Atlas-SNP
PLEKHH1	57475	hgsc.bcm.edu	37	14	68023989	68023989	+	Missense_Mutation	SNP	G	G	C	rs149253165	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	52.0	81.0	0.0	0.565217	0	G|0.993;C|0.007	0.007	strong	.	PLEKHH1	118	.	NM_020715	exon4	c.G193C	p.G65R	CAGGTGGGTGTCA	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	37	3	122419151	122419151	+	Missense_Mutation	SNP	G	G	A	rs201474464	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	32.0	79.0	0.0	0.415584	0	.	.	weak	PARP14_ENST00000474629,caecum,carcinoma,-2,2	PARP14	242	2	NM_017554	exon6	c.G1750A	p.A584T	TCTGAAGCCCTGT	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	134042164	134042164	+	Missense_Mutation	SNP	C	C	T	rs61742878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	49.0	106.0	0.0	0.395161	0	C|0.995;T|0.005	0.005	strong	TG,NS,carcinoma,0,4	TG	416	4	NM_003235	exon41	c.C7135T	p.R2379C	CCTCGGCGCGTGT	.	PASS	Atlas-SNP
TRPM2	7226	hgsc.bcm.edu	37	21	45786709	45786709	+	Missense_Mutation	SNP	G	G	A	rs45544142	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	33.0	51.0	0.0	0.507692	0	G|0.962;A|0.038	0.038	strong	.	TRPM2	196	.	NM_003307	exon4	c.G496A	p.V166I	CTGGACGTCCCCA	.	PASS	Atlas-SNP
MBLAC1	255374	hgsc.bcm.edu	37	7	99725466	99725466	+	Missense_Mutation	SNP	G	G	T	rs78225840	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	27.0	32.0	0.0	0.55102	0	G|0.980;T|0.020	0.020	strong	.	MBLAC1	13	.	NM_203397	exon2	c.G448T	p.G150C	GGGCTGGGTGAGG	.	PASS	Atlas-SNP
TTLL11	158135	hgsc.bcm.edu	37	9	124633018	124633018	+	Silent	SNP	C	C	T	rs16911064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	67.0	159.0	0.0	0.507576	0	C|0.983;T|0.017	0.017	strong	.	TTLL11	67	.	NM_001139442	exon7	c.G1761A	p.Q587Q	TTCAAGCTGCTGA	.	PASS	Atlas-SNP
IL17RA	23765	hgsc.bcm.edu	37	22	17589983	17589983	+	Missense_Mutation	SNP	G	G	A	rs189025188	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	16.0	12.0	10.0	0.0	0.75	0	G|0.999;A|0.001	0.001	strong	.	IL17RA	62	.	NM_014339	exon13	c.G1874A	p.R625H	TGGTGCGCGAGCC	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	37	17	5085247	5085247	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	16.0	155.0	0.0	0.163265	0	.	.	none	.	ZNF594	89	.	NM_032530	exon2	c.A2305G	p.T769A	GGAAGGTCCTACT	.	PASS	Atlas-SNP
FAM46C	54855	hgsc.bcm.edu	37	1	118166195	118166195	+	Silent	SNP	C	C	T	rs10923359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	56.0	135.0	0.0	0.4375	0	C|0.979;T|0.021	0.021	strong	.	FAM46C	25	.	NM_017709	exon2	c.C705T	p.N235N	CAAGAACCCAGAA	.	PASS	Atlas-SNP
FAM194B	220081	hgsc.bcm.edu	37	13	46170898	46170898	+	Silent	SNP	C	C	T	rs78950901	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	334.0	163.0	340.0	0.0	0.488024	0	C|0.987;T|0.013	0.013	strong	.	FAM194B	42	.	NM_182542	exon3	c.G243A	p.K81K	TTCCTCCTTCAAG	.	PASS	Atlas-SNP
PIF1	80119	hgsc.bcm.edu	37	15	65108939	65108939	+	Missense_Mutation	SNP	A	A	G	rs138069301	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	84.0	175.0	0.0	0.482759	0	A|1.000;G|0.000	0.000	weak	.	PIF1	43	.	NM_025049	exon12	c.T1700C	p.I567T	AGAGAAATCTCCA	.	PASS	Atlas-SNP
SLC35D3	340146	hgsc.bcm.edu	37	6	137245567	137245567	+	Missense_Mutation	SNP	C	C	A	rs116512494	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	59.0	88.0	0.0	0.561905	0	C|0.988;A|0.012	0.012	strong	.	SLC35D3	33	.	NM_001008783	exon2	c.C984A	p.D328E	TGGAGACCAGCTG	.	PASS	Atlas-SNP
EPOR	2057	hgsc.bcm.edu	37	19	11489049	11489049	+	Missense_Mutation	SNP	G	G	C	rs35423344	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	19.0	32.0	0.0	0.558824	0	G|0.941;C|0.059	0.059	strong	.	EPOR	26	.	NM_000121	exon8	c.C1138G	p.P380A	TGGGCGGGTTCCG	.	PASS	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	37	5	140222534	140222534	+	Missense_Mutation	SNP	C	C	A	rs6889154	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	29.0	55.0	0.0	0.508772	0	C|0.978;A|0.022	0.022	strong	PCDHA8_ENST00000531613,NS,carcinoma,-1,6	PCDHA8	366	6	NM_031856	exon1	c.C1628A	p.P543Q	GCGTGCCGCCTCT	.	PASS	Atlas-SNP
CLUH	23277	hgsc.bcm.edu	37	17	2604698	2604698	+	Silent	SNP	G	G	A	rs115717445	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	53.0	95.0	0.0	0.609195	0	G|0.993;A|0.007	0.007	strong	.	.	.	.	NM_015229	exon6	c.C747T	p.V249V	GATGCTGACTTGC	.	PASS	Atlas-SNP
MXRA8	54587	hgsc.bcm.edu	37	1	1290408	1290408	+	Silent	SNP	A	A	G	rs147996767	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	14.0	7.0	11.0	0.0	0.5	0	A|0.939;G|0.061	0.061	strong	.	MXRA8	28	.	NM_032348	exon5	c.T603C	p.A201A	CTGTTGAGCCTCC	.	PASS	Atlas-SNP
ZSCAN10	84891	hgsc.bcm.edu	37	16	3140601	3140601	+	Silent	SNP	C	C	T	rs140690870	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	30.0	11.0	41.0	0.0	0.366667	0	C|0.991;T|0.009	0.009	strong	.	ZSCAN10	63	.	NM_032805	exon5	c.G669A	p.E223E	TTTGGGCTCTTCT	.	PASS	Atlas-SNP
OR1L1	26737	hgsc.bcm.edu	37	9	125424164	125424164	+	Missense_Mutation	SNP	C	C	T	rs111803762	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	226.0	151.0	155.0	0.0	0.668142	0	C|0.987;T|0.013	0.013	strong	OR1L1,caecum,carcinoma,0,1	OR1L1	54	1	NM_001005236	exon1	c.C170T	p.T57M	TCCAGACGCCCAT	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124270467	124270467	+	Silent	SNP	C	C	T	rs116310078	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	30.0	27.0	0.0	0.5	0	C|0.994;T|0.006	0.006	strong	.	DNAH10	888	.	NM_207437	exon9	c.C1222T	p.L408L	GTCAACCTGCGGA	.	PASS	Atlas-SNP
PCDHA5	56143	hgsc.bcm.edu	37	5	140202821	140202821	+	Silent	SNP	C	C	G	rs80008076	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	276.0	145.0	258.0	0.0	0.525362	0	C|0.983;G|0.017	0.017	strong	PCDHA5_ENST00000529859,NS,carcinoma,0,2	PCDHA5	361	2	NM_018908	exon1	c.C1461G	p.A487A	GAACGCCCTGGTG	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	37	16	31382464	31382464	+	Silent	SNP	G	G	C	rs2230426	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	36.0	68.0	0.0	0.467532	0	G|0.961;C|0.039	0.039	strong	.	ITGAX	198	.	NM_000887	exon15	c.G1770C	p.G590G	GAGCGGGGGTCAA	.	PASS	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	37	6	75899300	75899300	+	Missense_Mutation	SNP	T	T	G	rs75535959	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	50.0	74.0	0.0	0.549451	0	T|0.984;G|0.016	0.016	strong	.	COL12A1	385	.	NM_004370	exon6	c.A626C	p.K209T	GGAATTTTTTTTA	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112175240	112175240	+	Missense_Mutation	SNP	G	G	C	rs1801166	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	54.0	171.0	0.0	0.333333	0	G|0.992;C|0.008	0.008	strong	APC,bladder,carcinoma,0,14	APC	4158	14	NM_001127510	exon17	c.G3949C	p.E1317Q	TCAGCTGAAGATC	.	PASS	Atlas-SNP
KRTAP16-1	100505753	hgsc.bcm.edu	37	17	39464934	39464934	+	Missense_Mutation	SNP	G	G	A	rs150797223	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	86.0	162.0	0.0	0.452632	0	G|0.995;A|0.005	0.005	strong	.	KRTAP16-1	12	.	NM_001146182	exon1	c.C572T	p.P191L	AGGACAGGCTGGC	.	PASS	Atlas-SNP
SNX5	27131	hgsc.bcm.edu	37	20	17923043	17923043	+	Silent	SNP	G	G	A	rs9322		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	66.0	123.0	0.0	0.528	0	G|1.000;|0.000	.	weak	.	SNX5	38	.	NM_014426	exon13	c.C1173T	p.V391V	AAGGGAGACATTG	.	PASS	Atlas-SNP
DENND2A	27147	hgsc.bcm.edu	37	7	140227184	140227184	+	Silent	SNP	C	C	T	rs76760136	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	209.0	113.0	243.0	0.0	0.54067	0	C|0.995;T|0.005	0.005	strong	.	DENND2A	132	.	NM_015689	exon13	c.G2439A	p.P813P	GGGCGTCGGCGAG	.	PASS	Atlas-SNP
ATP2C1	27032	hgsc.bcm.edu	37	3	130698205	130698205	+	Silent	SNP	C	C	T	rs114319700	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	87.0	122.0	0.0	0.59589	0	C|0.995;T|0.005	0.005	strong	.	ATP2C1	94	.	NM_001199181	exon18	c.C1785T	p.A595A	CATTGCCTCAGGA	.	PASS	Atlas-SNP
EPHA10	284656	hgsc.bcm.edu	37	1	38188736	38188736	+	Missense_Mutation	SNP	G	G	A	rs146568133	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	57.0	128.0	0.0	0.483051	0	G|0.999;A|0.001	0.001	strong	.	EPHA10	120	.	NM_001099439	exon10	c.C1937T	p.T646M	TCCAGCGTGACGC	.	PASS	Atlas-SNP
POM121L2	94026	hgsc.bcm.edu	37	6	27279877	27279877	+	Missense_Mutation	SNP	T	T	C	rs11965377	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	39.0	93.0	0.0	0.410526	0	T|0.968;C|0.032	0.032	strong	.	POM121L2	61	.	NM_033482	exon1	c.A73G	p.R25G	TGGGCCTCTCGGG	.	PASS	Atlas-SNP
EVI5L	115704	hgsc.bcm.edu	37	19	7914022	7914022	+	Silent	SNP	C	C	T	rs554853	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	34.0	65.0	0.0	0.465753	0	C|0.984;T|0.016	0.016	strong	.	EVI5L	43	.	NM_001159944	exon3	c.C543T	p.N181N	CTTCAACGTCATG	.	PASS	Atlas-SNP
UBA1	7317	hgsc.bcm.edu	37	X	47070261	47070261	+	Silent	SNP	G	G	A	rs2230147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	94.0	177.0	0.0	0.522222	0	0|0.004;A|0.126	0.126	strong	.	UBA1	89	.	NM_153280	exon19	c.G2220A	p.P740P	AGCGCCGTTCTGG	.	PASS	Atlas-SNP
PCDHB4	56131	hgsc.bcm.edu	37	5	140503278	140503278	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	24.0	61.0	1.0	0.369231	0.0163934	.	.	none	PCDHB4,NS,carcinoma,+1,1	PCDHB4	177	1	NM_018938	exon1	c.T1698C	p.N566N	GCAGAATGGCTCC	.	scavenged	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40364011	40364011	+	Silent	SNP	G	G	A	rs78835791	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	65.0	146.0	0.0	0.445205	0	G|0.988;A|0.012	0.012	strong	.	FCGBP	416	.	NM_003890	exon31	c.C14631T	p.S4877S	GGAGCAGGAGCCA	.	PASS	Atlas-SNP
RGMA	56963	hgsc.bcm.edu	37	15	93588657	93588657	+	Silent	SNP	G	G	A	rs61733836	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	38.0	77.0	0.0	0.452381	0	G|0.994;A|0.006	0.006	strong	.	RGMA	49	.	NM_001166283	exon4	c.C948T	p.D316D	CTGGCTGTCCCAG	.	PASS	Atlas-SNP
SLC6A16	28968	hgsc.bcm.edu	37	19	49793620	49793620	+	Silent	SNP	C	C	T	rs34817563	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	68.0	134.0	0.0	0.511278	0	C|0.989;T|0.011	0.011	strong	.	SLC6A16	62	.	NM_014037	exon12	c.G1971A	p.P657P	TGCCCACGGTGGG	.	PASS	Atlas-SNP
LYPLA1	10434	hgsc.bcm.edu	37	8	54967638	54967638	+	Missense_Mutation	SNP	A	A	C	rs76859468	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	108.0	212.0	0.0	0.484305	0	A|0.983;C|0.017	0.017	strong	.	LYPLA1	15	.	NM_006330	exon6	c.T342G	p.I114M	TCCCAAAATAATT	.	PASS	Atlas-SNP
WWC3	55841	hgsc.bcm.edu	37	X	10106971	10106971	+	Missense_Mutation	SNP	C	C	T	rs377116582		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	19.0	16.0	10.0	0.0	0.842105	0	.	.	weak	.	WWC3	142	.	NM_015691	exon21	c.C3079T	p.R1027W	GCCGAGCGGCAGG	.	PASS	Atlas-SNP
TACSTD2	4070	hgsc.bcm.edu	37	1	59041940	59041940	+	Missense_Mutation	SNP	T	T	C	rs114373153	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	61.0	103.0	0.0	0.580952	0	T|0.965;C|0.035	0.035	strong	.	TACSTD2	6	.	NM_002353	exon1	c.A889G	p.I297V	TGGTGATCACCAG	.	PASS	Atlas-SNP
ASXL1	171023	hgsc.bcm.edu	37	20	31022480	31022480	+	Silent	SNP	C	C	T	rs79865730	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	33.0	29.0	0.0	0.611111	0	C|0.993;T|0.007	0.007	strong	.	ASXL1	1114	.	NM_015338	exon12	c.C1965T	p.T655T	GGCCACCGATGAG	.	PASS	Atlas-SNP
GANC	2595	hgsc.bcm.edu	37	15	42585099	42585099	+	Missense_Mutation	SNP	A	A	G	rs16973015	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	99.0	177.0	0.0	0.582353	0	A|0.989;G|0.011	0.011	strong	.	GANC	57	.	NM_198141	exon5	c.A496G	p.I166V	CTACAGATTCTTC	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149486367	149486367	+	Missense_Mutation	SNP	C	C	A	rs855692	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	47.0	81.0	0.0	0.54023	0	C|0.968;A|0.032	0.032	strong	.	.	.	.	NM_198455	exon30	c.C4343A	p.P1448Q	ATGAGCCGAGCTA	.	PASS	Atlas-SNP
AFP	174	hgsc.bcm.edu	37	4	74316461	74316461	+	Silent	SNP	C	C	T	rs115622472	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	70.0	145.0	0.0	0.434783	0	C|0.994;T|0.006	0.006	strong	.	AFP	60	.	NM_001134	exon11	c.C1419T	p.G473G	CTGTGGCGAGGGA	.	PASS	Atlas-SNP
FAM83B	222584	hgsc.bcm.edu	37	6	54805074	54805074	+	Missense_Mutation	SNP	C	C	G	rs9475076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	54.0	80.0	0.0	0.490909	0	C|0.945;G|0.055	0.055	strong	.	FAM83B	186	.	NM_001010872	exon5	c.C1305G	p.S435R	TGTAAGCCACCAC	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536114	1536114	+	Silent	SNP	C	C	A	rs79788206	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	37.0	76.0	0.0	0.445783	0	C|0.976;A|0.024	0.024	strong	.	PTX4	46	.	NM_001013658	exon3	c.G1248T	p.V416V	GCTCCCCACGAAG	.	PASS	Atlas-SNP
NLRC5	84166	hgsc.bcm.edu	37	16	57071167	57071167	+	Silent	SNP	G	G	A	rs137919442	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	23.0	62.0	0.0	0.343284	0	G|0.998;A|0.002	0.002	strong	.	NLRC5	186	.	NM_032206	exon14	c.G2772A	p.A924A	GAGTGCGTGCTGG	.	PASS	Atlas-SNP
WDR93	56964	hgsc.bcm.edu	37	15	90281452	90281452	+	Missense_Mutation	SNP	G	G	A	rs35389334	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	72.0	105.0	0.0	0.553846	0	G|0.977;A|0.023	0.023	strong	WDR93,colon,carcinoma,+1,1	WDR93	63	1	NM_020212	exon16	c.G1946A	p.R649H	GTGAGCGTTTCCT	.	PASS	Atlas-SNP
IL4I1	259307	hgsc.bcm.edu	37	19	50393743	50393743	+	Silent	SNP	A	A	G	rs61740372	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	40.0	63.0	0.0	0.526316	0	A|0.982;G|0.018	0.018	strong	.	IL4I1	50	.	NM_172374	exon10	c.T954C	p.D318D	GTGCACATCGTGC	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	37	17	80887123	80887123	+	Missense_Mutation	SNP	G	G	T	rs8072406	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	53.0	119.0	0.0	0.477477	0	G|0.974;T|0.026	0.026	strong	.	TBCD	94	.	NM_005993	exon31	c.G2828T	p.G943V	ACCGAGGAGAACT	.	PASS	Atlas-SNP
DDX5	1655	hgsc.bcm.edu	37	17	62499163	62499163	+	Silent	SNP	C	C	T	rs56025355	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	169.0	68.0	153.0	0.0	0.402367	0	C|0.993;T|0.007	0.007	strong	.	DDX5	101	.	NM_004396	exon8	c.G864A	p.Q288Q	AGCAAGCTGTCTT	.	PASS	Atlas-SNP
PCDHA5	56143	hgsc.bcm.edu	37	5	140202132	140202132	+	Missense_Mutation	SNP	A	A	G	rs61730633	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	52.0	130.0	0.0	0.412698	0	A|0.993;G|0.007	0.007	strong	.	PCDHA5	361	.	NM_018908	exon1	c.A772G	p.T258A	AGTGGGACATTAG	.	PASS	Atlas-SNP
TNFRSF25	8718	hgsc.bcm.edu	37	1	6524649	6524649	+	Silent	SNP	T	T	C	rs35137293	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	50.0	131.0	0.0	0.454545	0	T|0.978;C|0.022	0.022	strong	.	TNFRSF25	22	.	NM_148966	exon4	c.A426G	p.L142L	GCAGTCTAGGCAT	.	PASS	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22960655	22960655	+	Silent	SNP	C	C	T	rs374790272	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	40.0	77.0	0.0	0.487805	0	.	.	alt	.	TNFRSF10C	30	.	NM_003841	exon1	c.C21T	p.T7T	CAAGACCCTAAAG	.	PASS	Atlas-SNP
PAX8	7849	hgsc.bcm.edu	37	2	113994191	113994191	+	Silent	SNP	G	G	A	rs112872760	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	35.0	52.0	0.0	0.507246	0	G|0.999;A|0.001	0.001	strong	.	PAX8	42	.	NM_013952	exon8	c.C885T	p.Y295Y	CACGGGGTAGGTC	.	PASS	Atlas-SNP
ADAM18	8749	hgsc.bcm.edu	37	8	39468128	39468128	+	Missense_Mutation	SNP	A	A	T	rs73605945	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	280.0	125.0	289.0	0.0	0.446429	0	A|0.964;T|0.036	0.036	strong	.	ADAM18	169	.	NM_001190956	exon6	c.A425T	p.Q142L	TTTATCAAATGAA	.	PASS	Atlas-SNP
BSN	8927	hgsc.bcm.edu	37	3	49698695	49698695	+	Silent	SNP	T	T	C	rs149210839	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	70.0	163.0	0.0	0.454545	0	T|0.998;C|0.002	0.002	strong	.	BSN	272	.	NM_003458	exon6	c.T9417C	p.R3139R	TAGCCGTGCCCCA	.	PASS	Atlas-SNP
AXDND1	126859	hgsc.bcm.edu	37	1	179363114	179363114	+	Missense_Mutation	SNP	G	G	C	rs139341288	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	33.0	75.0	0.0	0.417722	0	G|0.997;C|0.003	0.003	strong	.	AXDND1	142	.	NM_144696	exon10	c.G940C	p.V314L	CAGCGAGTGATGG	.	PASS	Atlas-SNP
OR10K1	391109	hgsc.bcm.edu	37	1	158435573	158435573	+	Silent	SNP	C	C	G	rs76205582	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	474.0	205.0	489.0	1.0	0.432489	0.00204499	C|0.966;G|0.034	0.034	strong	.	OR10K1	80	.	NM_001004473	exon1	c.C222G	p.T74T	CTATACCTTTGTC	.	PASS	Atlas-SNP
CEACAM5	1048	hgsc.bcm.edu	37	19	42221418	42221418	+	Missense_Mutation	SNP	G	G	A	rs75927810	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	91.0	142.0	0.0	0.52907	0	G|0.985;A|0.015	0.015	strong	CEACAM5,NS,carcinoma,-2,1	CEACAM5	84	1	NM_004363	exon5	c.G1003A	p.V335M	AACCCCGTGGAGG	.	PASS	Atlas-SNP
MPRIP	23164	hgsc.bcm.edu	37	17	17030129	17030129	+	Silent	SNP	G	G	A	rs140002644	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	52.0	160.0	0.0	0.382353	0	G|0.998;A|0.002	0.002	strong	.	MPRIP	87	.	NM_015134	exon4	c.G381A	p.E127E	GAAGGAGCATTTC	.	PASS	Atlas-SNP
OPRL1	4987	hgsc.bcm.edu	37	20	62729843	62729843	+	Silent	SNP	A	A	G	rs34874539	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	224.0	114.0	190.0	0.0	0.508929	0	A|0.979;G|0.021	0.021	strong	.	OPRL1	47	.	NM_000913	exon4	c.A804G	p.V268V	GGTGGTAGTGGCT	.	PASS	Atlas-SNP
NUP155	9631	hgsc.bcm.edu	37	5	37299007	37299007	+	Silent	SNP	G	G	A	rs216400	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	40.0	87.0	0.0	0.37037	0	G|0.967;A|0.033	0.033	strong	.	NUP155	116	.	NM_153485	exon32	c.C3756T	p.G1252G	AATTTTGCCAAGG	.	PASS	Atlas-SNP
GSDMD	79792	hgsc.bcm.edu	37	8	144641514	144641514	+	Silent	SNP	G	G	T	rs7840446	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	48.0	74.0	0.0	0.607595	0	G|0.971;T|0.029	0.029	strong	.	GSDMD	28	.	NM_001166237	exon5	c.G9T	p.S3S	GGGGTCGGCCTTT	.	PASS	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	37	8	104513156	104513156	+	Silent	SNP	C	C	A	rs78505067	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	47.0	80.0	0.0	0.494737	0	C|0.994;A|0.006	0.006	strong	.	RIMS2	1357	.	NM_001100117	exon1	c.C42A	p.I14I	TCCCATCCCGGCG	.	PASS	Atlas-SNP
C11orf53	341032	hgsc.bcm.edu	37	11	111156523	111156523	+	Missense_Mutation	SNP	G	G	T	rs74649813	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	34.0	75.0	0.0	0.607143	0	G|0.961;T|0.039	0.039	strong	C11orf53,NS,haematopoietic_neoplasm,-1,1	C11orf53	17	1	NM_198498	exon4	c.G455T	p.W152L	CAAGCTGGGGGTC	.	PASS	Atlas-SNP
ZNF846	162993	hgsc.bcm.edu	37	19	9868764	9868764	+	Missense_Mutation	SNP	C	C	G	rs60387559	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	39.0	105.0	0.0	0.4875	0	C|0.992;G|0.007;T|0.000	0.007	strong	ZNF846,NS,carcinoma,0,3	ZNF846	61	3	NM_001077624	exon6	c.G989C	p.R330P	TGAATTCGCATGT	.	PASS	Atlas-SNP
GPRIN3	285513	hgsc.bcm.edu	37	4	90170015	90170015	+	Missense_Mutation	SNP	C	C	A	rs114960901	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	95.0	172.0	0.0	0.5	0	C|0.991;A|0.009	0.009	strong	GPRIN3,colon,carcinoma,+1,1	GPRIN3	90	1	NM_198281	exon2	c.G1247T	p.G416V	AGGACCCCACCTG	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	37	8	8176770	8176770	+	Missense_Mutation	SNP	C	C	T	rs28533138	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	44.0	93.0	0.0	0.458333	0	C|0.982;T|0.018	0.018	strong	.	.	.	.	NM_001080826	exon5	c.G3115A	p.V1039M	CGGGCACGGACGG	.	PASS	Atlas-SNP
TMEM57	55219	hgsc.bcm.edu	37	1	25757607	25757607	+	Silent	SNP	C	C	T	rs114403991	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	34.0	36.0	0.0	0.618182	0	C|0.992;T|0.008	0.008	strong	.	TMEM57	72	.	NM_018202	exon1	c.C18T	p.A6A	GAACGCCGACTGC	.	PASS	Atlas-SNP
OR10T2	128360	hgsc.bcm.edu	37	1	158368915	158368915	+	Silent	SNP	G	G	T	rs56704148	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	74.0	134.0	0.0	0.503401	0	G|0.989;T|0.011	0.011	strong	.	OR10T2	76	.	NM_001004475	exon1	c.C342A	p.L114L	AATGAGGAGGCAG	.	PASS	Atlas-SNP
SPATA17	128153	hgsc.bcm.edu	37	1	217824488	217824488	+	Silent	SNP	T	T	C	rs143446051	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	217.0	104.0	191.0	0.0	0.479263	0	T|0.998;C|0.002	0.002	strong	.	SPATA17	59	.	NM_138796	exon3	c.T208C	p.L70L	AGTTTCTTAGGCA	.	PASS	Atlas-SNP
RRP7A	27341	hgsc.bcm.edu	37	22	42910142	42910142	+	Missense_Mutation	SNP	C	C	T	rs61731241	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	35.0	49.0	0.0	0.466667	0	C|0.958;T|0.042	0.042	strong	.	RRP7A	25	.	NM_015703	exon6	c.G727A	p.A243T	GCCAGGCGTAGAA	.	PASS	Atlas-SNP
DDX55	57696	hgsc.bcm.edu	37	12	124090655	124090655	+	Silent	SNP	C	C	T	rs7973689	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	56.0	93.0	0.0	0.533333	0	C|0.929;T|0.071	0.071	strong	.	DDX55	51	.	NM_020936	exon3	c.C195T	p.I65I	TGTCATCCCCATC	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	37	7	107756510	107756510	+	Missense_Mutation	SNP	A	A	G	rs35644375	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	41.0	92.0	0.0	0.405941	0	A|0.908;G|0.092	0.092	strong	.	LAMB4	253	.	NM_007356	exon3	c.T131C	p.M44T	GAAGCCATAAGCT	.	PASS	Atlas-SNP
FANCI	55215	hgsc.bcm.edu	37	15	89849413	89849413	+	Silent	SNP	C	C	A	rs114810692	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	32.0	66.0	0.0	0.470588	0	C|0.994;A|0.006	0.006	strong	.	FANCI	129	.	NM_001113378	exon32	c.C3525A	p.A1175A	TACAGCCCTTGTC	.	PASS	Atlas-SNP
TMEM218	219854	hgsc.bcm.edu	37	11	124972114	124972114	+	Silent	SNP	G	G	A	rs7114520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	43.0	88.0	0.0	0.544304	0	G|0.946;A|0.054	0.054	strong	.	TMEM218	14	.	NM_001258243	exon4	c.C129T	p.V43V	CGCACCGACTCCG	.	PASS	Atlas-SNP
SCN3B	55800	hgsc.bcm.edu	37	11	123516316	123516316	+	Silent	SNP	G	G	A	rs115752338	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	68.0	145.0	0.0	0.607143	0	G|0.990;A|0.010	0.010	strong	.	SCN3B	53	.	NM_018400	exon2	c.C198T	p.P66P	GCCCTCGGGCCTG	.	PASS	Atlas-SNP
MED15	51586	hgsc.bcm.edu	37	22	20909389	20909389	+	Silent	SNP	G	G	A	rs147554746	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	24.0	47.0	0.0	0.45283	0	G|1.000;A|0.000	0.000	strong	.	MED15	68	.	NM_015889	exon5	c.G405A	p.G135G	CTCGGGGATGGCC	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114358449	114358449	+	Silent	SNP	C	C	T	rs79120696	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	58.0	102.0	0.0	0.537037	0	C|0.917;T|0.083	0.083	strong	.	RBM19	117	.	NM_001146699	exon19	c.G2352A	p.P784P	TTGCTCCGGCTTC	.	PASS	Atlas-SNP
GPRC6A	222545	hgsc.bcm.edu	37	6	117127551	117127551	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	4.0	75.0	0.0	0.0454545	0	.	.	none	.	GPRC6A	152	.	NM_148963	exon3	c.C1317T	p.N439N	AAAGGCGTTGGGG	.	PASS	Atlas-SNP
GRAMD3	65983	hgsc.bcm.edu	37	5	125696124	125696124	+	Missense_Mutation	SNP	T	T	A	rs79046516	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	82.0	184.0	0.0	0.381395	0	T|0.975;A|0.025	0.025	strong	.	GRAMD3	30	.	NM_001146319	exon1	c.T101A	p.V34E	GAGAAGTGAAGCC	.	PASS	Atlas-SNP
NRCAM	4897	hgsc.bcm.edu	37	7	107790417	107790417	+	Missense_Mutation	SNP	C	C	T	rs74708699	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	93.0	214.0	0.0	0.531429	0	C|0.990;T|0.010	0.010	strong	.	NRCAM	267	.	NM_001037132	exon30	c.G3853A	p.A1285T	CTTCAGCCGGCTC	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157959870	157959870	+	Silent	SNP	G	G	T	rs112343839	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	33.0	76.0	0.0	0.52381	0	G|0.985;T|0.015	0.015	strong	.	PTPRN2	243	.	NM_130843	exon6	c.C663A	p.L221L	CTGGCCGAGGGTC	.	PASS	Atlas-SNP
PPP1R1B	84152	hgsc.bcm.edu	37	17	37791894	37791894	+	Silent	SNP	A	A	G	rs34257414	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	43.0	76.0	0.0	0.467391	0	A|0.979;G|0.021	0.021	strong	.	PPP1R1B	9	.	NM_032192	exon6	c.A480G	p.E160E	TCTGGAAGGGCCC	.	PASS	Atlas-SNP
SLC9A8	23315	hgsc.bcm.edu	37	20	48472098	48472098	+	Silent	SNP	A	A	G	rs35137210	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	85.0	164.0	0.0	0.52795	0	A|0.994;G|0.006	0.006	strong	.	SLC9A8	63	.	NM_001260491	exon8	c.A741G	p.A247A	CGATGCAGTCTCC	.	PASS	Atlas-SNP
SLC19A3	80704	hgsc.bcm.edu	37	2	228566993	228566993	+	Silent	SNP	G	G	A	rs34080459	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	34.0	78.0	0.0	0.478873	0	G|0.982;A|0.018	0.018	strong	.	SLC19A3	62	.	NM_025243	exon2	c.C42T	p.Y14Y	AGTGGGGTAAATC	.	PASS	Atlas-SNP
ROBO1	6091	hgsc.bcm.edu	37	3	78676701	78676701	+	Silent	SNP	T	T	C	rs116125749	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	244.0	120.0	268.0	0.0	0.491803	0	T|0.991;C|0.009	0.009	strong	.	ROBO1	833	.	NM_002941	exon26	c.A3645G	p.P1215P	GGGACATGGCATT	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188023	140188023	+	Silent	SNP	C	C	T	rs7702779	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	295.0	151.0	268.0	0.0	0.511864	0	C|0.944;T|0.056	0.056	strong	.	PCDHA4	419	.	NM_031500	exon1	c.C1251T	p.S417S	CGAGAGCGTGTCA	.	PASS	Atlas-SNP
GATAD2B	57459	hgsc.bcm.edu	37	1	153788927	153788927	+	Silent	SNP	G	G	A	rs114813239	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	307.0	144.0	289.0	0.0	0.469055	0	G|0.987;A|0.013	0.013	strong	.	GATAD2B	62	.	NM_020699	exon7	c.C1038T	p.A346A	TGAGTTGGCAGCA	.	PASS	Atlas-SNP
ND4L	0	hgsc.bcm.edu	37	MT	10586	10586	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	8.0	8.0	14.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361335	exon1	c.G117A	p.S39S	ACTATCGCTGTTC	.	PASS	Atlas-SNP
WDR34	89891	hgsc.bcm.edu	37	9	131398633	131398633	+	Silent	SNP	C	C	T	rs61744155	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	30.0	92.0	0.0	0.272727	0	C|0.978;T|0.022	0.022	strong	.	WDR34	29	.	NM_052844	exon4	c.G630A	p.P210P	GGCCGACGGCTGC	.	PASS	Atlas-SNP
FUCA2	2519	hgsc.bcm.edu	37	6	143816869	143816869	+	Missense_Mutation	SNP	G	G	A	rs151156975		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	66.0	109.0	0.0	0.55	0	G|1.000;A|0.000	0.000	weak	.	FUCA2	28	.	NM_032020	exon7	c.C1379T	p.A460V	GCTAGAGCCCAGC	.	PASS	Atlas-SNP
KRTAP10-3	386682	hgsc.bcm.edu	37	21	45978128	45978128	+	Silent	SNP	G	G	A	rs186210430	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	99.0	149.0	0.0	0.52381	0	G|0.992;A|0.008	0.008	strong	.	KRTAP10-3	17	.	NM_198696	exon1	c.C471T	p.S157S	GGACACGGAGGAG	.	PASS	Atlas-SNP
CSTB	1476	hgsc.bcm.edu	37	21	45196136	45196136	+	Silent	SNP	C	C	A	rs4533	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	16.0	13.0	0.0	0.571429	0	C|0.988;A|0.012	0.012	strong	.	CSTB	3	.	NM_000100	exon1	c.G15T	p.A5A	GGAGGGCGCCCCG	.	PASS	Atlas-SNP
TRIML1	339976	hgsc.bcm.edu	37	4	189061010	189061010	+	Missense_Mutation	SNP	A	A	G	rs111308948	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	73.0	134.0	0.0	0.467949	0	A|0.962;G|0.038	0.038	strong	.	TRIML1	126	.	NM_178556	exon1	c.A298G	p.T100A	ATGCCCACCACTG	.	PASS	Atlas-SNP
CPN2	1370	hgsc.bcm.edu	37	3	194062821	194062821	+	Missense_Mutation	SNP	G	G	A	rs146126834	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	77.0	124.0	0.0	0.542253	0	G|0.996;A|0.004	0.004	strong	CPN2,NS,carcinoma,0,1	CPN2	56	1	NM_001080513	exon2	c.C611T	p.A204V	GAGAGCGCGTTGT	.	PASS	Atlas-SNP
USP34	9736	hgsc.bcm.edu	37	2	61433919	61433919	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	40.0	101.0	0.0	0.449438	0	.	.	none	.	USP34	334	.	NM_014709	exon71	c.A9022G	p.T3008A	GGCGTGTAGACTT	.	PASS	Atlas-SNP
TRAM1L1	133022	hgsc.bcm.edu	37	4	118005458	118005458	+	Silent	SNP	C	C	T	rs35809332	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	199.0	94.0	205.0	0.0	0.472362	0	C|0.987;T|0.013	0.013	strong	.	TRAM1L1	55	.	NM_152402	exon1	c.G1092A	p.R364R	CTCTTTCCTCTTT	.	PASS	Atlas-SNP
EXT2	2132	hgsc.bcm.edu	37	11	44129386	44129386	+	Missense_Mutation	SNP	A	A	G	rs4755779	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	98.0	188.0	0.0	0.480392	0	A|0.981;G|0.019	0.019	strong	.	EXT2	129	.	NM_000401	exon2	c.A223G	p.M75V	ACTGGCATGTTTC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228504486	228504486	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	60.0	65.0	0.0	0.606061	0	.	.	none	.	OBSCN	2142	.	NM_001271223	exon62	c.G16233A	p.T5411T	CTGCACGCTCAGC	.	PASS	Atlas-SNP
BUB1B	701	hgsc.bcm.edu	37	15	40453430	40453430	+	Silent	SNP	G	G	T	rs7168394	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	74.0	126.0	0.0	0.544118	0	G|0.922;T|0.078	0.078	strong	.	BUB1B	71	.	NM_001211	exon1	c.G9T	p.A3A	GGCGGCGGTGAAG	.	PASS	Atlas-SNP
NACA2	342538	hgsc.bcm.edu	37	17	59668275	59668275	+	Silent	SNP	T	T	A	rs61739271	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	257.0	134.0	310.0	0.0	0.521401	0	T|0.957;A|0.043	0.043	strong	.	NACA2	33	.	NM_199290	exon1	c.A267T	p.T89T	AACTCCTGTAACC	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88495021	88495021	+	Silent	SNP	C	C	A	rs74032864	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	53.0	32.0	0.0	1	0	C|0.956;A|0.044	0.044	strong	.	ZNF469	121	.	NM_001127464	exon1	c.C1143A	p.P381P	CCTTCCCGAAAGA	.	PASS	Atlas-SNP
TAS2R30	259293	hgsc.bcm.edu	37	12	11286688	11286688	+	Silent	SNP	C	C	T	rs375822837		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	357.0	187.0	305.0	1.0	0.52381	0.00327869	.	.	weak	.	TAS2R30	28	.	NM_001097643	exon1	c.G156A	p.A52A	GGAGACCGCCAGA	.	PASS	Atlas-SNP
SUPT16H	11198	hgsc.bcm.edu	37	14	21841524	21841524	+	Silent	SNP	A	A	G	rs75576875	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	84.0	126.0	0.0	0.494118	0	A|0.985;G|0.015	0.015	strong	.	SUPT16H	84	.	NM_007192	exon2	c.T132C	p.I44I	ATAAACAATTTCT	.	PASS	Atlas-SNP
ZCCHC9	84240	hgsc.bcm.edu	37	5	80608363	80608363	+	Missense_Mutation	SNP	A	A	C	rs144053491	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	54.0	116.0	0.0	0.504673	0	A|0.998;C|0.002	0.002	strong	.	ZCCHC9	26	.	NM_001131036	exon6	c.A698C	p.E233A	TTACAGAGCGAAT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507851	195507851	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	142.0	473.0	1.0	0.586777	0.00211416	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G10600C	p.A3534P	GCGTGGCGTGACC	.	PASS	Atlas-SNP
CHD1L	9557	hgsc.bcm.edu	37	1	146757092	146757092	+	Missense_Mutation	SNP	A	A	C	rs13374920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	95.0	176.0	0.0	0.519126	0	A|0.976;C|0.024	0.024	strong	CHD1L,right_upper_lobe,carcinoma,+1,1	CHD1L	72	1	NM_004284	exon17	c.A1946C	p.E649A	GACAAGAAGCAGC	.	PASS	Atlas-SNP
DENND6B	414918	hgsc.bcm.edu	37	22	50752258	50752258	+	Silent	SNP	G	G	A	rs115446109	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	59.0	97.0	0.0	0.468254	0	G|0.984;A|0.016	0.016	strong	.	.	.	.	NM_001001794	exon14	c.C1188T	p.L396L	CCGTTTGAGCAGC	.	PASS	Atlas-SNP
DUSP27	92235	hgsc.bcm.edu	37	1	167095768	167095768	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	13.0	83.0	0.0	0.132653	0	.	.	none	DUSP27,NS,carcinoma,0,2	DUSP27	235	2	NM_001080426	exon5	c.G1400A	p.R467H	GGCGCCGCGCAGA	.	PASS	Atlas-SNP
WWP1	11059	hgsc.bcm.edu	37	8	87414308	87414308	+	Silent	SNP	A	A	G	rs74884162		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	104.0	216.0	1.0	0.530612	0.00462963	.	.	weak	.	WWP1	97	.	NM_007013	exon8	c.A600G	p.Q200Q	AGTCCAAAACTCA	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	37	1	173552703	173552703	+	Silent	SNP	G	G	A	rs16828416	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	98.0	212.0	0.0	0.485149	0	G|0.910;A|0.090	0.090	strong	.	.	.	.	NM_178527	exon6	c.C582T	p.I194I	TGATGCGATGCTA	.	PASS	Atlas-SNP
ARMC5	79798	hgsc.bcm.edu	37	16	31477442	31477442	+	Silent	SNP	T	T	C	rs116201073	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	55.0	56.0	1.0	1	0.0178571	T|0.974;C|0.026	0.026	strong	ARMC5,NS,carcinoma,0,1	ARMC5	94	1	NM_001105247	exon6	c.T2040C	p.G680G	GGGTGGTCTCCGG	.	scavenged	Atlas-SNP
XAB2	56949	hgsc.bcm.edu	37	19	7692132	7692132	+	Silent	SNP	G	G	A	rs4134824	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	24.0	29.0	0.0	0.615385	0	G|0.990;A|0.010	0.010	strong	.	XAB2	69	.	NM_020196	exon4	c.C519T	p.L173L	CACCTTGAGGAAG	.	PASS	Atlas-SNP
ZNF510	22869	hgsc.bcm.edu	37	9	99521150	99521150	+	Silent	SNP	T	T	C	rs61735521	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	103.0	148.0	0.0	0.635802	0	T|0.970;C|0.030	0.030	strong	.	ZNF510	59	.	NM_014930	exon6	c.A1962G	p.K654K	ATAAGATTTCTCC	.	PASS	Atlas-SNP
KRT24	192666	hgsc.bcm.edu	37	17	38859664	38859664	+	Silent	SNP	G	G	A	rs61237409	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	28.0	67.0	0.0	0.5	0	G|0.969;A|0.031	0.031	strong	.	KRT24	60	.	NM_019016	exon1	c.C282T	p.G94G	GACCCCGCCAAAG	.	PASS	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	37	4	87696623	87696623	+	Silent	SNP	C	C	T	rs148059206	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	69.0	141.0	0.0	0.482517	0	C|0.999;T|0.001	0.001	strong	.	PTPN13	203	.	NM_080685	exon35	c.C5724T	p.S1908S	TGACAGCCTTTAT	.	PASS	Atlas-SNP
TCOF1	6949	hgsc.bcm.edu	37	5	149759201	149759201	+	Missense_Mutation	SNP	C	C	T	rs114689020	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	75.0	170.0	0.0	0.528169	0	C|0.979;T|0.021	0.021	strong	.	TCOF1	154	.	NM_001135243	exon17	c.C2765T	p.S922L	GGCCTTCGGCTGC	.	PASS	Atlas-SNP
MVP	9961	hgsc.bcm.edu	37	16	29856082	29856082	+	Missense_Mutation	SNP	G	G	A	rs35916172	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	25.0	55.0	0.0	0.490196	0	G|0.985;A|0.015	0.015	strong	.	MVP	80	.	NM_017458	exon11	c.G1903A	p.V635I	CTGGTGGTCAGCA	.	PASS	Atlas-SNP
RAB40AL	282808	hgsc.bcm.edu	37	X	102192885	102192885	+	Silent	SNP	G	G	A	rs7876193	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	310.0	111.0	266.0	0.0	0.358065	0	G|0.981;A|0.019	0.019	strong	.	RAB40AL	33	.	NM_001031834	exon1	c.G639A	p.P213P	GCTCCCGCTCCCC	.	PASS	Atlas-SNP
TENM1	10178	hgsc.bcm.edu	37	X	123775824	123775824	+	Missense_Mutation	SNP	T	T	C	rs16999334	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	56.0	155.0	0.0	0.352201	0	0|0.018;C|0.053	0.053	strong	.	.	.	.	NM_001163278	exon11	c.A1894G	p.M632V	AACACATTGGGTC	.	PASS	Atlas-SNP
AKAP7	9465	hgsc.bcm.edu	37	6	131490324	131490324	+	Missense_Mutation	SNP	C	C	T	rs115301121	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	104.0	188.0	0.0	0.495238	0	C|0.993;T|0.007	0.007	strong	.	AKAP7	61	.	NM_016377	exon5	c.C500T	p.P167L	CTTTGCCCTTTCA	.	PASS	Atlas-SNP
STARD13	90627	hgsc.bcm.edu	37	13	33684221	33684221	+	Missense_Mutation	SNP	C	C	T	rs140868444	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	14.0	64.0	0.0	0.291667	0	C|0.996;T|0.004	0.004	strong	.	STARD13	100	.	NM_178006	exon12	c.G2836A	p.D946N	TCCCGTCGCCCAC	.	PASS	Atlas-SNP
ATP10A	57194	hgsc.bcm.edu	37	15	25959298	25959298	+	Missense_Mutation	SNP	T	T	C	rs141928852	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	30.0	58.0	0.0	0.428571	0	T|0.997;C|0.003	0.003	strong	.	ATP10A	270	.	NM_024490	exon10	c.A1867G	p.S623G	TGCTGCTGCAGCC	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48180311	48180311	+	Missense_Mutation	SNP	T	T	G	rs16945901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	63.0	133.0	0.0	0.492188	0	T|0.955;G|0.045	0.045	strong	.	ABCC12	190	.	NM_033226	exon1	c.A25C	p.I9L	CTGAGATAAGGTA	.	PASS	Atlas-SNP
PPEF2	5470	hgsc.bcm.edu	37	4	76788564	76788564	+	Missense_Mutation	SNP	C	C	T	rs34155925	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	66.0	127.0	0.0	0.485294	0	C|0.877;T|0.123	0.123	strong	.	PPEF2	108	.	NM_006239	exon14	c.G1658A	p.R553K	TCCACTCTGCTAA	.	PASS	Atlas-SNP
CAMK2D	817	hgsc.bcm.edu	37	4	114438740	114438740	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	4.0	66.0	0.0	0.0470588	0	.	.	none	.	CAMK2D	55	.	NM_172128	exon9	c.G675A	p.Q225Q	CTTGATCTGCTGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511524	195511524	+	Silent	SNP	G	G	A	rs201351734	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	20.0	126.0	0.0	0.175439	0	G|0.967;A|0.033	0.033	strong	MUC4_ENST00000463781,NS,carcinoma,-1,5	MUC4	1505	5	NM_018406	exon2	c.C6927T	p.D2309D	GGAAGCGTCGGTG	.	scavenged	Atlas-SNP
C17orf53	78995	hgsc.bcm.edu	37	17	42225250	42225250	+	Missense_Mutation	SNP	G	G	A	rs35879996	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	37.0	68.0	0.0	0.493333	0	G|0.983;A|0.017	0.017	strong	.	C17orf53	59	.	NM_001171251	exon3	c.G79A	p.A27T	GAGGATGCAGAGA	.	PASS	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	37	2	1642736	1642736	+	Missense_Mutation	SNP	C	C	T	rs61747868	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	47.0	105.0	0.0	0.439252	0	C|0.992;T|0.008	0.008	strong	.	PXDN	255	.	NM_012293	exon21	c.G4088A	p.G1363E	TGTTCCCCCTGTC	.	PASS	Atlas-SNP
OR7A10	390892	hgsc.bcm.edu	37	19	14952189	14952189	+	Silent	SNP	G	G	T	rs114596415	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	74.0	137.0	0.0	0.486842	0	G|0.980;T|0.020	0.020	strong	OR7A10,NS,carcinoma,-2,1	OR7A10	33	1	NM_001005190	exon1	c.C501A	p.P167P	ACAAAAGGGCAGT	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1531701	1531701	+	Silent	SNP	C	C	T	rs11553056	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	448.0	211.0	404.0	1.0	0.470982	0.00247525	C|0.981;T|0.019	0.019	strong	.	ASMTL	56	.	NM_004192	exon12	c.G1569A	p.L523L	CCGGCACAGGACG	.	PASS	Atlas-SNP
ATP1A4	480	hgsc.bcm.edu	37	1	160129273	160129273	+	Silent	SNP	G	G	A	rs61734686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	72.0	176.0	0.0	0.48	0	G|0.992;A|0.008	0.008	strong	.	ATP1A4	167	.	NM_144699	exon6	c.G735A	p.L245L	CCCTCTGGAGACC	.	PASS	Atlas-SNP
FLNA	2316	hgsc.bcm.edu	37	X	153581214	153581214	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	41.0	167.0	0.0	0.225275	0	.	.	none	.	FLNA	373	.	NM_001110556	exon39	c.G6305T	p.C2102F	ACCCTGCACGTCC	.	PASS	Atlas-SNP
FBF1	85302	hgsc.bcm.edu	37	17	73913827	73913827	+	Silent	SNP	G	G	T	rs150139322	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	85.0	161.0	0.0	0.459459	0	G|0.997;T|0.003	0.003	strong	.	FBF1	48	.	NM_001080542	exon22	c.C2446A	p.R816R	GCAGCCGGCTCTG	.	PASS	Atlas-SNP
OR4D9	390199	hgsc.bcm.edu	37	11	59283299	59283299	+	Missense_Mutation	SNP	T	T	C	rs79922105	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	26.0	69.0	0.0	0.313253	0	T|0.980;C|0.020	0.020	strong	.	OR4D9	47	.	NM_001004711	exon1	c.T914C	p.L305P	GACGGCTAGGACA	.	PASS	Atlas-SNP
ATP13A4	84239	hgsc.bcm.edu	37	3	193120627	193120627	+	Silent	SNP	C	C	T	rs61733355	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	63.0	128.0	0.0	0.431507	0	C|0.982;T|0.018	0.018	strong	.	ATP13A4	154	.	NM_032279	exon30	c.G3405A	p.L1135L	CATCCACAGGGCT	.	PASS	Atlas-SNP
NOP9	161424	hgsc.bcm.edu	37	14	24772373	24772373	+	Missense_Mutation	SNP	C	C	T	rs147123517	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	70.0	148.0	0.0	0.466667	0	C|0.996;T|0.004	0.004	strong	.	.	.	.	NM_174913	exon6	c.C1237T	p.R413C	GCCTGTCGCAGAG	.	PASS	Atlas-SNP
IRGQ	126298	hgsc.bcm.edu	37	19	44096772	44096772	+	Silent	SNP	C	C	T	rs114508854	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	13.0	21.0	0.0	0.5	0	C|0.981;T|0.019	0.019	strong	.	IRGQ	40	.	NM_001007561	exon3	c.G1278A	p.E426E	CGGCGCCTCCTCC	.	PASS	Atlas-SNP
NBPF7	343505	hgsc.bcm.edu	37	1	120378702	120378702	+	Silent	SNP	A	A	G	rs10158823	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	105.0	152.0	0.0	0.517241	0	A|0.919;G|0.081	0.081	strong	.	NBPF7	46	.	NM_001047980	exon7	c.T1044C	p.V348V	CTGTTCAACTAGT	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324254	39324254	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	33.0	434.0	0.0	0.157143	0	.	.	none	.	KRTAP4-3	40	.	NM_033187	exon1	c.C171T	p.S57S	GCAGCTGGAGATA	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156539169	156539169	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	43.0	153.0	0.0	0.401869	0	.	.	none	.	IQGAP3	146	.	NM_178229	exon2	c.C124T	p.R42C	CTCACCGCTTGGC	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84752784	84752784	+	Silent	SNP	A	A	C	rs73945104	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	130.0	277.0	0.0	0.498084	0	A|0.989;C|0.011	0.011	strong	.	DNAH6	194	.	NM_001370	exon3	c.A321C	p.P107P	ACGTCCAGTAAGC	.	PASS	Atlas-SNP
THBS1	7057	hgsc.bcm.edu	37	15	39874396	39874396	+	Missense_Mutation	SNP	T	T	G	rs41515347	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	41.0	76.0	0.0	0.43617	0	T|0.969;G|0.031	0.031	strong	.	THBS1	106	.	NM_003246	exon3	c.T70G	p.S24A	ACAGAGTCTGGCG	.	PASS	Atlas-SNP
LIPE	3991	hgsc.bcm.edu	37	19	42910416	42910416	+	Silent	SNP	C	C	T	rs28657829	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	56.0	92.0	0.0	0.451613	0	C|0.978;T|0.022	0.022	strong	LIPE,rectum,carcinoma,-1,1	LIPE	83	1	NM_005357	exon7	c.G2262A	p.P754P	TGTGGCCGGGTAG	.	PASS	Atlas-SNP
ODF2	4957	hgsc.bcm.edu	37	9	131260808	131260808	+	Missense_Mutation	SNP	C	C	G	rs16930426	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	76.0	128.0	0.0	0.649573	0	C|0.971;G|0.029	0.029	strong	.	ODF2	227	.	NM_153435	exon19	c.C2321G	p.T774S	GTGGGACCCTGGC	.	PASS	Atlas-SNP
SPAG4	6676	hgsc.bcm.edu	37	20	34208869	34208869	+	Silent	SNP	G	G	A	rs34962502	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	66.0	92.0	0.0	0.568965	0	G|0.986;A|0.014	0.014	strong	SPAG4,colon,carcinoma,+1,1	SPAG4	36	1	NM_003116	exon12	c.G1239A	p.T413T	TTTCACGTGCTTG	.	PASS	Atlas-SNP
OR10G4	390264	hgsc.bcm.edu	37	11	123886648	123886648	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	939.0	202.0	1243.0	0.0	0.215122	0	.	.	none	OR10G4,right_lower_lobe,carcinoma,-2,1	OR10G4	77	1	NM_001004462	exon1	c.T367C	p.L123L	CGCTACTTGGCCA	.	scavenged	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50810405	50810405	+	Silent	SNP	C	C	T	rs201839634	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	17.0	66.0	0.0	0.425	0	C|0.999;T|0.001	0.001	strong	.	MYH14	261	.	NM_001145809	exon41	c.C5778T	p.L1926L	CCAGCTCCGGGAC	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011547	46011547	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	330.0	34.0	254.0	0.0	0.10303	0	.	.	none	.	KRTAP10-6	57	.	NM_198688	exon1	c.C819T	p.P273P	GCAGACGGGCACA	.	PASS	Atlas-SNP
ATXN1	6310	hgsc.bcm.edu	37	6	16328115	16328115	+	Missense_Mutation	SNP	T	T	C	rs143125796	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	24.0	42.0	0.0	0.470588	0	T|0.999;C|0.001	0.001	strong	.	ATXN1	117	.	NM_001128164	exon7	c.A427G	p.I143V	ATGGGATGAAGCT	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2667005	2667005	+	Silent	SNP	T	T	C	rs7239096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	54.0	97.0	0.0	0.55102	0	T|0.974;C|0.026	0.026	strong	.	SMCHD1	88	.	NM_015295	exon3	c.T399C	p.Y133Y	ATATTATGCCAGT	.	PASS	Atlas-SNP
TSPAN9	10867	hgsc.bcm.edu	37	12	3389559	3389559	+	Silent	SNP	C	C	T	rs877089	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	13.0	38.0	0.0	0.342105	0	C|0.974;T|0.026	0.026	strong	.	TSPAN9	20	.	NM_006675	exon6	c.C342T	p.N114N	CGAGAACGCCAAG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179613258	179613258	+	Silent	SNP	A	A	C	rs72648906	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	97.0	190.0	0.0	0.480198	0	A|0.977;C|0.023	0.023	strong	.	TTN	18412	.	NM_133379	exon46	c.T13869G	p.S4623S	TATATGAGAATAC	.	PASS	Atlas-SNP
WRN	7486	hgsc.bcm.edu	37	8	30954338	30954338	+	Silent	SNP	C	C	T	rs11574263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	12.0	28.0	0.0	0.413793	0	C|0.997;T|0.003	0.003	strong	.	WRN	116	.	NM_000553	exon17	c.C1953T	p.G651G	CATGGGCCTGCTC	.	PASS	Atlas-SNP
EPB41L1	2036	hgsc.bcm.edu	37	20	34782156	34782156	+	Silent	SNP	G	G	A	rs111865221	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	77.0	137.0	0.0	0.452941	0	G|0.991;A|0.009	0.009	strong	.	EPB41L1	111	.	NM_001258329	exon13	c.G1323A	p.S441S	AGCCTCGGTCAGC	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46932079	46932079	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	45.0	95.0	0.0	0.505618	0	.	.	none	.	CELSR1	242	.	NM_014246	exon1	c.C989T	p.T330M	GGCGGCGTACTGT	.	PASS	Atlas-SNP
KIAA1407	57577	hgsc.bcm.edu	37	3	113699599	113699599	+	Missense_Mutation	SNP	C	C	G	rs35546981	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	266.0	121.0	223.0	1.0	0.454887	0.00448431	C|0.997;G|0.003	0.003	strong	.	KIAA1407	80	.	NM_020817	exon14	c.G2205C	p.Q735H	TTCCAGCTGCTGG	.	PASS	Atlas-SNP
OR10Z1	128368	hgsc.bcm.edu	37	1	158576472	158576472	+	Missense_Mutation	SNP	C	C	T	rs76424590	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	93.0	211.0	0.0	0.442857	0	C|0.962;T|0.038	0.038	strong	OR10Z1,NS,carcinoma,-2,1	OR10Z1	99	1	NM_001004478	exon1	c.C244T	p.L82F	AGAATGCTCTCTG	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43638436	43638436	+	Silent	SNP	G	G	T	rs6695238	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	66.0	95.0	0.0	0.511628	0	G|0.920;T|0.080	0.080	strong	.	WDR65	76	.	NM_152498	exon2	c.G12T	p.V4V	AGCCGTGGTAGCT	.	PASS	Atlas-SNP
RALGDS	5900	hgsc.bcm.edu	37	9	135974054	135974054	+	Missense_Mutation	SNP	C	C	T	rs143209866	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	65.0	132.0	0.0	0.343915	0	C|0.998;T|0.002	0.002	strong	.	RALGDS	75	.	NM_006266	exon18	c.G2665A	p.V889M	CCTTCACTCCCTT	.	PASS	Atlas-SNP
ATP6V0D2	245972	hgsc.bcm.edu	37	8	87162515	87162515	+	Missense_Mutation	SNP	G	G	A	rs10094744	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	45.0	107.0	0.0	0.445545	0	G|0.970;A|0.030	0.030	strong	.	ATP6V0D2	61	.	NM_152565	exon6	c.G814A	p.G272R	CATTACGGAGTAT	.	PASS	Atlas-SNP
ZP4	57829	hgsc.bcm.edu	37	1	238046056	238046056	+	Missense_Mutation	SNP	G	G	A	rs35187146	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	44.0	103.0	0.0	0.411215	0	G|0.985;A|0.015	0.015	strong	.	ZP4	161	.	NM_021186	exon11	c.C1481T	p.P494L	TCTGGAGGGTCCT	.	PASS	Atlas-SNP
CES5A	221223	hgsc.bcm.edu	37	16	55883667	55883667	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	31.0	58.0	0.0	0.574074	0	.	.	none	.	CES5A	206	.	NM_001190158	exon12	c.A1379G	p.Y460C	TAGAAGTAGACAG	.	PASS	Atlas-SNP
PRDM8	56978	hgsc.bcm.edu	37	4	81124299	81124299	+	Silent	SNP	C	C	T	rs150632206	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	4.0	4.0	2.0	0.0	1	0	C|0.982;T|0.018	0.018	strong	.	PRDM8	44	.	NM_001099403	exon4	c.C1683T	p.S561S	CGGGTCCCTGCCG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510266	195510266	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	18.0	79.0	2.0	0.26087	0.0253165	.	.	none	MUC4_ENST00000463781,NS,lymphoid_neoplasm,0,1	MUC4	1505	1	NM_018406	exon2	c.T8185G	p.S2729A	TGGATGATGAGGA	.	scavenged	Atlas-SNP
PDE9A	5152	hgsc.bcm.edu	37	21	44119120	44119120	+	Nonsense_Mutation	SNP	C	C	T	rs74697345	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	38.0	81.0	0.0	0.417582	0	C|0.990;T|0.010	0.010	strong	PDE9A,colon,carcinoma,0,1	PDE9A	69	1	NM_001001570	exon5	c.C337T	p.R113X	ACTCTCCGGTAAG	.	PASS	Atlas-SNP
CCDC105	126402	hgsc.bcm.edu	37	19	15122104	15122104	+	Missense_Mutation	SNP	G	G	T	rs199904661	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	30.0	43.0	0.0	0.681818	0	G|0.993;T|0.007	0.007	strong	.	CCDC105	53	.	NM_173482	exon1	c.G467T	p.R156L	TGCTGCGCCAGCG	.	PASS	Atlas-SNP
DOCK5	80005	hgsc.bcm.edu	37	8	25149590	25149590	+	Silent	SNP	G	G	A	rs35475676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	51.0	96.0	0.0	0.459459	0	G|0.983;A|0.017	0.017	strong	.	DOCK5	167	.	NM_024940	exon6	c.G372A	p.L124L	CAGCCTGATCGAG	.	PASS	Atlas-SNP
CIAPIN1	57019	hgsc.bcm.edu	37	16	57474740	57474740	+	Missense_Mutation	SNP	G	G	T	rs11557672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	56.0	117.0	0.0	0.405797	0	G|0.975;T|0.025	0.025	strong	.	CIAPIN1	17	.	NM_020313	exon2	c.C101A	p.A34E	GTTAACGCTTGAA	.	PASS	Atlas-SNP
TRAF3IP3	80342	hgsc.bcm.edu	37	1	209933659	209933659	+	Missense_Mutation	SNP	G	G	A	rs78296889	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	65.0	150.0	0.0	0.411392	0	G|0.984;A|0.016	0.016	strong	.	TRAF3IP3	68	.	NM_025228	exon3	c.G275A	p.R92Q	CCAGGCGGCCAGG	.	PASS	Atlas-SNP
KCNG4	93107	hgsc.bcm.edu	37	16	84270650	84270650	+	Missense_Mutation	SNP	C	C	T	rs61743417	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	59.0	126.0	0.0	0.415493	0	C|0.971;T|0.029	0.029	strong	KCNG4,NS,carcinoma,0,1	KCNG4	71	1	NM_172347	exon2	c.G442A	p.A148T	AGTAGGCCAGCTC	.	PASS	Atlas-SNP
NLRP7	199713	hgsc.bcm.edu	37	19	55441971	55441971	+	Silent	SNP	G	G	A	rs61746780	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	63.0	105.0	0.0	0.567568	0	G|0.976;A|0.024	0.024	strong	.	NLRP7	411	.	NM_001127255	exon9	c.C2706T	p.A902A	GCTGCAGGCTTCT	.	PASS	Atlas-SNP
ACSL5	51703	hgsc.bcm.edu	37	10	114181773	114181773	+	Missense_Mutation	SNP	A	A	G	rs12254915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	22.0	88.0	0.0	0.314286	0	A|0.982;G|0.018	0.018	strong	.	ACSL5	51	.	NM_016234	exon16	c.A1624G	p.T542A	TACTTTACAGTGA	.	PASS	Atlas-SNP
KRT78	196374	hgsc.bcm.edu	37	12	53242389	53242389	+	Missense_Mutation	SNP	G	G	A	rs116117459	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	89.0	142.0	0.0	0.475936	0	G|0.983;A|0.017	0.017	strong	.	KRT78	41	.	NM_173352	exon1	c.C326T	p.T109M	TCCTGCGTCCGCA	.	PASS	Atlas-SNP
UACA	55075	hgsc.bcm.edu	37	15	70960422	70960422	+	Silent	SNP	C	C	T	rs61742861	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	56.0	140.0	0.0	0.518519	0	C|0.985;T|0.015	0.015	strong	.	UACA	235	.	NM_018003	exon16	c.G2601A	p.E867E	TTTAACCTCTTCA	.	PASS	Atlas-SNP
PAPPA2	60676	hgsc.bcm.edu	37	1	176564092	176564092	+	Missense_Mutation	SNP	C	C	T	rs34698817	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	34.0	91.0	0.0	0.447368	0	C|0.997;T|0.003	0.003	strong	PAPPA2_ENST00000367661,NS,carcinoma,-1,1	PAPPA2	665	1	NM_021936	exon3	c.C1352T	p.A451V	AGGAAGCGACTGA	.	PASS	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	37	6	44270189	44270189	+	Missense_Mutation	SNP	A	A	T	rs35967387	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	66.0	133.0	0.0	0.503817	0	A|0.977;T|0.023	0.023	strong	.	AARS2	77	.	NM_020745	exon18	c.T2426A	p.L809Q	CTCCCCAGACTCA	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791453	110791453	+	Silent	SNP	T	T	C	rs9994891	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	148.0	128.0	0.0	0.980132	0	T|0.866;C|0.134	0.134	strong	.	LRIT3	107	.	NM_198506	exon4	c.T1548C	p.T516T	AGTGACTGTGTTG	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37226888	37226888	+	Silent	SNP	A	A	G	rs115435816	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	51.0	93.0	0.0	0.566667	0	A|0.984;G|0.016	0.016	strong	.	C5orf42	422	.	NM_023073	exon12	c.T1809C	p.T603T	AAAATGAGTGATA	.	PASS	Atlas-SNP
HMGB1	3146	hgsc.bcm.edu	37	13	31037445	31037445	+	Silent	SNP	T	T	C	rs983723	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	22.0	40.0	0.0	0.415094	0	T|0.941;C|0.059	0.059	strong	.	HMGB1	21	.	NM_002128	exon3	c.A195G	p.K65K	GTCCGCTTTTGCC	.	PASS	Atlas-SNP
LRP4	4038	hgsc.bcm.edu	37	11	46918529	46918529	+	Silent	SNP	C	C	T	rs879721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	86.0	0.0	0.460526	0	C|0.943;T|0.057	0.057	strong	.	LRP4	160	.	NM_002334	exon8	c.G813A	p.T271T	TTCTGCCGTACAC	.	PASS	Atlas-SNP
PRR3	80742	hgsc.bcm.edu	37	6	30529622	30529622	+	Missense_Mutation	SNP	G	G	A	rs3888778	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	33.0	62.0	0.0	0.52381	0	G|0.963;A|0.037	0.037	strong	.	PRR3	5	.	NM_025263	exon3	c.G181A	p.G61S	CACAGAGGTCCTC	.	PASS	Atlas-SNP
SLC38A5	92745	hgsc.bcm.edu	37	X	48326270	48326270	+	Silent	SNP	C	C	T	rs34099520	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	64.0	121.0	0.0	0.441379	0	C|0.997;T|0.003	0.003	strong	.	SLC38A5	98	.	NM_033518	exon3	c.G42A	p.S14S	AGCATCCGAAGGG	.	PASS	Atlas-SNP
ORC5	5001	hgsc.bcm.edu	37	7	103844599	103844599	+	Missense_Mutation	SNP	T	T	A	rs2307413	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	58.0	123.0	0.0	0.504348	0	T|0.985;A|0.015	0.015	strong	.	ORC5	48	.	NM_002553	exon2	c.A156T	p.K52N	TAAAGTTTTCAAC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105411091	105411091	+	Missense_Mutation	SNP	G	G	A	rs143814844	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	257.0	254.0	241.0	2.0	0.988327	0.00829876	G|0.971;A|0.029	0.029	strong	AHNAK2_ENST00000333244,NS,carcinoma,0,1	AHNAK2	719	1	NM_138420	exon7	c.C10697T	p.T3566M	TTGGGCGTCTTTA	.	PASS	Atlas-SNP
HIRA	7290	hgsc.bcm.edu	37	22	19340928	19340928	+	Silent	SNP	G	G	A	rs34000365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	50.0	96.0	0.0	0.46729	0	G|0.990;A|0.010	0.010	strong	.	HIRA	100	.	NM_003325	exon23	c.C2799T	p.H933H	GTACTCGTGGCTG	.	PASS	Atlas-SNP
RARS2	57038	hgsc.bcm.edu	37	6	88229953	88229953	+	Missense_Mutation	SNP	G	G	A	rs138460258	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	27.0	78.0	0.0	0.519231	0	G|1.000;A|0.000	0.000	strong	.	RARS2	61	.	NM_020320	exon13	c.C1057T	p.H353Y	GAAAATGCTTTTT	.	PASS	Atlas-SNP
TM2D1	83941	hgsc.bcm.edu	37	1	62190780	62190780	+	Missense_Mutation	SNP	A	A	G	rs200054903	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	34.0	63.0	0.0	0.596491	0	.	.	weak	TM2D1_ENST00000371177,right_upper_lobe,carcinoma,+1,3	TM2D1	37	3	NM_032027	exon1	c.T13C	p.W5R	ACGGCCAGGCGGC	.	PASS	Atlas-SNP
FBRSL1	57666	hgsc.bcm.edu	37	12	133084874	133084874	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	31.0	81.0	0.0	0.492063	0	.	.	none	.	FBRSL1	47	.	NM_001142641	exon2	c.G427A	p.G143R	AGCCCCGGGCAGG	.	PASS	Atlas-SNP
LPIN3	64900	hgsc.bcm.edu	37	20	39977300	39977300	+	Missense_Mutation	SNP	G	G	C	rs150562240	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	17.0	44.0	0.0	0.386364	0	G|0.999;C|0.001	0.001	strong	.	LPIN3	69	.	NM_022896	exon4	c.G330C	p.W110C	CCCTTGGGGGGGT	.	PASS	Atlas-SNP
OSCAR	126014	hgsc.bcm.edu	37	19	54599119	54599119	+	Missense_Mutation	SNP	G	G	A	rs1110643	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	53.0	61.0	0.0	0.552083	0	G|0.993;A|0.007	0.007	strong	.	OSCAR	22	.	NM_206818	exon5	c.C685T	p.R229W	CGGGCCGGGCCTC	.	PASS	Atlas-SNP
SGCG	6445	hgsc.bcm.edu	37	13	23853547	23853547	+	Silent	SNP	C	C	T	rs35628352	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	59.0	117.0	0.0	0.541284	0	C|0.991;T|0.009	0.009	strong	.	SGCG	64	.	NM_000231	exon5	c.C435T	p.N145N	CTCCAACGACGGC	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17081707	17081707	+	Missense_Mutation	SNP	G	G	T	rs9305083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	19.0	34.0	0.0	0.5	0	G|0.914;T|0.086	0.086	strong	.	CPAMD8	192	.	NM_015692	exon18	c.C2348A	p.P783H	CTGGGGGGGTGCC	.	PASS	Atlas-SNP
CYP3A5	1577	hgsc.bcm.edu	37	7	99262835	99262835	+	Silent	SNP	C	C	T	rs10264272	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	72.0	136.0	0.0	0.45	0	C|0.952;T|0.048	0.048	strong	.	CYP3A5	46	.	NM_000777	exon7	c.G624A	p.K208K	GAACTTCTTAGTG	.	PASS	Atlas-SNP
ABCC11	85320	hgsc.bcm.edu	37	16	48234381	48234381	+	Missense_Mutation	SNP	G	G	A	rs41282045	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	24.0	50.0	0.0	0.5	0	G|0.996;A|0.004	0.004	strong	.	ABCC11	177	.	NM_033151	exon14	c.C1888T	p.R630W	GGCCCCGCTCTCC	.	PASS	Atlas-SNP
CACNG6	59285	hgsc.bcm.edu	37	19	54501540	54501540	+	Missense_Mutation	SNP	C	C	T	rs78495589	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	38.0	63.0	0.0	0.678571	0	C|0.986;T|0.014	0.014	strong	.	CACNG6	42	.	NM_145815	exon2	c.C379T	p.R127C	AATGCACGCATCT	.	PASS	Atlas-SNP
CEP85L	387119	hgsc.bcm.edu	37	6	118953755	118953755	+	Silent	SNP	T	T	C	rs9320659	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	31.0	83.0	0.0	0.54386	0	T|0.980;C|0.020	0.020	strong	.	CEP85L	26	.	NM_001178035	exon3	c.A102G	p.A34A	TAGCCATGCTGAT	.	PASS	Atlas-SNP
SRGAP2D	100996712	hgsc.bcm.edu	37	1	121116732	121116732	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	272.0	11.0	288.0	0.0	0.0404412	0	.	.	none	.	.	.	.	NM_001271887	exon3	c.C289T	p.Q97X	AAAGCCCAGAATG	.	PASS	Atlas-SNP
CST4	1472	hgsc.bcm.edu	37	20	23669584	23669584	+	Missense_Mutation	SNP	A	A	T	rs73902131	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	48.0	102.0	0.0	0.393443	0	A|0.964;T|0.036	0.036	strong	.	CST4	37	.	NM_001899	exon1	c.T23A	p.L8Q	AGTAGCAGGGTAC	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195452679	195452679	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	990.0	191.0	609.0	0.0	0.192929	0	.	.	none	.	MUC20	84	.	NM_152673	exon3	c.C692T	p.P231L	GGTCCCCGGGATC	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4511944	4511944	+	Silent	SNP	A	A	G	rs143131726	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	306.0	134.0	321.0	0.0	0.437909	0	A|0.994;G|0.006	0.006	strong	.	PLIN4	191	.	NM_001080400	exon3	c.T1986C	p.N662N	GGCCACATTCACA	.	PASS	Atlas-SNP
P2RX7	5027	hgsc.bcm.edu	37	12	121622380	121622380	+	Missense_Mutation	SNP	C	C	G	rs2230913	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	32.0	65.0	0.0	0.5	0	C|0.955;G|0.045;T|0.000	0.045	strong	.	P2RX7	53	.	NM_002562	exon13	c.C1563G	p.H521Q	CAGACACGTCCTG	.	PASS	Atlas-SNP
HRC	3270	hgsc.bcm.edu	37	19	49657526	49657526	+	Silent	SNP	G	G	A	rs150557795		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	283.0	36.0	253.0	1.0	0.127208	0.00395257	G|0.999;A|0.001	0.001	weak	HRC,NS,carcinoma,0,1	HRC	85	1	NM_002152	exon1	c.C969T	p.D323D	TCTGTGGTCTTGG	.	scavenged	Atlas-SNP
CHPF2	54480	hgsc.bcm.edu	37	7	150935367	150935367	+	Missense_Mutation	SNP	C	C	T	rs76509585	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	10.0	36.0	0.0	0.263158	0	C|0.988;T|0.012	0.012	strong	.	CHPF2	52	.	NM_019015	exon4	c.C1919T	p.P640L	GGCCCCCGGGGGC	.	PASS	Atlas-SNP
RNF145	153830	hgsc.bcm.edu	37	5	158596032	158596032	+	Silent	SNP	G	G	A	rs61732785	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	353.0	167.0	334.0	1.0	0.473088	0.00299401	G|0.985;A|0.015	0.015	strong	RNF145,right_upper_lobe,carcinoma,+2,1	RNF145	110	1	NM_001199380	exon8	c.C1060T	p.L354L	CTGCCAGGATTAA	.	PASS	Atlas-SNP
GYG1	2992	hgsc.bcm.edu	37	3	148714662	148714662	+	Missense_Mutation	SNP	A	A	T	rs35054019	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	85.0	154.0	0.0	0.47486	0	A|0.990;T|0.010	0.010	strong	.	GYG1	29	.	NM_004130	exon4	c.A452T	p.H151L	TGTTGCATCTTGC	.	PASS	Atlas-SNP
ZNF385C	201181	hgsc.bcm.edu	37	17	40180910	40180910	+	Silent	SNP	G	G	A	rs7208473	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	39.0	75.0	0.0	0.464286	0	G|0.989;A|0.011	0.011	strong	.	ZNF385C	7	.	NM_001242704	exon5	c.C621T	p.A207A	TCCCACGGCAGCT	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31323360	31323360	+	Missense_Mutation	SNP	T	T	G	rs181499296	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	46.0	74.0	0.0	0.365079	0	T|0.999;G|0.001	0.001	strong	.	TRPM1	183	.	NM_001252020	exon22	c.A3004C	p.M1002L	CGATCATCTGAGT	.	PASS	Atlas-SNP
OR51F2	119694	hgsc.bcm.edu	37	11	4843119	4843119	+	Silent	SNP	C	C	T	rs142530902		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	83.0	134.0	0.0	0.58042	0	C|1.000;T|0.000	0.000	weak	.	OR51F2	72	.	NM_001004753	exon1	c.C504T	p.A168A	TGTTGCCGTCATG	.	PASS	Atlas-SNP
ATP1A2	477	hgsc.bcm.edu	37	1	160090993	160090993	+	Silent	SNP	G	G	A	rs61734527	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	29.0	85.0	0.0	0.376623	0	G|0.991;A|0.009	0.009	strong	.	ATP1A2	167	.	NM_000702	exon3	c.G129A	p.K43K	CCACAAGCTGTCC	.	PASS	Atlas-SNP
GLRA1	2741	hgsc.bcm.edu	37	5	151231140	151231140	+	Silent	SNP	C	C	G	rs76872663	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	76.0	109.0	0.0	0.524138	0	C|0.994;G|0.006	0.006	strong	GLRA1,NS,carcinoma,-2,1	GLRA1	61	1	NM_000171	exon7	c.G723C	p.R241R	GTGGAACCGGGCC	.	PASS	Atlas-SNP
NFATC3	4775	hgsc.bcm.edu	37	16	68224786	68224786	+	Missense_Mutation	SNP	C	C	G	rs77352556	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	231.0	128.0	200.0	0.0	0.554113	0	C|0.991;G|0.009	0.009	strong	.	NFATC3	190	.	NM_173163	exon9	c.C2214G	p.D738E	ACATGACAGTGTA	.	PASS	Atlas-SNP
H1FOO	132243	hgsc.bcm.edu	37	3	129267915	129267915	+	Silent	SNP	T	T	C	rs60616647	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	134.0	127.0	0.0	1	0	T|0.938;C|0.062	0.062	strong	.	H1FOO	20	.	NM_153833	exon3	c.T450C	p.G150G	AGCGGGTGAGGCC	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47575170	47575170	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	63.0	92.0	0.0	0.538462	0	.	.	none	.	ZC3H4	96	.	NM_015168	exon13	c.A2011G	p.M671V	GCATCATTGGAGG	.	PASS	Atlas-SNP
BPIFB3	359710	hgsc.bcm.edu	37	20	31661399	31661399	+	Silent	SNP	C	C	T	rs114341725	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	218.0	109.0	184.0	1.0	0.5	0.00543478	C|0.993;T|0.007	0.007	strong	C20orf185,caecum,carcinoma,+2,1	.	.	1	NM_182658	exon15	c.C1419T	p.T473T	GCTGACCGTGGCA	.	scavenged	Atlas-SNP
PRPF4	9128	hgsc.bcm.edu	37	9	116053895	116053895	+	Silent	SNP	C	C	T	rs146201781	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	78.0	102.0	0.0	0.639344	0	C|0.999;T|0.001	0.001	strong	.	PRPF4	56	.	NM_004697	exon14	c.C1524T	p.A508A	CATAGCCACTTGC	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011409	46011409	+	Silent	SNP	G	G	A	rs144363824	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	265.0	54.0	364.0	0.0	0.203774	0	G|0.975;A|0.025	0.025	strong	.	KRTAP10-6	57	.	NM_198688	exon1	c.C957T	p.P319P	GGGGACGGGCACG	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746414	143746414	+	Missense_Mutation	SNP	G	G	A	rs115218091	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	38.0	90.0	0.0	0.431818	0	G|0.991;A|0.009	0.009	strong	.	.	.	.	NM_003724	exon2	c.C1064T	p.A355V	TAGCGGGCATGGG	.	PASS	Atlas-SNP
SSTR5	6755	hgsc.bcm.edu	37	16	1128901	1128901	+	Silent	SNP	C	C	T	rs35128939	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	5.0	24.0	0.0	0.208333	0	C|0.997;T|0.003	0.003	strong	.	SSTR5	36	.	NM_001172560	exon2	c.C33T	p.S11S	GCCCAGCTGGAAC	.	PASS	Atlas-SNP
SLC3A2	6520	hgsc.bcm.edu	37	11	62648748	62648748	+	Silent	SNP	C	C	T	rs73487878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	36.0	57.0	0.0	0.493151	0	C|0.975;T|0.025	0.025	strong	.	SLC3A2	55	.	NM_001012662	exon4	c.C559T	p.L187L	GCACTGCTGCTGC	.	PASS	Atlas-SNP
TCP10L2	401285	hgsc.bcm.edu	37	6	167585652	167585652	+	Missense_Mutation	SNP	A	A	C	rs59203630	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	177.0	173.0	183.0	0.0	0.977401	0	A|0.966;C|0.034	0.034	strong	.	TCP10L2	41	.	NM_001145121	exon2	c.A20C	p.E7A	AGCTCGAGGCCAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508524	195508524	+	Silent	SNP	G	G	A	rs141064104	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	57.0	197.0	0.0	0.478992	0	G|0.950;A|0.050	0.050	strong	MUC4_ENST00000463781,NS,carcinoma,-2,2	MUC4	1505	2	NM_018406	exon2	c.C9927T	p.H3309H	AGTGGCGTGACCT	.	PASS	Atlas-SNP
ADRB1	153	hgsc.bcm.edu	37	10	115804123	115804123	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	42.0	89.0	0.0	0.525	0	.	.	none	.	ADRB1	16	.	NM_000684	exon1	c.C232T	p.L78L	AATGTGCTGGTGA	.	PASS	Atlas-SNP
NUDT6	11162	hgsc.bcm.edu	37	4	123814170	123814170	+	Missense_Mutation	SNP	G	G	A	rs138619142	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	231.0	114.0	212.0	0.0	0.493506	0	G|0.998;A|0.002	0.002	strong	.	NUDT6	50	.	NM_007083	exon5	c.C764T	p.A255V	GTCTTCGCCAGGT	.	PASS	Atlas-SNP
FGD3	89846	hgsc.bcm.edu	37	9	95766336	95766336	+	Silent	SNP	C	C	T	rs201073654	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	60.0	99.0	0.0	0.645161	0	C|1.000;T|0.000	0.000	strong	.	FGD3	116	.	NM_001083536	exon5	c.C597T	p.G199G	CATGGGCATATTC	.	PASS	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	37	13	103519119	103519119	+	Silent	SNP	G	G	A	rs73573973	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	35.0	48.0	0.0	0.472973	0	G|0.994;A|0.006	0.006	strong	ERCC5,NS,carcinoma,+2,1	.	.	1	NM_001204425	exon19	c.G3819A	p.R1273R	AGCGCGGCATGTC	.	PASS	Atlas-SNP
PLEKHS1	79949	hgsc.bcm.edu	37	10	115531790	115531790	+	Missense_Mutation	SNP	C	C	T	rs143039412		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	56.0	141.0	0.0	0.444444	0	C|1.000;T|0.000	0.000	weak	.	PLEKHS1	19	.	NM_024889	exon8	c.C614T	p.A205V	CAGAAGCCACTCA	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82585803	82585803	+	Missense_Mutation	SNP	G	G	C	rs114445550	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	71.0	120.0	0.0	0.510791	0	G|0.997;C|0.003	0.003	strong	.	PCLO	1506	.	NM_014510	exon5	c.C4466G	p.S1489C	TTGCTGGAAGGAA	.	PASS	Atlas-SNP
ASL	435	hgsc.bcm.edu	37	7	65551782	65551782	+	Silent	SNP	G	G	A	rs115468878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	35.0	90.0	0.0	0.472973	0	G|0.993;A|0.007	0.007	strong	.	ASL	39	.	NM_000048	exon8	c.G576A	p.K192K	GCGGAAGCGGATC	.	PASS	Atlas-SNP
JAG2	3714	hgsc.bcm.edu	37	14	105622157	105622157	+	Silent	SNP	G	G	A	rs61750261	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	68.0	161.0	0.0	0.444444	0	G|0.974;A|0.026	0.026	strong	.	JAG2	69	.	NM_145159	exon4	c.C645T	p.N215N	AAAGTCGTTGCGG	.	PASS	Atlas-SNP
PCDHA9	9752	hgsc.bcm.edu	37	5	140229925	140229925	+	Silent	SNP	G	G	C	rs58792000	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	111.0	220.0	0.0	0.526066	0	G|0.937;C|0.063	0.063	strong	.	PCDHA9	373	.	NM_031857	exon1	c.G1845C	p.T615T	AGAAACGGCCAGC	.	PASS	Atlas-SNP
BPIFA2	140683	hgsc.bcm.edu	37	20	31756954	31756954	+	Missense_Mutation	SNP	G	G	A	rs17124277	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	47.0	141.0	0.0	0.405172	0	G|0.963;A|0.037	0.037	strong	.	.	.	.	NM_080574	exon2	c.G3A	p.M1I	AAAGATGCTTCAG	.	PASS	Atlas-SNP
MVP	9961	hgsc.bcm.edu	37	16	29841950	29841950	+	Missense_Mutation	SNP	G	G	A	rs142997389	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	52.0	132.0	0.0	0.422764	0	G|0.991;A|0.009	0.009	strong	.	MVP	80	.	NM_017458	exon2	c.G80A	p.R27H	TGTCCCGTGTGGA	.	PASS	Atlas-SNP
CEP350	9857	hgsc.bcm.edu	37	1	179983153	179983153	+	Missense_Mutation	SNP	A	A	G	rs111349041	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	46.0	75.0	0.0	0.613333	0	A|0.986;G|0.014	0.014	strong	.	CEP350	418	.	NM_014810	exon10	c.A1565G	p.D522G	ATAAGGACTTTTT	.	PASS	Atlas-SNP
STAU2	27067	hgsc.bcm.edu	37	8	74526081	74526081	+	Silent	SNP	G	G	A	rs28728027	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	26.0	79.0	0.0	0.464286	0	G|0.995;A|0.005	0.005	strong	STAU2_ENST00000524300,NS,carcinoma,-1,3	STAU2	148	3	NM_001164380	exon9	c.C789T	p.R263R	CGCAGCGCGCTTC	.	PASS	Atlas-SNP
ROR1	4919	hgsc.bcm.edu	37	1	64643650	64643650	+	Silent	SNP	C	C	T	rs35586842	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	76.0	121.0	0.0	0.603175	0	C|0.972;T|0.028	0.028	strong	.	ROR1	113	.	NM_005012	exon9	c.C1926T	p.S642S	TTACTCCGCTGAT	.	PASS	Atlas-SNP
CLEC4F	165530	hgsc.bcm.edu	37	2	71044076	71044076	+	Missense_Mutation	SNP	T	T	C	rs61754946	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	254.0	112.0	199.0	0.0	0.440945	0	T|0.979;C|0.021	0.021	strong	.	CLEC4F	95	.	NM_173535	exon4	c.A437G	p.N146S	TCAGCATTGGTGT	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149489443	149489443	+	Silent	SNP	C	C	A	rs893603	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	37.0	81.0	0.0	0.330357	0	C|0.975;A|0.025	0.025	strong	.	.	.	.	NM_198455	exon37	c.C5596A	p.R1866R	TGGCCCCGGCAGT	.	PASS	Atlas-SNP
ZNF76	7629	hgsc.bcm.edu	37	6	35263009	35263009	+	Missense_Mutation	SNP	C	C	T	rs73745177	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	18.0	52.0	0.0	0.45	0	C|0.994;T|0.006	0.006	strong	.	ZNF76	37	.	NM_003427	exon14	c.C1697T	p.S566L	CAGTGTCGGAGAG	.	PASS	Atlas-SNP
NPNT	255743	hgsc.bcm.edu	37	4	106819089	106819089	+	Silent	SNP	C	C	T	rs147630398	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	113.0	191.0	0.0	0.55122	0	C|0.999;T|0.001	0.001	strong	.	NPNT	69	.	NM_001184692	exon2	c.C103T	p.L35L	ATTGGCCTATGTC	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76109877	76109877	+	Silent	SNP	G	G	A	rs149301449	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	135.0	214.0	0.0	0.567227	0	G|0.997;A|0.003	0.003	strong	.	DTX2	64	.	NM_001102596	exon1	c.G51A	p.A17A	CCCCGCGGCTGTG	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117130838	117130838	+	Missense_Mutation	SNP	C	C	T	rs138188658	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	66.0	104.0	0.0	0.55	0	C|0.996;T|0.004	0.004	strong	.	AKNA	119	.	NM_030767	exon5	c.G1454A	p.S485N	TGGATGCTGTGGT	.	PASS	Atlas-SNP
CCDC37	348807	hgsc.bcm.edu	37	3	126137456	126137456	+	Silent	SNP	T	T	C	rs76764772	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	29.0	67.0	0.0	0.439394	0	T|0.941;C|0.059	0.059	strong	.	CCDC37	69	.	NM_182628	exon7	c.T489C	p.Y163Y	CCAGTATGCCCTG	.	PASS	Atlas-SNP
UHMK1	127933	hgsc.bcm.edu	37	1	162467927	162467927	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	57.0	115.0	0.0	0.467213	0	.	.	none	UHMK1_ENST00000489294,NS,carcinoma,0,2	UHMK1	65	2	NM_175866	exon1	c.C137G	p.P46R	GCAACCCTGGCTC	.	PASS	Atlas-SNP
CLEC4F	165530	hgsc.bcm.edu	37	2	71046536	71046536	+	Silent	SNP	G	G	A	rs17006361	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	85.0	180.0	0.0	0.508982	0	G|0.948;A|0.052	0.052	strong	CLEC4F,NS,carcinoma,0,3	CLEC4F	95	3	NM_173535	exon3	c.C219T	p.A73A	AATTACGGCTTGC	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	30143259	30143259	+	Silent	SNP	G	G	T	rs192127241	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	20.0	9.0	15.0	0.0	0.45	0	G|0.998;T|0.002	0.002	strong	.	ALK	533	.	NM_004304	exon1	c.C267A	p.G89G	TAGCGAGCCGCGG	.	PASS	Atlas-SNP
OR8B12	219858	hgsc.bcm.edu	37	11	124413491	124413491	+	Silent	SNP	C	C	T	rs61746453	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	27.0	60.0	0.0	0.529412	0	C|0.974;T|0.026	0.026	strong	OR8B12,bladder,carcinoma,-1,1	OR8B12	66	1	NM_001005195	exon1	c.G60A	p.P20P	CAGTCCCGGCTGG	.	PASS	Atlas-SNP
PCNP	57092	hgsc.bcm.edu	37	3	101293097	101293097	+	Missense_Mutation	SNP	A	A	G	rs116752753	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	114.0	161.0	0.0	0.542857	0	A|0.993;G|0.007	0.007	strong	.	PCNP	8	.	NM_020357	exon1	c.A38G	p.K13R	CTGAAAAGTCGCA	.	PASS	Atlas-SNP
NCL	4691	hgsc.bcm.edu	37	2	232320281	232320281	+	Silent	SNP	G	G	A	rs78372304	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	109.0	259.0	0.0	0.519048	0	G|0.994;A|0.006	0.006	strong	.	NCL	80	.	NM_005381	exon13	c.C1887T	p.A629A	TTCCATGGCCTCC	.	PASS	Atlas-SNP
LGI3	203190	hgsc.bcm.edu	37	8	22005939	22005939	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	21.0	48.0	0.0	0.456522	0	.	.	none	.	LGI3	44	.	NM_139278	exon8	c.G1381A	p.A461T	GCAGGGCCTGCAC	.	PASS	Atlas-SNP
PRODH2	58510	hgsc.bcm.edu	37	19	36304143	36304143	+	Missense_Mutation	SNP	G	G	A	rs138605929	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	28.0	50.0	0.0	0.651163	0	G|0.992;A|0.008	0.008	strong	.	PRODH2	68	.	NM_021232	exon1	c.C41T	p.S14F	CTTTGGGAGGCCA	.	PASS	Atlas-SNP
NLN	57486	hgsc.bcm.edu	37	5	65084101	65084101	+	Missense_Mutation	SNP	A	A	G	rs6863012	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	88.0	175.0	0.0	0.517647	0	A|0.936;G|0.064	0.064	strong	.	NLN	51	.	NM_020726	exon8	c.A1115G	p.K372R	AACTCAAGTATTC	.	PASS	Atlas-SNP
C4BPA	722	hgsc.bcm.edu	37	1	207305069	207305069	+	Silent	SNP	A	A	C	rs6663608	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	52.0	87.0	0.0	0.444444	0	A|0.930;C|0.070	0.070	strong	.	C4BPA	70	.	NM_000715	exon8	c.A1068C	p.P356P	GACCCCATACCAA	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130188009	130188009	+	Silent	SNP	C	C	T	rs59160673	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	49.0	103.0	0.0	0.453704	0	C|0.989;T|0.011	0.011	strong	.	COL6A5	205	.	NM_153264	exon38	c.C7161T	p.G2387G	TATTGGCCATGCC	.	PASS	Atlas-SNP
LRRC8C	84230	hgsc.bcm.edu	37	1	90179470	90179470	+	Silent	SNP	A	A	G	rs34576461	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	35.0	81.0	0.0	0.514706	0	A|0.979;G|0.021	0.021	strong	.	LRRC8C	73	.	NM_032270	exon3	c.A1341G	p.Q447Q	GTTGCAATCTCTA	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128364787	128364787	+	Missense_Mutation	SNP	G	G	C	rs201386852	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	93.0	192.0	0.0	0.516667	0	.	.	weak	.	MYO7B	359	.	NM_001080527	exon21	c.G2431C	p.V811L	ATCCTCGTGGGCT	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1109577	1109577	+	Silent	SNP	C	C	T	rs200767766	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	50.0	88.0	0.0	0.480769	0	C|0.986;T|0.014	0.014	strong	.	SBNO2	112	.	NM_014963	exon28	c.G3144A	p.L1048L	CCACTTCAGGCCG	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	37	8	8176540	8176540	+	Silent	SNP	C	C	T	rs116402506	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	26.0	32.0	0.0	0.565217	0	C|0.970;T|0.030	0.030	strong	.	.	.	.	NM_001080826	exon5	c.G3345A	p.A1115A	CTCGTACGCCTCG	.	PASS	Atlas-SNP
ZP1	22917	hgsc.bcm.edu	37	11	60642633	60642633	+	Silent	SNP	C	C	T	rs112864814	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	60.0	99.0	0.0	0.47619	0	C|0.980;T|0.020	0.020	strong	.	ZP1	69	.	NM_207341	exon11	c.C1686T	p.D562D	TAATGACACTGCC	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89874756	89874756	+	Missense_Mutation	SNP	G	G	A	rs17232246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	87.0	172.0	0.0	0.448454	0	G|0.950;A|0.050	0.050	strong	.	FANCA	99	.	NM_000135	exon6	c.C542T	p.A181V	CACACCGCTTCAA	.	PASS	Atlas-SNP
ARHGEF10	9639	hgsc.bcm.edu	37	8	1905222	1905222	+	Silent	SNP	A	A	G	rs146227529	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	38.0	67.0	0.0	0.527778	0	A|0.996;G|0.004	0.004	strong	.	ARHGEF10	255	.	NM_014629	exon29	c.A3828G	p.S1276S	CAGATCAGAGGAC	.	PASS	Atlas-SNP
CHRNA1	1134	hgsc.bcm.edu	37	2	175613477	175613477	+	Missense_Mutation	SNP	T	T	A	rs6739001	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	59.0	175.0	0.0	0.440298	0	T|0.971;A|0.029	0.029	strong	.	CHRNA1	92	.	NM_001039523	exon9	c.A1148T	p.D383V	TTTTTGTCTTGCT	.	PASS	Atlas-SNP
EPHX1	2052	hgsc.bcm.edu	37	1	226032896	226032896	+	Silent	SNP	T	T	C	rs2234700	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	78.0	143.0	0.0	0.530612	0	T|0.980;C|0.020	0.020	strong	.	EPHX1	57	.	NM_001136018	exon9	c.T1216C	p.L406L	GAGCTATTGCACA	.	PASS	Atlas-SNP
DISP1	84976	hgsc.bcm.edu	37	1	223178226	223178226	+	Missense_Mutation	SNP	A	A	G	rs61743732	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	12.0	27.0	0.0	0.428571	0	A|0.971;G|0.029	0.029	strong	.	DISP1	145	.	NM_032890	exon10	c.A3487G	p.S1163G	AGTCCCAGTGACA	.	PASS	Atlas-SNP
TBC1D9B	23061	hgsc.bcm.edu	37	5	179300131	179300131	+	Silent	SNP	T	T	C	rs269469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	60.0	144.0	0.0	0.431655	0	T|0.899;C|0.101	0.101	strong	.	TBC1D9B	157	.	NM_198868	exon13	c.A2304G	p.K768K	GGACACTTTCAGG	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55238087	55238087	+	Silent	SNP	C	C	T	rs10258429	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	79.0	161.0	0.0	0.537415	0	C|0.889;T|0.111	0.111	strong	.	EGFR	20426	.	NM_201284	exon16	c.C1968T	p.H656H	GTCCCACCAGAGC	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140558384	140558384	+	Missense_Mutation	SNP	C	C	T	rs116452537	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	285.0	140.0	469.0	1.0	0.491228	0.0021322	C|0.994;T|0.006	0.006	strong	.	PCDHB8	199	.	NM_019120	exon1	c.C769T	p.P257S	GACAGTCCAATAA	.	PASS	Atlas-SNP
PDGFRB	5159	hgsc.bcm.edu	37	5	149509508	149509508	+	Missense_Mutation	SNP	G	G	A	rs74943037	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	58.0	100.0	1.0	0.43609	0.01	G|0.972;A|0.028	0.028	strong	PDGFRB,NS,carcinoma,0,1	PDGFRB	142	1	NM_002609	exon10	c.C1391T	p.T464M	AGCAGCGTGGGCG	.	scavenged	Atlas-SNP
NEIL3	55247	hgsc.bcm.edu	37	4	178283474	178283474	+	Missense_Mutation	SNP	A	A	G	rs35418725	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	55.0	146.0	0.0	0.443548	0	A|0.996;G|0.004	0.004	strong	.	NEIL3	89	.	NM_018248	exon10	c.A1667G	p.H556R	GCAACCATGGCAA	.	PASS	Atlas-SNP
GLT1D1	144423	hgsc.bcm.edu	37	12	129360518	129360518	+	Missense_Mutation	SNP	G	G	A	rs73438369	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	72.0	140.0	0.0	0.476821	0	G|0.981;A|0.019	0.019	strong	.	GLT1D1	48	.	NM_144669	exon2	c.G128A	p.S43N	TTGAAAGCCGATC	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	37	3	119445139	119445139	+	Silent	SNP	A	A	G	rs9835381	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	62.0	153.0	0.0	0.473282	0	A|0.983;G|0.017	0.017	strong	.	.	.	.	NM_033364	exon7	c.A804G	p.K268K	GAGGAAAATGATG	.	PASS	Atlas-SNP
ACVRL1	94	hgsc.bcm.edu	37	12	52308344	52308344	+	Silent	SNP	G	G	A	rs1058563	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	221.0	113.0	190.0	0.0	0.511312	0	G|0.957;A|0.043	0.043	strong	.	ACVRL1	60	.	NM_000020	exon6	c.G747A	p.V249V	CACAGTGTTGCTC	.	PASS	Atlas-SNP
DDX49	54555	hgsc.bcm.edu	37	19	19035080	19035080	+	Missense_Mutation	SNP	G	G	C	rs143159618		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	231.0	99.0	214.0	0.0	0.428571	0	G|1.000;C|0.000	0.000	weak	.	DDX49	37	.	NM_019070	exon7	c.G815C	p.S272T	AATTCAGCTTCCC	.	PASS	Atlas-SNP
OR1E1	8387	hgsc.bcm.edu	37	17	3301246	3301246	+	Silent	SNP	G	G	A	rs11078447	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	243.0	121.0	200.0	0.0	0.497942	0	G|0.983;A|0.017	0.017	strong	.	OR1E1	37	.	NM_003553	exon1	c.C459T	p.T153T	ATGGAAGGTGGTC	.	PASS	Atlas-SNP
GADL1	339896	hgsc.bcm.edu	37	3	30842517	30842517	+	Missense_Mutation	SNP	C	C	A	rs61738477	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	46.0	99.0	0.0	0.377049	0	C|0.996;A|0.004	0.004	strong	.	GADL1	91	.	NM_207359	exon12	c.G1114T	p.D372Y	TCACATCATAGAA	.	PASS	Atlas-SNP
CLUAP1	23059	hgsc.bcm.edu	37	16	3556398	3556398	+	Missense_Mutation	SNP	G	G	T	rs34115694	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	63.0	98.0	0.0	0.623762	0	G|0.974;T|0.026	0.026	strong	.	CLUAP1	32	.	NM_015041	exon3	c.G202T	p.A68S	ATTAAGGCAATTG	.	PASS	Atlas-SNP
ACSM2A	123876	hgsc.bcm.edu	37	16	20471487	20471487	+	Missense_Mutation	SNP	G	G	C	rs74483128		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	68.0	124.0	0.0	0.566667	0	.	.	weak	.	ACSM2A	120	.	NM_001010845	exon3	c.G51C	p.Q17H	TACTCAGATGTCC	.	PASS	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	37	19	12805431	12805431	+	Missense_Mutation	SNP	T	T	C	rs10424623	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	48.0	81.0	0.0	0.444444	0	T|0.921;C|0.079	0.079	strong	.	FBXW9	30	.	NM_032301	exon3	c.A655G	p.T219A	GCTTAGTGCCTAA	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158632531	158632531	+	Missense_Mutation	SNP	T	T	C	rs7547313	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	104.0	179.0	0.0	0.507317	0	T|0.946;C|0.054	0.054	strong	SPTA1,NS,carcinoma,+2,1	SPTA1	720	1	NM_003126	exon17	c.A2425G	p.I809V	CTTGGATCCAGGC	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15791066	15791066	+	Missense_Mutation	SNP	C	C	T	rs61731193	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	355.0	89.0	254.0	0.0	0.250704	0	C|0.988;T|0.012	0.012	strong	.	CYP4F12	89	.	NM_023944	exon4	c.C356T	p.P119L	TTGCACCCAAGGA	.	PASS	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127231763	127231763	+	Missense_Mutation	SNP	G	G	A	rs114565703	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	137.0	131.0	1.0	0.958042	0.00763359	G|0.975;A|0.025	0.025	strong	.	GPR144	33	.	NM_001161808	exon16	c.G2495A	p.R832H	GTGCCCGCCGCCG	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8150393	8150393	+	Missense_Mutation	SNP	C	C	T	rs17160151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	26.0	34.0	0.0	0.530612	0	C|0.903;T|0.097	0.097	strong	.	FBN3	300	.	NM_032447	exon55	c.G6941A	p.S2314N	CTGCTGCTGGACA	.	PASS	Atlas-SNP
NR5A1	2516	hgsc.bcm.edu	37	9	127245070	127245070	+	Silent	SNP	C	C	T	rs79833327	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	42.0	113.0	0.0	0.365217	0	C|0.983;T|0.017	0.017	strong	.	NR5A1	32	.	NM_004959	exon7	c.G1353A	p.L451L	GATGAGCAGGTTG	.	PASS	Atlas-SNP
DENND5A	23258	hgsc.bcm.edu	37	11	9286515	9286515	+	Silent	SNP	C	C	T	rs75717840	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	25.0	15.0	0.0	0.595238	0	C|0.980;T|0.020	0.020	strong	.	DENND5A	84	.	NM_015213	exon1	c.G102A	p.E34E	CGACAGCTCGTCC	.	PASS	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	37	11	94602457	94602457	+	Silent	SNP	G	G	A	rs181764487	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	69.0	120.0	0.0	0.496403	0	G|0.995;A|0.005	0.005	strong	AMOTL1,NS,carcinoma,+1,2	AMOTL1	95	2	NM_130847	exon12	c.G2583A	p.T861T	CACTACGGCAGCC	.	PASS	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28378450	28378450	+	Missense_Mutation	SNP	T	T	C	rs61744744	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	44.0	97.0	0.0	0.419048	0	T|0.988;C|0.012	0.012	strong	.	TTC28	84	.	NM_001145418	exon23	c.A7205G	p.N2402S	TTCTTATTGTGCC	.	PASS	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	37	7	88965992	88965992	+	Missense_Mutation	SNP	T	T	G	rs115968745	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	93.0	169.0	0.0	0.481865	0	T|0.996;G|0.004	0.004	strong	.	ZNF804B	322	.	NM_181646	exon4	c.T3696G	p.I1232M	CCCTATTGCTCAT	.	PASS	Atlas-SNP
TTBK1	84630	hgsc.bcm.edu	37	6	43251608	43251608	+	Missense_Mutation	SNP	C	C	T	rs146633224	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	44.0	99.0	0.0	0.444444	0	C|0.997;T|0.003	0.003	strong	.	TTBK1	124	.	NM_032538	exon14	c.C3130T	p.R1044C	CCCAGACGCCATG	.	PASS	Atlas-SNP
CCDC65	85478	hgsc.bcm.edu	37	12	49310831	49310831	+	Missense_Mutation	SNP	A	A	G	rs140228766	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	68.0	143.0	0.0	0.388571	0	A|0.999;G|0.001	0.001	strong	.	CCDC65	41	.	NM_033124	exon4	c.A549G	p.I183M	CTATATAGATTCT	.	PASS	Atlas-SNP
RECQL	5965	hgsc.bcm.edu	37	12	21643223	21643223	+	Missense_Mutation	SNP	C	C	T	rs1065751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	60.0	128.0	0.0	0.521739	0	T|0.045;G|0.039	0.045	strong	.	RECQL	45	.	NM_032941	exon5	c.G304A	p.V102I	TTGTTACGTTAAT	.	PASS	Atlas-SNP
ESRRG	2104	hgsc.bcm.edu	37	1	216692741	216692741	+	Silent	SNP	C	C	T	rs10863247	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	10.0	37.0	0.0	0.294118	0	C|0.910;T|0.090	0.090	strong	.	ESRRG	111	.	NM_001243518	exon7	c.G921A	p.A307A	CTGGTCCGCCAGG	.	PASS	Atlas-SNP
POMT1	10585	hgsc.bcm.edu	37	9	134393834	134393834	+	Silent	SNP	A	A	G	rs62620174	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	68.0	110.0	0.0	0.591304	0	A|0.976;G|0.024	0.024	strong	.	POMT1	59	.	NM_007171	exon14	c.A1341G	p.E447E	GCAGGAAATTGTG	.	PASS	Atlas-SNP
ZBTB7C	201501	hgsc.bcm.edu	37	18	45566903	45566903	+	Silent	SNP	T	T	C	rs114461217	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	376.0	168.0	365.0	1.0	0.446809	0.00273973	T|0.990;C|0.010	0.010	strong	.	ZBTB7C	73	.	NM_001039360	exon2	c.A576G	p.T192T	ATGGTCTGTCTTG	.	PASS	Atlas-SNP
KRT31	3881	hgsc.bcm.edu	37	17	39553676	39553676	+	Missense_Mutation	SNP	G	G	C	rs6503628	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	90.0	215.0	0.0	0.439024	0	G|0.997;C|0.003	0.003	strong	.	KRT31	158	.	NM_002277	exon1	c.C116G	p.A39G	ACATTGGCGGGGA	.	PASS	Atlas-SNP
C9orf84	158401	hgsc.bcm.edu	37	9	114454735	114454735	+	Silent	SNP	T	T	C	rs73656294	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	9.0	57.0	0.0	0.225	0	T|0.988;C|0.012	0.012	strong	.	C9orf84	207	.	NM_173521	exon25	c.A3330G	p.S1110S	TTGCGGTGATTTT	.	PASS	Atlas-SNP
LYST	1130	hgsc.bcm.edu	37	1	235971802	235971802	+	Silent	SNP	G	G	A	rs16832868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	90.0	189.0	0.0	0.520231	0	G|0.934;A|0.066	0.066	strong	.	LYST	370	.	NM_000081	exon5	c.C2316T	p.D772D	AAGCACGTCCTGA	.	PASS	Atlas-SNP
KIF16B	55614	hgsc.bcm.edu	37	20	16492163	16492163	+	Silent	SNP	T	T	C	rs16997775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	21.0	40.0	0.0	0.42	0	T|0.978;C|0.022	0.022	strong	.	KIF16B	305	.	NM_001199865	exon6	c.A456G	p.E152E	ATAAATTTCTAAG	.	PASS	Atlas-SNP
GNB2L1	10399	hgsc.bcm.edu	37	5	180665123	180665123	+	Silent	SNP	G	G	A	rs11540200	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	75.0	158.0	0.0	0.446429	0	G|0.977;A|0.023	0.023	strong	.	GNB2L1	22	.	NM_006098	exon6	c.C753T	p.A251A	GCCTGTGGCAGCA	.	PASS	Atlas-SNP
ADAM32	203102	hgsc.bcm.edu	37	8	39091546	39091546	+	Missense_Mutation	SNP	G	G	A	rs114068623	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	46.0	90.0	0.0	0.560976	0	G|0.990;A|0.010	0.010	strong	.	ADAM32	70	.	NM_145004	exon16	c.G1763A	p.R588Q	TGCCTCGAACAGT	.	PASS	Atlas-SNP
IPO7	10527	hgsc.bcm.edu	37	11	9456506	9456506	+	Silent	SNP	T	T	C	rs148344816	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	55.0	102.0	0.0	0.617977	0	T|0.998;C|0.002	0.002	strong	.	IPO7	72	.	NM_006391	exon19	c.T2100C	p.Y700Y	TAATTATGTAACA	.	PASS	Atlas-SNP
DDX31	64794	hgsc.bcm.edu	37	9	135493792	135493792	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	48.0	129.0	0.0	0.4	0	.	.	none	.	DDX31	76	.	NM_022779	exon18	c.C2065T	p.R689X	TGGCTCGCTCTCG	.	PASS	Atlas-SNP
SERPINB4	6318	hgsc.bcm.edu	37	18	61310738	61310738	+	Missense_Mutation	SNP	T	T	C	rs79086230	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	547.0	254.0	550.0	0.0	0.464351	0	.	.	weak	.	SERPINB4	89	.	NM_002974	exon2	c.A74G	p.N25S	ATGTTGTTCTCTT	.	PASS	Atlas-SNP
C17orf74	201243	hgsc.bcm.edu	37	17	7330437	7330437	+	Missense_Mutation	SNP	A	A	G	rs3892554	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	30.0	68.0	0.0	0.447761	0	A|0.955;G|0.045	0.045	strong	.	C17orf74	56	.	NM_175734	exon3	c.A1127G	p.Q376R	GCTCCCAGGACCC	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13563767	13563767	+	Silent	SNP	G	G	A	rs1800039	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	98.0	198.0	0.0	0.453704	0	G|0.992;A|0.008	0.008	strong	.	CACNA1A	715	.	NM_001127221	exon3	c.C462T	p.A154A	CCCAAGGGCAATG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134626383	134626383	+	Silent	SNP	C	C	T	rs7090011	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	8.0	17.0	0.0	0.380952	0	C|0.966;T|0.034	0.034	strong	.	TTC40	100	.	NM_001200049	exon55	c.G7407A	p.Q2469Q	CAGGGCCTGCTCC	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017522	1017522	+	Missense_Mutation	SNP	T	T	G	rs199592093	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1236.0	124.0	957.0	0.0	0.100324	0	.	.	weak	.	MUC6	408	.	NM_005961	exon31	c.A5279C	p.E1760A	GTGACTTCAGGAT	.	PASS	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	37	17	7385774	7385774	+	Silent	SNP	C	C	T	rs201649944	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	120.0	235.0	1.0	0.510638	0.00425532	C|0.999;T|0.001	0.001	weak	.	.	.	.	NM_001102614	exon2	c.C471T	p.Y157Y	TGGCTACGACTGG	.	PASS	Atlas-SNP
LIFR	3977	hgsc.bcm.edu	37	5	38523529	38523529	+	Missense_Mutation	SNP	C	C	T	rs140538535	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	267.0	115.0	280.0	0.0	0.430712	0	C|0.999;T|0.001	0.001	strong	LIFR_ENST00000263409,NS,carcinoma,0,2	LIFR	348	2	NM_002310	exon5	c.G553A	p.V185I	ATTTTACGAGCTC	.	PASS	Atlas-SNP
MORN2	729967	hgsc.bcm.edu	37	2	39108693	39108693	+	Silent	SNP	G	G	A	rs6756998	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	60.0	100.0	0.0	0.521739	0	G|0.983;A|0.017	0.017	strong	.	MORN2	3	.	NM_001145450	exon4	c.G111A	p.K37K	GGCAAAGTATACT	.	PASS	Atlas-SNP
ASXL1	171023	hgsc.bcm.edu	37	20	31024488	31024488	+	Missense_Mutation	SNP	C	C	T	rs6057581	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	31.0	79.0	0.0	0.449275	0	C|0.971;T|0.029	0.029	strong	.	ASXL1	1114	.	NM_015338	exon12	c.C3973T	p.L1325F	ATGCCTCTTCCTG	.	PASS	Atlas-SNP
CDC14A	8556	hgsc.bcm.edu	37	1	100856380	100856380	+	Silent	SNP	A	A	C	rs28361212	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	32.0	59.0	0.0	0.470588	0	A|0.885;C|0.115	0.115	strong	.	CDC14A	65	.	NM_033313	exon4	c.A309C	p.A103A	CTATGCAGTAAGT	.	PASS	Atlas-SNP
TDRD5	163589	hgsc.bcm.edu	37	1	179621253	179621253	+	Missense_Mutation	SNP	G	G	T	rs147309264	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	107.0	164.0	0.0	0.497674	0	G|0.997;T|0.003	0.003	strong	.	TDRD5	149	.	NM_173533	exon13	c.G2081T	p.G694V	AACTGGGTTATCC	.	PASS	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1637998	1637998	+	Missense_Mutation	SNP	G	G	A	rs8058674	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	50.0	103.0	0.0	0.531915	0	G|0.978;A|0.022	0.022	strong	.	IFT140	128	.	NM_014714	exon8	c.C838T	p.R280W	CTGCCCGGCGGCC	.	PASS	Atlas-SNP
KLK14	43847	hgsc.bcm.edu	37	19	51582090	51582090	+	Silent	SNP	G	G	A	rs79507858	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	93.0	61.0	0.0	1	0	G|0.981;A|0.019	0.019	strong	.	KLK14	49	.	NM_022046	exon6	c.C633T	p.G211G	CTTCCCGCCCTGG	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1522325	1522325	+	Missense_Mutation	SNP	C	C	T	rs11553055	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	100.0	151.0	0.0	0.520833	0	C|0.977;T|0.023	0.023	strong	.	ASMTL	56	.	NM_004192	exon13	c.G1703A	p.R568H	AGGGCGCGCTGCG	.	PASS	Atlas-SNP
NDFIP2	54602	hgsc.bcm.edu	37	13	80094993	80094993	+	Missense_Mutation	SNP	C	C	T	rs55887763	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	57.0	110.0	0.0	0.487179	0	C|0.952;T|0.048	0.048	strong	.	NDFIP2	23	.	NM_019080	exon2	c.C370T	p.P124S	CAGCCACCTACTT	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104170580	104170580	+	Missense_Mutation	SNP	A	A	G	rs148414030	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	102.0	157.0	0.0	0.64557	0	A|0.998;G|0.002	0.002	strong	.	ZNF189	79	.	NM_003452	exon3	c.A530G	p.Q177R	CTTTTCAGTGCAA	.	PASS	Atlas-SNP
CCNH	902	hgsc.bcm.edu	37	5	86695228	86695228	+	Silent	SNP	A	A	T	rs150856919	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	33.0	86.0	0.0	0.44	0	A|1.000;T|0.000	0.000	strong	.	CCNH	40	.	NM_001239	exon7	c.T855A	p.L285L	AAGTGCAAGCTCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195481111	195481111	+	Missense_Mutation	SNP	G	G	T	rs73079395	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	307.0	155.0	232.0	0.0	0.504886	0	G|0.924;T|0.076	0.076	strong	.	MUC4	1505	.	NM_018406	exon19	c.C15301A	p.L5101M	CAGTCAGGTTTGG	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47925485	47925485	+	Missense_Mutation	SNP	T	T	G	rs113527998	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	81.0	185.0	0.0	0.409091	0	T|0.950;G|0.050	0.050	strong	.	PKD1L1	328	.	NM_138295	exon18	c.A3004C	p.T1002P	CTGAAGTGGCAGG	.	PASS	Atlas-SNP
DDX25	29118	hgsc.bcm.edu	37	11	125778305	125778305	+	Silent	SNP	C	C	T	rs34007659	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	83.0	153.0	0.0	0.568493	0	C|0.985;T|0.015	0.015	strong	.	DDX25	65	.	NM_013264	exon6	c.C414T	p.N138N	CCAGAACCTCATA	.	PASS	Atlas-SNP
SUPV3L1	6832	hgsc.bcm.edu	37	10	70940066	70940066	+	Silent	SNP	C	C	T	rs12251842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	27.0	59.0	0.0	0.435484	0	C|0.962;T|0.038	0.038	strong	.	SUPV3L1	61	.	NM_003171	exon1	c.C19T	p.L7L	CGTGCCCTATTGT	.	PASS	Atlas-SNP
HIPK4	147746	hgsc.bcm.edu	37	19	40895493	40895493	+	Missense_Mutation	SNP	G	G	A	rs79236726	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	53.0	96.0	1.0	0.509615	0.0104167	G|0.992;A|0.008	0.008	strong	HIPK4_ENST00000291823,colon,carcinoma,+1,2	HIPK4	100	2	NM_144685	exon1	c.C317T	p.A106V	AGGGGCGCGAAGT	.	scavenged	Atlas-SNP
GIMAP1-GIMAP5	0	hgsc.bcm.edu	37	7	150439554	150439554	+	Silent	SNP	G	G	A	rs61751040	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	52.0	95.0	1.0	0.477064	0.0105263	G|0.953;A|0.047	0.047	strong	GIMAP5,NS,carcinoma,+1,1	.	.	1	NM_001199577	exon6	c.G939A	p.P313P	TGCCCCGGGGCCC	.	scavenged	Atlas-SNP
OR10G7	390265	hgsc.bcm.edu	37	11	123909524	123909524	+	Missense_Mutation	SNP	G	G	A	rs75423810		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	468.0	56.0	624.0	0.0	0.119658	0	A|1.000;|0.000	1.000	weak	OR10G7,NS,carcinoma,+1,1	OR10G7	103	1	NM_001004463	exon1	c.C185T	p.T62I	AGGTTGGTGAGGA	.	scavenged	Atlas-SNP
ARL5C	390790	hgsc.bcm.edu	37	17	37317566	37317566	+	Silent	SNP	C	C	A	rs11653423	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	35.0	63.0	0.0	0.583333	0	C|0.933;A|0.067	0.067	strong	.	ARL5C	3	.	NM_001143968	exon4	c.G294T	p.R98R	CAGCAGCCGATCC	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8196645	8196645	+	Missense_Mutation	SNP	G	G	A	rs61729592	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	96.0	156.0	0.0	0.530387	0	G|0.996;A|0.004	0.004	strong	.	FBN3	300	.	NM_032447	exon14	c.C1783T	p.R595C	GGCAGCGGAAGGA	.	PASS	Atlas-SNP
PEX6	5190	hgsc.bcm.edu	37	6	42932080	42932080	+	Missense_Mutation	SNP	G	G	A	rs115180949	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	45.0	107.0	0.0	0.459184	0	G|0.993;A|0.007	0.007	strong	.	PEX6	44	.	NM_000287	exon17	c.C2936T	p.A979V	TAGCAGGCAGCAA	.	PASS	Atlas-SNP
GLDC	2731	hgsc.bcm.edu	37	9	6587176	6587176	+	Silent	SNP	G	G	A	rs74461075	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	64.0	125.0	0.0	0.474074	0	G|0.987;A|0.013	0.013	strong	.	GLDC	118	.	NM_000170	exon15	c.C1815T	p.L605L	ACCTGTGAGTTCA	.	PASS	Atlas-SNP
LCE1C	353133	hgsc.bcm.edu	37	1	152777874	152777874	+	Silent	SNP	T	T	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	403.0	21.0	282.0	0.0	0.0521092	0	.	.	none	.	LCE1C	40	.	NM_178351	exon2	c.A81T	p.P27P	ACACTTTGGGGTG	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54721337	54721337	+	Missense_Mutation	SNP	G	G	A	rs75437884	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	384.0	90.0	534.0	0.0	0.234375	0	G|0.996;A|0.004	0.004	strong	LILRB3,NS,lymphoid_neoplasm,+2,1	LILRB3	67	1	NM_001081450	exon12	c.C1603T	p.H535Y	CATCGTGTGGGCT	.	PASS	Atlas-SNP
MGAT1	4245	hgsc.bcm.edu	37	5	180219842	180219842	+	Missense_Mutation	SNP	C	C	T	rs34344788	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	36.0	76.0	0.0	0.413793	0	C|0.993;T|0.007	0.007	strong	.	MGAT1	48	.	NM_001114617	exon3	c.G130A	p.D44N	CGCCATCGAGAGC	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	37	17	5039138	5039138	+	Silent	SNP	C	C	T	rs3213878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	10.0	14.0	0.0	0.47619	0	C|0.883;T|0.117	0.117	strong	.	USP6	213	.	NM_004505	exon9	c.C579T	p.T193T	CATCACCGCCTTG	.	PASS	Atlas-SNP
C4A	720	hgsc.bcm.edu	37	6	31963860	31963860	+	Missense_Mutation	SNP	C	C	G	rs2734319	bycluster;by2hit2allele;byhapmap;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	527.0	256.0	750.0	0.0	0.485768	0	.	.	alt	.	C4A	15	.	NM_007293	exon26	c.T3359G	p.L1120R	AGGACCCCTGTCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512219	195512219	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	75.0	439.0	1.0	0.340909	0.0022779	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.G6232A	p.A2078T	GGGTGGCGTGACC	.	PASS	Atlas-SNP
BIRC8	112401	hgsc.bcm.edu	37	19	53793162	53793162	+	Missense_Mutation	SNP	C	C	T	rs35880972	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	221.0	101.0	199.0	0.0	0.457014	0	C|0.937;T|0.063	0.063	strong	.	BIRC8	54	.	NM_033341	exon1	c.G466A	p.A156T	TCTGAGCGCTCAC	.	PASS	Atlas-SNP
UBA7	7318	hgsc.bcm.edu	37	3	49845526	49845526	+	Missense_Mutation	SNP	T	T	C	rs2230149	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	38.0	90.0	0.0	0.452381	0	T|0.973;C|0.027	0.027	strong	.	UBA7	64	.	NM_003335	exon20	c.A2450G	p.H817R	TCCACATGGAAGT	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23905481	23905481	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	59.0	103.0	0.0	0.561905	0	.	.	none	.	SACS	871	.	NM_014363	exon10	c.G12534A	p.P4178P	TTCTCCCGGGTAA	.	PASS	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111695304	111695304	+	Silent	SNP	A	A	G	rs3218589	bycluster;byfrequency;by2hit2allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	76.0	122.0	0.0	0.517007	0	A|0.999;G|0.001	0.001	strong	.	REV3L	386	.	NM_002912	exon13	c.T4254C	p.N1418N	CAAAAAATTAGGG	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228565325	228565325	+	Silent	SNP	C	C	T	rs61743077	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	94.0	142.0	0.0	0.552941	0	C|0.992;T|0.008	0.008	strong	.	OBSCN	2142	.	NM_001271223	exon113	c.C26286T	p.L8762L	CCTGCTCAAGGTC	.	PASS	Atlas-SNP
RANBP3L	202151	hgsc.bcm.edu	37	5	36257134	36257134	+	Missense_Mutation	SNP	G	G	A	rs16902872	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	75.0	172.0	0.0	0.551471	0	G|0.906;A|0.094	0.094	strong	.	RANBP3L	41	.	NM_001161429	exon11	c.C887T	p.A296V	GCAGCAGCTGATT	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60884473	60884473	+	Silent	SNP	C	C	T	rs115306720	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	32.0	21.0	28.0	0.0	0.65625	0	C|0.976;T|0.024	0.024	strong	.	LAMA5	268	.	NM_005560	exon80	c.G11007A	p.A3669A	GTTCACCGCCAGC	.	PASS	Atlas-SNP
CFHR4	10877	hgsc.bcm.edu	37	1	196887411	196887411	+	Missense_Mutation	SNP	T	T	C	rs200907976	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	393.0	216.0	354.0	1.0	0.549618	0.00282486	.	.	weak	.	CFHR4	141	.	NM_001201550	exon10	c.T1612C	p.Y538H	ATAAAATATTATG	.	PASS	Atlas-SNP
ALDH8A1	64577	hgsc.bcm.edu	37	6	135254034	135254034	+	Silent	SNP	G	G	A	rs114000920	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	43.0	92.0	0.0	0.544304	0	G|0.987;A|0.013	0.013	strong	.	ALDH8A1	68	.	NM_022568	exon5	c.C729T	p.S243S	GGGAGCGCTCAGC	.	PASS	Atlas-SNP
BPIFB3	359710	hgsc.bcm.edu	37	20	31644436	31644436	+	Silent	SNP	A	A	C	rs35539872	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	64.0	97.0	0.0	0.496124	0	A|0.957;C|0.043	0.043	strong	.	.	.	.	NM_182658	exon2	c.A213C	p.G71G	CTCAGGAGGGCTG	.	PASS	Atlas-SNP
MRGPRX3	117195	hgsc.bcm.edu	37	11	18159406	18159406	+	Silent	SNP	C	C	G	rs28628238	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	137.0	123.0	0.0	0.992754	0	C|0.948;G|0.052	0.052	strong	.	MRGPRX3	59	.	NM_054031	exon3	c.C657G	p.L219L	CATCCTCCTCACA	.	PASS	Atlas-SNP
B4GALT3	8703	hgsc.bcm.edu	37	1	161141862	161141862	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	43.0	73.0	0.0	0.483146	0	.	.	none	.	B4GALT3	39	.	NM_003779	exon8	c.G926A	p.R309H	TGGGTACGGACCA	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15841534	15841534	+	Silent	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	55.0	110.0	0.0	0.572917	0	.	.	none	.	MYH11	520	.	NM_001040114	exon20	c.C2325A	p.I775I	GAAGAAGATTTTG	.	PASS	Atlas-SNP
ZNF689	115509	hgsc.bcm.edu	37	16	30616317	30616317	+	Silent	SNP	A	A	G	rs34007971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	47.0	62.0	0.0	0.522222	0	A|0.917;G|0.083	0.083	strong	.	ZNF689	48	.	NM_138447	exon3	c.T771C	p.G257G	TTTTTCACCTGTG	.	PASS	Atlas-SNP
KIAA1211L	343990	hgsc.bcm.edu	37	2	99412654	99412654	+	Missense_Mutation	SNP	C	C	T	rs73962467	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	54.0	119.0	0.0	0.482143	0	C|0.991;T|0.009	0.009	strong	.	.	.	.	NM_207362	exon9	c.G2678A	p.R893Q	TGCTTCCGGTCCA	.	PASS	Atlas-SNP
PIK3AP1	118788	hgsc.bcm.edu	37	10	98469734	98469734	+	Missense_Mutation	SNP	G	G	A	rs73334383	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	40.0	94.0	0.0	0.43956	0	G|0.987;A|0.013	0.013	strong	.	PIK3AP1	111	.	NM_152309	exon2	c.C20T	p.P7L	CCTCTGGGCACCC	.	PASS	Atlas-SNP
AIFM3	150209	hgsc.bcm.edu	37	22	21333605	21333605	+	Missense_Mutation	SNP	G	G	C	rs61356271	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	98.0	133.0	0.0	0.535519	0	G|0.946;C|0.054	0.054	strong	.	AIFM3	49	.	NM_001146288	exon17	c.G1541C	p.S514T	AGATGAGCACTGT	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105414559	105414559	+	Missense_Mutation	SNP	T	T	C	rs11845746	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	240.0	236.0	208.0	0.0	0.983333	0	T|0.967;C|0.033	0.033	strong	.	AHNAK2	719	.	NM_138420	exon7	c.A7229G	p.K2410R	GGCATCTTGAAAC	.	PASS	Atlas-SNP
ZNF782	158431	hgsc.bcm.edu	37	9	99581440	99581440	+	Missense_Mutation	SNP	T	T	C	rs35403084	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	57.0	81.0	0.0	0.619565	0	T|0.971;C|0.029	0.029	strong	.	ZNF782	64	.	NM_001001662	exon6	c.A865G	p.T289A	CTCCTGTGAGAGT	.	PASS	Atlas-SNP
DMRT2	10655	hgsc.bcm.edu	37	9	1056517	1056517	+	Silent	SNP	C	C	G	rs16928356	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	137.0	160.0	0.0	0.992754	0	C|0.951;G|0.049	0.049	strong	.	DMRT2	70	.	NM_181872	exon4	c.C930G	p.T310T	TTTAACCATGCAG	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13701422	13701422	+	Missense_Mutation	SNP	G	G	T	rs113425437	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	41.0	80.0	0.0	0.561644	0	G|0.961;T|0.039	0.039	strong	.	DNAH5	868	.	NM_001369	exon77	c.C13462A	p.P4488T	CCTGGGGGTTAAA	.	PASS	Atlas-SNP
OR8K1	390157	hgsc.bcm.edu	37	11	56113923	56113923	+	Silent	SNP	C	C	T	rs61745885	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	71.0	152.0	0.0	0.47973	0	C|0.993;T|0.007	0.007	strong	OR8K1,shoulder,malignant_melanoma,0,1	OR8K1	93	1	NM_001002907	exon1	c.C409T	p.L137L	CCTCTTCTGTACG	.	PASS	Atlas-SNP
MCM2	4171	hgsc.bcm.edu	37	3	127340583	127340583	+	Silent	SNP	C	C	T	rs6794323	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	41.0	81.0	0.0	0.455556	0	C|0.930;T|0.070	0.070	strong	.	MCM2	79	.	NM_004526	exon16	c.C2682T	p.D894D	CCACGACCTGAAA	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24250809	24250809	+	Missense_Mutation	SNP	T	T	C	rs77012108	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	68.0	124.0	0.0	0.535433	0	T|0.973;C|0.027	0.027	strong	ADAMDEC1,arm,malignant_melanoma,-1,1	ADAMDEC1	69	1	NM_014479	exon3	c.T242C	p.I81T	AGATGATCTTAAA	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6103281	6103281	+	Silent	SNP	A	A	T	rs11537642	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	36.0	71.0	0.0	0.409091	0	A|0.955;T|0.045	0.045	strong	.	VWF	338	.	NM_000552	exon37	c.T6345A	p.T2115T	CTGCACAGTCCAT	.	PASS	Atlas-SNP
MRI1	84245	hgsc.bcm.edu	37	19	13875453	13875453	+	Silent	SNP	C	C	T	rs141796284	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	48.0	107.0	0.0	0.390244	0	C|0.993;T|0.007	0.007	strong	.	MRI1	35	.	NM_001031727	exon1	c.C51T	p.D17D	CCTAGACCAGCTG	.	PASS	Atlas-SNP
EEF2	1938	hgsc.bcm.edu	37	19	3980852	3980852	+	Silent	SNP	G	G	A	rs140573073	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	27.0	32.0	0.0	0.509434	0	G|0.997;A|0.003	0.003	strong	.	EEF2	57	.	NM_001961	exon8	c.C1137T	p.D379D	AGCCTCGTCGTCC	.	PASS	Atlas-SNP
DDX27	55661	hgsc.bcm.edu	37	20	47849904	47849904	+	Missense_Mutation	SNP	C	C	T	rs145681733		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	34.0	85.0	0.0	0.409639	0	C|1.000;T|0.000	0.000	weak	.	DDX27	74	.	NM_017895	exon10	c.C1186T	p.R396C	CACCACCGCCAGA	.	PASS	Atlas-SNP
C7orf71	285941	hgsc.bcm.edu	37	7	26678881	26678881	+	Missense_Mutation	SNP	G	G	A	rs78525926	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	28.0	36.0	0.0	1	0	G|0.964;A|0.036	0.036	strong	.	C7orf71	6	.	NM_001145531	exon2	c.G118A	p.G40S	CAAGGCGGCTACC	.	PASS	Atlas-SNP
ATP6AP2	10159	hgsc.bcm.edu	37	X	40464822	40464822	+	Missense_Mutation	SNP	G	G	C	rs35798522	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	19.0	25.0	0.0	0.558824	0	G|0.977;C|0.023	0.023	strong	.	ATP6AP2	45	.	NM_005765	exon9	c.G868C	p.A290P	AACCCAGCAAGTC	.	PASS	Atlas-SNP
ORM2	5005	hgsc.bcm.edu	37	9	117094200	117094200	+	Silent	SNP	C	C	T	rs1826232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	49.0	136.0	0.0	0.30625	0	C|0.873;T|0.127	0.127	strong	ORM2,face,carcinoma,-2,1	ORM2	13	1	NM_000608	exon5	c.C531T	p.D177D	CACCGACTGGAAA	.	PASS	Atlas-SNP
COG2	22796	hgsc.bcm.edu	37	1	230796533	230796533	+	Silent	SNP	T	T	G	rs16852160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	245.0	105.0	232.0	0.0	0.428571	0	T|0.962;G|0.038	0.038	strong	.	COG2	61	.	NM_007357	exon3	c.T264G	p.L88L	CCAGCTTTCTGTG	.	PASS	Atlas-SNP
INHA	3623	hgsc.bcm.edu	37	2	220439826	220439826	+	Missense_Mutation	SNP	G	G	A	rs12720061	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	75.0	121.0	0.0	0.539568	0	G|0.973;A|0.027	0.027	strong	.	INHA	30	.	NM_002191	exon2	c.G679A	p.G227R	AGTGGAGGGGAGA	.	PASS	Atlas-SNP
CCDC155	147872	hgsc.bcm.edu	37	19	49920719	49920719	+	Silent	SNP	C	C	T	rs79452032	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	41.0	62.0	0.0	0.493976	0	C|0.987;T|0.013	0.013	strong	.	CCDC155	46	.	NM_144688	exon20	c.C1641T	p.P547P	ACCTCCCACCTGG	.	PASS	Atlas-SNP
CEACAM1	634	hgsc.bcm.edu	37	19	43031369	43031369	+	Missense_Mutation	SNP	G	G	A	rs8110904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	456.0	238.0	449.0	1.0	0.52193	0.00222717	G|0.900;A|0.100	0.100	strong	.	CEACAM1	43	.	NM_001184816	exon2	c.C248T	p.A83V	CCTATTGCATATC	.	PASS	Atlas-SNP
KCNN1	3780	hgsc.bcm.edu	37	19	18084724	18084724	+	Silent	SNP	C	C	T	rs77030907	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	7.0	2.0	0.0	0.583333	0	C|0.990;T|0.010	0.010	strong	.	KCNN1	74	.	NM_002248	exon3	c.C27T	p.S9S	TGGCAGCGTGGGG	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117099574	117099574	+	Silent	SNP	A	A	G	rs148856699	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	99.0	136.0	0.0	0.673469	0	A|0.995;G|0.005	0.005	strong	.	AKNA	119	.	NM_030767	exon22	c.T4080C	p.P1360P	TCCTGCAGGCGCA	.	PASS	Atlas-SNP
SPAG8	26206	hgsc.bcm.edu	37	9	35811215	35811215	+	Silent	SNP	C	C	T	rs73444820	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	71.0	89.0	1.0	0.71	0.011236	C|0.978;T|0.022	0.022	strong	SPAG8_ENST00000396638,caecum,carcinoma,0,2	SPAG8	67	2	NM_001039592	exon2	c.G828A	p.P276P	GCCCCGCGGCAAA	.	scavenged	Atlas-SNP
SERPINE3	647174	hgsc.bcm.edu	37	13	51936079	51936079	+	Silent	SNP	T	T	C	rs74084815	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	95.0	222.0	1.0	0.470297	0.0045045	T|0.992;C|0.008	0.008	strong	.	SERPINE3	37	.	NM_001101320	exon7	c.T1221C	p.S407S	TCTCTCTAGCAAC	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124765511	124765511	+	Missense_Mutation	SNP	T	T	G	rs60888551	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	31.0	93.0	0.0	0.333333	0	T|0.952;G|0.048	0.048	strong	.	ROBO4	130	.	NM_019055	exon6	c.A878C	p.Q293P	GCTCCCTGGCCTC	.	PASS	Atlas-SNP
NLRP11	204801	hgsc.bcm.edu	37	19	56303806	56303806	+	Missense_Mutation	SNP	A	A	C	rs80143194	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	62.0	122.0	0.0	0.5	0	A|0.976;C|0.024	0.024	strong	.	NLRP11	139	.	NM_145007	exon9	c.T2374G	p.C792G	CGCTGCAGCAATT	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123843946	123843946	+	Missense_Mutation	SNP	C	C	T	rs60531929	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	31.0	16.0	32.0	0.0	0.516129	0	C|0.965;T|0.035	0.035	strong	.	TACC2	271	.	NM_206862	exon4	c.C1931T	p.T644M	GGCACACGGACGG	.	PASS	Atlas-SNP
LCN8	138307	hgsc.bcm.edu	37	9	139649701	139649701	+	Missense_Mutation	SNP	C	C	T	rs144857499	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	55.0	78.0	0.0	0.6875	0	C|0.997;T|0.003	0.003	strong	.	LCN8	14	.	NM_178469	exon5	c.G416A	p.R139Q	CCAGGCCGGGCCG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1271582	1271582	+	Missense_Mutation	SNP	C	C	T	rs4963055	by2hit2allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	596.0	279.0	827.0	2.0	0.468121	0.00241838	.	.	weak	.	MUC5B	473	.	NM_002458	exon31	c.C13472T	p.T4491I	CAGTCACCAGCTC	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	37	22	45741416	45741416	+	Missense_Mutation	SNP	T	T	A	rs61737925	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	78.0	125.0	0.0	0.527027	0	T|0.960;A|0.040	0.040	strong	.	SMC1B	215	.	NM_148674	exon24	c.A3530T	p.Q1177L	TGAAACTGGTCTT	.	PASS	Atlas-SNP
WBSCR27	155368	hgsc.bcm.edu	37	7	73249092	73249092	+	Missense_Mutation	SNP	C	C	T	rs73369956	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	103.0	111.0	0.0	1	0	C|0.962;T|0.038	0.038	strong	.	WBSCR27	21	.	NM_152559	exon6	c.G719A	p.R240Q	CTGGGTCGCCTTC	.	PASS	Atlas-SNP
AMER1	139285	hgsc.bcm.edu	37	X	63410110	63410110	+	Silent	SNP	T	T	C	rs61730681	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	157.0	149.0	0.0	1	0	T|0.758;C|0.242	0.242	strong	.	.	.	.	NM_152424	exon2	c.A3057G	p.Q1019Q	AGCTAGTTGAGGC	.	PASS	Atlas-SNP
KRTAP5-9	3846	hgsc.bcm.edu	37	11	71259709	71259709	+	Silent	SNP	C	C	T	rs180808688	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	521.0	234.0	453.0	1.0	0.449136	0.00220751	C|0.999;T|0.001	0.001	strong	.	KRTAP5-9	19	.	NM_005553	exon1	c.C6T	p.G2G	CATGGGCTGCTGT	.	PASS	Atlas-SNP
CRTAC1	55118	hgsc.bcm.edu	37	10	99696031	99696031	+	Missense_Mutation	SNP	G	G	A	rs80014629	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	52.0	132.0	0.0	0.464286	0	G|0.999;A|0.001	0.001	strong	CRTAC1,NS,carcinoma,0,2	CRTAC1	86	2	NM_001206528	exon3	c.C317T	p.A106V	CGCAGCGCGTAGT	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	37	4	154525446	154525446	+	Silent	SNP	A	A	C	rs17030219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	75.0	135.0	0.0	0.559702	0	A|0.987;C|0.013	0.013	strong	.	KIAA0922	214	.	NM_001131007	exon25	c.A3282C	p.S1094S	AACTTCAGAGAAC	.	PASS	Atlas-SNP
PDE5A	8654	hgsc.bcm.edu	37	4	120440278	120440278	+	Missense_Mutation	SNP	A	A	G	rs116396619	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	129.0	241.0	1.0	0.494253	0.00414938	A|0.996;G|0.004	0.004	strong	.	PDE5A	83	.	NM_001083	exon14	c.T1922C	p.L641P	ATCTCCAGGTCAG	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	99028811	99028811	+	Silent	SNP	G	G	A	rs79255841	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	104.0	208.0	0.0	0.509804	0	G|0.976;A|0.024	0.024	strong	MATN2_ENST00000520016,NS,carcinoma,+1,2	MATN2	165	2	NM_002380	exon11	c.G1617A	p.S539S	ACATTCGTGTGTA	.	PASS	Atlas-SNP
IPO4	79711	hgsc.bcm.edu	37	14	24652350	24652350	+	Silent	SNP	G	G	A	rs377303706		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	72.0	138.0	0.0	0.529412	0	.	.	weak	.	IPO4	74	.	NM_024658	exon23	c.C2253T	p.V751V	TGGCACGACTCGG	.	PASS	Atlas-SNP
THNSL2	55258	hgsc.bcm.edu	37	2	88478341	88478341	+	Missense_Mutation	SNP	C	C	A	rs34136143	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	204.0	188.0	0.0	1	0	C|0.974;A|0.026	0.026	strong	.	THNSL2	66	.	NM_018271	exon4	c.C611A	p.T204N	TCAAGACTGTGTT	.	PASS	Atlas-SNP
TRIM16	10626	hgsc.bcm.edu	37	17	15532430	15532430	+	Silent	SNP	G	G	A	rs7225221	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	324.0	142.0	269.0	0.0	0.438272	0	G|0.953;A|0.047	0.047	strong	.	TRIM16	45	.	NM_006470	exon9	c.C1194T	p.T398T	GGGCGTGGTGTTG	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29886341	29886341	+	Silent	SNP	C	C	T	rs61744118	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	135.0	140.0	1.0	0.992647	0.00714286	C|0.990;T|0.010	0.010	strong	.	NEFH	178	.	NM_021076	exon4	c.C2712T	p.P904P	AGTCCCCACCCCA	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158618320	158618320	+	Silent	SNP	G	G	A	rs34773716	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	53.0	82.0	0.0	0.6625	0	G|0.988;A|0.012	0.012	strong	SPTA1,NS,carcinoma,-2,1	SPTA1	720	1	NM_003126	exon26	c.C3693T	p.D1231D	TACGAGGTCCCTT	.	PASS	Atlas-SNP
RNF216	54476	hgsc.bcm.edu	37	7	5765034	5765034	+	Silent	SNP	C	C	T	rs77500990	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	79.0	144.0	0.0	0.526667	0	C|0.996;T|0.004	0.004	strong	.	RNF216	71	.	NM_207111	exon8	c.G1425A	p.L475L	TGGTGACAGCTCC	.	PASS	Atlas-SNP
OR51F1	256892	hgsc.bcm.edu	37	11	4790868	4790868	+	Missense_Mutation	SNP	T	T	C	rs75972277	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	33.0	83.0	0.0	0.39759	0	T|0.955;C|0.045	0.045	strong	.	OR51F1	60	.	NM_001004752	exon1	c.A280G	p.I94V	GACTGATTTCACG	.	PASS	Atlas-SNP
TMPRSS15	5651	hgsc.bcm.edu	37	21	19704422	19704422	+	Missense_Mutation	SNP	T	T	A	rs8134187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	65.0	0.0	0.468354	0	T|0.954;A|0.046	0.046	strong	.	TMPRSS15	189	.	NM_002772	exon14	c.A1633T	p.S545C	GGTAGCTGTTTGG	.	PASS	Atlas-SNP
ENGASE	64772	hgsc.bcm.edu	37	17	77079854	77079854	+	Silent	SNP	A	A	G	rs61729127	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	46.0	63.0	0.0	0.541176	0	A|0.956;G|0.044	0.044	strong	.	ENGASE	55	.	NM_001042573	exon10	c.A1263G	p.V421V	GGCGGTAGGGCCC	.	PASS	Atlas-SNP
HAGH	3029	hgsc.bcm.edu	37	16	1869907	1869907	+	Silent	SNP	G	G	A	rs17849371	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	28.0	84.0	0.0	0.358974	0	G|0.958;A|0.042	0.042	strong	.	HAGH	20	.	NM_005326	exon4	c.C423T	p.S141S	CAGTGTGGACAGG	.	PASS	Atlas-SNP
C14orf80	283643	hgsc.bcm.edu	37	14	105957446	105957446	+	Missense_Mutation	SNP	G	G	A	rs76864584	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	91.0	117.0	0.0	0.541667	0	G|0.956;A|0.044	0.044	strong	.	C14orf80	19	.	NM_001134877	exon2	c.G7A	p.G3S	ATGTCCGGCCAGC	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248524974	248524974	+	Missense_Mutation	SNP	A	A	G	rs57795102	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	800.0	387.0	775.0	1.0	0.48375	0.00129032	A|0.925;G|0.075	0.075	strong	OR2T4,NS,adenocarcinoma,-1,1	OR2T4	126	1	NM_001004696	exon1	c.A92G	p.N31S	TGGCCAATATCAC	.	PASS	Atlas-SNP
KIAA1009	22832	hgsc.bcm.edu	37	6	84856409	84856409	+	Silent	SNP	T	T	C	rs9449804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	25.0	65.0	0.0	0.462963	0	T|0.900;C|0.100	0.100	strong	.	KIAA1009	119	.	NM_014895	exon25	c.A3867G	p.K1289K	TACCTCTTTCTGT	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152547268	152547268	+	Silent	SNP	G	G	A	rs373946448	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	91.0	164.0	0.0	0.535294	0	.	.	weak	.	NEB	1697	.	NM_004543	exon24	c.C2283T	p.A761A	GAGCTGGGCTTGC	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6094249	6094249	+	Missense_Mutation	SNP	C	C	T	rs62641242	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	82.0	128.0	0.0	0.532468	0	C|0.999;T|0.001	0.001	strong	.	VWF	338	.	NM_000552	exon40	c.G6938A	p.R2313H	TTCTGGCGGAGGC	.	PASS	Atlas-SNP
IL21R	50615	hgsc.bcm.edu	37	16	27460437	27460437	+	Missense_Mutation	SNP	G	G	A	rs3093386	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	58.0	103.0	0.0	0.517857	0	G|0.962;A|0.038	0.038	strong	.	IL21R	95	.	NM_181079	exon10	c.G1516A	p.G506S	CTGGCCGGCCTGG	.	PASS	Atlas-SNP
ALDH3A2	224	hgsc.bcm.edu	37	17	19559770	19559770	+	Missense_Mutation	SNP	C	C	T	rs115977487	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	265.0	135.0	219.0	1.0	0.509434	0.00456621	C|0.990;T|0.010	0.010	strong	.	ALDH3A2	41	.	NM_001031806	exon4	c.C563T	p.A188V	ACACTGCGGTTGG	.	PASS	Atlas-SNP
DDX51	317781	hgsc.bcm.edu	37	12	132628285	132628285	+	Silent	SNP	G	G	A	rs191101265	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	16.0	6.0	8.0	0.0	0.375	0	G|0.968;A|0.032	0.032	strong	.	DDX51	33	.	NM_175066	exon2	c.C474T	p.V158V	GCCGGGGACCAGG	.	PASS	Atlas-SNP
TTPAL	79183	hgsc.bcm.edu	37	20	43117986	43117986	+	Missense_Mutation	SNP	C	C	G	rs59069332	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	83.0	125.0	0.0	0.576389	0	C|0.976;G|0.024	0.024	strong	.	TTPAL	31	.	NM_001039199	exon5	c.C833G	p.A278G	GCACGGCTGGGGA	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3432586	3432586	+	Silent	SNP	T	T	G	rs146006696	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	31.0	60.0	0.0	0.413333	0	T|0.988;G|0.012	0.012	strong	.	CSMD1	1469	.	NM_033225	exon10	c.A1225C	p.R409R	ATGTTCTCGCTGG	.	PASS	Atlas-SNP
SCN4A	6329	hgsc.bcm.edu	37	17	62029006	62029006	+	Silent	SNP	A	A	G	rs79893125	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	332.0	155.0	305.0	1.0	0.466867	0.00327869	A|0.936;G|0.064	0.064	strong	.	SCN4A	205	.	NM_000334	exon14	c.T2631C	p.D877D	CTTCTCATCCTCG	.	PASS	Atlas-SNP
ZNF358	140467	hgsc.bcm.edu	37	19	7585762	7585762	+	Missense_Mutation	SNP	G	G	C	rs116797831	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	207.0	117.0	183.0	0.0	0.565217	0	G|0.977;C|0.023	0.023	strong	.	ZNF358	41	.	NM_018083	exon2	c.G1634C	p.S545T	CTGTCAGCCCAGC	.	PASS	Atlas-SNP
SLC26A6	65010	hgsc.bcm.edu	37	3	48664473	48664473	+	Missense_Mutation	SNP	C	C	T	rs59643945	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	96.0	208.0	1.0	0.548571	0.00480769	C|0.962;T|0.038	0.038	strong	.	SLC26A6	45	.	NM_022911	exon18	c.G1909A	p.D637N	TCTTATCTCCTGA	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470764	10470764	+	Missense_Mutation	SNP	T	T	G	rs75814156	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	13.0	48.0	0.0	0.325	0	T|0.984;G|0.016	0.016	strong	RP1L1,NS,carcinoma,+2,1	RP1L1	453	1	NM_178857	exon4	c.A844C	p.N282H	GGGGGTTGCTAGG	.	PASS	Atlas-SNP
ZKSCAN3	80317	hgsc.bcm.edu	37	6	28331573	28331573	+	Missense_Mutation	SNP	T	T	A	rs213227	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	47.0	91.0	0.0	0.47	0	T|0.958;A|0.042	0.042	strong	.	ZKSCAN3	50	.	NM_024493	exon5	c.T738A	p.H246Q	GAACCATGGCAGC	.	PASS	Atlas-SNP
TRPM2	7226	hgsc.bcm.edu	37	21	45825818	45825818	+	Silent	SNP	C	C	T	rs17004645	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	21.0	55.0	0.0	0.456522	0	C|0.993;T|0.007	0.007	strong	TRPM2,NS,carcinoma,+1,1	TRPM2	196	1	NM_003307	exon18	c.C2688T	p.R896R	CGGGCGCGTCATC	.	PASS	Atlas-SNP
TDP1	55775	hgsc.bcm.edu	37	14	90451500	90451500	+	Silent	SNP	A	A	G	rs17126522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	80.0	153.0	0.0	0.493827	0	A|0.938;G|0.062	0.062	strong	.	TDP1	47	.	NM_018319	exon10	c.A1077G	p.P359P	AACCCCAGGACGC	.	PASS	Atlas-SNP
BPIFC	254240	hgsc.bcm.edu	37	22	32843312	32843312	+	Silent	SNP	G	G	A	rs28733723	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	43.0	102.0	0.0	0.551282	0	G|0.968;A|0.032	0.032	strong	.	.	.	.	NM_174932	exon3	c.C261T	p.A87A	TGAAAAGGCACTG	.	PASS	Atlas-SNP
NOXO1	124056	hgsc.bcm.edu	37	16	2030029	2030029	+	Silent	SNP	C	C	T	rs34358073	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	46.0	74.0	0.0	0.560976	0	C|0.966;T|0.034	0.034	strong	.	NOXO1	13	.	NM_172168	exon5	c.G570A	p.E190E	CAGGCTCTCCTGG	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746107	143746107	+	Silent	SNP	C	C	T	rs61747165	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	38.0	25.0	0.0	0.730769	0	C|0.992;T|0.008	0.008	strong	.	.	.	.	NM_003724	exon2	c.G1371A	p.S457S	TGCTGGCGACGTG	.	PASS	Atlas-SNP
ARHGAP17	55114	hgsc.bcm.edu	37	16	24942272	24942272	+	Missense_Mutation	SNP	T	T	A	rs111463480	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	76.0	161.0	0.0	0.424581	0	T|0.999;A|0.001	0.001	strong	.	ARHGAP17	138	.	NM_001006634	exon19	c.A2348T	p.N783I	TCAGGGTTACCCC	.	PASS	Atlas-SNP
KIRREL2	84063	hgsc.bcm.edu	37	19	36350474	36350474	+	Missense_Mutation	SNP	G	G	A	rs34494265	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	38.0	53.0	0.0	0.558824	0	G|0.982;A|0.018	0.018	strong	.	KIRREL2	170	.	NM_199180	exon5	c.G614A	p.R205Q	TCTGCCGGGCCCG	.	PASS	Atlas-SNP
GOLGA3	2802	hgsc.bcm.edu	37	12	133358984	133358984	+	Silent	SNP	A	A	G	rs76963006	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	107.0	234.0	0.0	0.532338	0	A|0.990;G|0.010	0.010	strong	.	GOLGA3	234	.	NM_005895	exon17	c.T3363C	p.L1121L	GCCCGTAAGCTTC	.	PASS	Atlas-SNP
RGS3	5998	hgsc.bcm.edu	37	9	116356549	116356549	+	Missense_Mutation	SNP	C	C	G	rs113405588	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	42.0	75.0	0.0	0.583333	0	C|0.988;G|0.012	0.012	strong	.	RGS3	251	.	NM_144489	exon1	c.C350G	p.P117R	GGGGCCCTACAGA	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10467130	10467130	+	Missense_Mutation	SNP	G	G	A	rs138261433	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	24.0	36.0	0.0	0.5	0	G|0.998;A|0.002	0.002	strong	.	RP1L1	453	.	NM_178857	exon4	c.C4478T	p.A1493V	GGTTGGGCCTGCG	.	PASS	Atlas-SNP
OR5J2	282775	hgsc.bcm.edu	37	11	55944501	55944501	+	Missense_Mutation	SNP	G	G	C	rs12279899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	426.0	193.0	316.0	0.0	0.453052	0	G|0.979;C|0.021	0.021	strong	.	OR5J2	98	.	NM_001005492	exon1	c.G408C	p.M136I	AGCCATGTCTGAT	.	PASS	Atlas-SNP
ARHGEF17	9828	hgsc.bcm.edu	37	11	73078685	73078685	+	Missense_Mutation	SNP	G	G	A	rs143114785	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	37.0	72.0	0.0	0.528571	0	G|0.991;A|0.009	0.009	strong	.	ARHGEF17	117	.	NM_014786	exon21	c.G6052A	p.A2018T	GGCCCCGCCCCTG	.	PASS	Atlas-SNP
FZD3	7976	hgsc.bcm.edu	37	8	28413375	28413375	+	Silent	SNP	C	C	T	rs62001924	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	58.0	124.0	0.0	0.58	0	C|0.984;T|0.016	0.016	strong	.	FZD3	65	.	NM_017412	exon7	c.C1674T	p.T558T	ATCCACCCATGCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179586779	179586779	+	Silent	SNP	A	A	G	rs16866469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	58.0	123.0	0.0	0.483333	0	A|0.982;G|0.018	0.018	strong	.	TTN	18412	.	NM_001267550	exon78	c.T22611C	p.H7537H	AGTAACATGACAC	.	PASS	Atlas-SNP
TH	7054	hgsc.bcm.edu	37	11	2191006	2191006	+	Silent	SNP	C	C	T	rs34510659	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	40.0	74.0	0.0	0.588235	0	C|0.971;T|0.029	0.029	strong	.	TH	43	.	NM_199292	exon3	c.G279A	p.S93S	GGGCTCCGAGGGG	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124846788	124846788	+	Missense_Mutation	SNP	G	G	C	rs11057592	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	16.0	41.0	0.0	0.380952	0	G|0.973;C|0.027	0.027	strong	.	NCOR2	475	.	NM_006312	exon24	c.C2984G	p.A995G	GGGGGAGCTGGCT	.	PASS	Atlas-SNP
QRFP	347148	hgsc.bcm.edu	37	9	133768921	133768921	+	Missense_Mutation	SNP	G	G	A	rs140393161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	38.0	98.0	0.0	0.361905	0	G|0.999;A|0.001	0.001	strong	.	QRFP	14	.	NM_198180	exon1	c.C305T	p.P102L	GCAGCAGGGAGGA	.	PASS	Atlas-SNP
POLR2A	5430	hgsc.bcm.edu	37	17	7412349	7412349	+	Silent	SNP	G	G	A	rs2228134	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	251.0	135.0	262.0	1.0	0.537849	0.00381679	G|0.935;A|0.065	0.065	strong	POLR2A,colon,carcinoma,+1,1	POLR2A	157	1	NM_000937	exon21	c.G3552A	p.T1184T	GAGCACGGTGGTG	.	PASS	Atlas-SNP
RICTOR	253260	hgsc.bcm.edu	37	5	38960006	38960006	+	Silent	SNP	G	G	A	rs73751814	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	82.0	136.0	0.0	0.518987	0	G|0.993;A|0.007	0.007	strong	.	RICTOR	182	.	NM_152756	exon21	c.C1926T	p.P642P	TCTTTCGGGTTTC	.	PASS	Atlas-SNP
B3GNT4	79369	hgsc.bcm.edu	37	12	122691058	122691058	+	Missense_Mutation	SNP	T	T	C	rs35203505	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	82.0	194.0	0.0	0.438503	0	T|0.944;C|0.056	0.056	strong	.	B3GNT4	35	.	NM_030765	exon3	c.T260C	p.L87P	CCTCTCTGTCCCT	.	PASS	Atlas-SNP
TMEM37	140738	hgsc.bcm.edu	37	2	120194673	120194673	+	Missense_Mutation	SNP	G	G	A	rs114197773	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	25.0	38.0	0.0	0.462963	0	G|0.973;A|0.027	0.027	strong	.	TMEM37	40	.	NM_183240	exon2	c.G230A	p.G77D	ACCTGGGCCAGGC	.	PASS	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	37	4	186573817	186573817	+	Silent	SNP	C	C	T	rs61732192	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	75.0	174.0	1.0	0.503356	0.00574713	C|0.984;T|0.016	0.016	strong	SORBS2_ENST00000448662,NS,carcinoma,-1,4	SORBS2	300	4	NM_001145673	exon8	c.G870A	p.P290P	CATACCCGGCTTG	.	scavenged	Atlas-SNP
TCEAL3	85012	hgsc.bcm.edu	37	X	102864251	102864251	+	Missense_Mutation	SNP	C	C	G	rs12009847	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	389.0	379.0	379.0	1.0	0.974293	0.00263852	C|0.936;G|0.064	0.064	strong	.	TCEAL3	24	.	NM_001006933	exon3	c.C259G	p.Q87E	GCCTCCCAGGCAA	.	PASS	Atlas-SNP
AJUBA	84962	hgsc.bcm.edu	37	14	23444247	23444247	+	Silent	SNP	G	G	A	rs10130692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	49.0	60.0	0.0	0.604938	0	G|0.955;A|0.045	0.045	strong	.	.	.	.	NM_032876	exon5	c.C1306T	p.L436L	CATCCAGGCACTT	.	PASS	Atlas-SNP
HLTF	6596	hgsc.bcm.edu	37	3	148768130	148768130	+	Silent	SNP	T	T	C	rs16861365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	84.0	157.0	0.0	0.521739	0	T|0.956;C|0.044	0.044	strong	.	HLTF	87	.	NM_139048	exon15	c.A1506G	p.V502V	CAAGTGTACATCT	.	PASS	Atlas-SNP
TRIM36	55521	hgsc.bcm.edu	37	5	114482847	114482847	+	Silent	SNP	T	T	C	rs12109197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	459.0	209.0	466.0	1.0	0.455338	0.00214592	T|0.998;C|0.002	0.002	strong	.	TRIM36	126	.	NM_018700	exon3	c.A543G	p.E181E	GAAGCATTCATTG	.	PASS	Atlas-SNP
DLAT	1737	hgsc.bcm.edu	37	11	111908137	111908137	+	Missense_Mutation	SNP	G	G	A	rs116125936	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	21.0	97.0	0.0	0.328125	0	G|0.992;A|0.008	0.008	strong	.	DLAT	39	.	NM_001931	exon6	c.G928A	p.E310K	CCAACCGAAGTAA	.	PASS	Atlas-SNP
DTNBP1	84062	hgsc.bcm.edu	37	6	15533469	15533469	+	Splice_Site	SNP	G	G	A	rs61739410	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	45.0	79.0	0.0	0.45	0	G|0.969;A|0.031	0.031	strong	.	DTNBP1	56	.	NM_032122	exon9	c.667+2C>T	.	CCACTCGCCTCGC	.	PASS	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	37	1	75038963	75038963	+	Missense_Mutation	SNP	C	C	A	rs75061423	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	60.0	121.0	0.0	0.47619	0	A|0.022;C|0.978	0.022	strong	.	C1orf173	380	.	NM_001002912	exon14	c.G2431T	p.A811S	TCCACGCCCTCAA	.	PASS	Atlas-SNP
ITGAV	3685	hgsc.bcm.edu	37	2	187490232	187490232	+	Silent	SNP	G	G	A	rs114767222	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	33.0	95.0	0.0	0.388235	0	G|0.992;A|0.008	0.008	strong	.	ITGAV	124	.	NM_001145000	exon4	c.G441A	p.E147E	AACTGAGATGAAA	.	PASS	Atlas-SNP
RBCK1	10616	hgsc.bcm.edu	37	20	398175	398175	+	Missense_Mutation	SNP	G	G	C	rs143804674	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	54.0	85.0	0.0	0.574468	0	G|1.000;C|0.000	0.000	strong	.	RBCK1	38	.	NM_031229	exon3	c.G173C	p.W58S	GGCTGTGGGTGAG	.	PASS	Atlas-SNP
NPFFR2	10886	hgsc.bcm.edu	37	4	73012709	73012709	+	Missense_Mutation	SNP	T	T	C	rs61733659	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	42.0	84.0	0.0	0.488372	0	T|0.990;C|0.010	0.010	strong	.	NPFFR2	98	.	NM_004885	exon4	c.T749C	p.V250A	GTGTGGTCTACCC	.	PASS	Atlas-SNP
SOWAHA	134548	hgsc.bcm.edu	37	5	132150804	132150804	+	Silent	SNP	G	G	A	rs7719416	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	50.0	78.0	0.0	0.485437	0	G|0.965;A|0.035	0.035	strong	.	.	.	.	NM_175873	exon1	c.G1491A	p.K497K	CTTGAAGAAGTCG	.	PASS	Atlas-SNP
ZC3HAV1L	92092	hgsc.bcm.edu	37	7	138713674	138713674	+	Silent	SNP	C	C	G	rs7800990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	43.0	93.0	0.0	0.551282	0	C|0.961;G|0.039	0.039	strong	.	ZC3HAV1L	15	.	NM_080660	exon3	c.G534C	p.L178L	GCCATACAGGGCT	.	PASS	Atlas-SNP
GNAI1	2770	hgsc.bcm.edu	37	7	79828573	79828573	+	Silent	SNP	A	A	G	rs6970347	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	40.0	122.0	0.0	0.512821	0	A|0.982;G|0.018	0.018	strong	.	GNAI1	44	.	NM_002069	exon4	c.A336G	p.G112G	AGCTGGAGCTGCT	.	PASS	Atlas-SNP
TLR6	10333	hgsc.bcm.edu	37	4	38829702	38829702	+	Missense_Mutation	SNP	C	C	T	rs5743816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	80.0	207.0	0.0	0.379147	0	C|0.931;T|0.069	0.069	strong	.	TLR6	67	.	NM_006068	exon2	c.G1393A	p.V465I	TAGGAACGCTCTT	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	37	10	116064528	116064528	+	Missense_Mutation	SNP	G	G	A	rs73365341	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	49.0	40.0	0.0	1	0	G|0.884;A|0.116	0.116	strong	.	AFAP1L2	90	.	NM_032550	exon11	c.C1234T	p.L412F	AGTAGAGGTGGTC	.	PASS	Atlas-SNP
GBP5	115362	hgsc.bcm.edu	37	1	89735229	89735229	+	Missense_Mutation	SNP	C	C	G	rs17130763	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	72.0	142.0	0.0	0.525547	0	C|0.976;G|0.024	0.024	strong	.	GBP5	65	.	NM_052942	exon3	c.G10C	p.E4Q	GGATCTCTAAAGC	.	PASS	Atlas-SNP
ABCA1	19	hgsc.bcm.edu	37	9	107547872	107547872	+	Silent	SNP	C	C	T	rs61741359	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	54.0	70.0	0.0	0.760563	0	C|0.985;T|0.015	0.015	strong	.	ABCA1	244	.	NM_005502	exon49	c.G6450A	p.P2150P	CAGGTCCGGGTTG	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47925609	47925609	+	Silent	SNP	G	G	A	rs78480673	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	65.0	115.0	0.0	0.507812	0	G|0.951;A|0.049	0.049	strong	PKD1L1,NS,carcinoma,0,2	PKD1L1	328	2	NM_138295	exon18	c.C2880T	p.L960L	GGCACCGAGTCCC	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18376780	18376780	+	Missense_Mutation	SNP	T	T	C	rs12462974	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	83.0	127.0	0.0	0.542484	0	T|0.861;C|0.139	0.139	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.A1570G	p.T524A	CCACTGTTGGAGA	.	PASS	Atlas-SNP
CRNKL1	51340	hgsc.bcm.edu	37	20	20033194	20033194	+	Silent	SNP	G	G	T	rs145198573	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	37.0	68.0	0.0	0.486842	0	G|0.996;T|0.004	0.004	strong	.	CRNKL1	101	.	NM_016652	exon2	c.C276A	p.R92R	CTCCTTGCGGCAG	.	PASS	Atlas-SNP
ANKRD34B	340120	hgsc.bcm.edu	37	5	79854667	79854667	+	Missense_Mutation	SNP	A	A	G	rs147745221	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	34.0	46.0	0.0	0.596491	0	A|0.999;G|0.001	0.001	strong	.	ANKRD34B	61	.	NM_001004441	exon5	c.T1172C	p.I391T	TTTCCTATAAGTG	.	PASS	Atlas-SNP
XKR3	150165	hgsc.bcm.edu	37	22	17288849	17288849	+	Missense_Mutation	SNP	A	A	G	rs150400922	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	209.0	94.0	185.0	0.0	0.449761	0	A|0.996;G|0.004	0.004	strong	.	XKR3	51	.	NM_175878	exon2	c.T115C	p.F39L	TTGAGAAGATAAT	.	PASS	Atlas-SNP
BRAF	673	hgsc.bcm.edu	37	7	140449150	140449150	+	Silent	SNP	T	T	C	rs9648696	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	148.0	141.0	0.0	1	0	T|0.696;C|0.304	0.304	strong	.	BRAF	36346	.	NM_004333	exon16	c.A1929G	p.G643G	AACAATTCCAAAT	.	PASS	Atlas-SNP
C7orf55-LUC7L2	100996928	hgsc.bcm.edu	37	7	139090515	139090515	+	Silent	SNP	A	A	G	rs74758604	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	62.0	139.0	0.0	0.466165	0	A|0.981;G|0.019	0.019	strong	LUC7L2,NS,carcinoma,+2,1	.	.	1	NM_001244584	exon6	c.A690G	p.A230A	ACGGGCAAAGAAA	.	PASS	Atlas-SNP
C1orf127	148345	hgsc.bcm.edu	37	1	11008102	11008102	+	Missense_Mutation	SNP	G	G	A	rs1281018	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	52.0	93.0	0.0	0.45614	0	G|0.914;A|0.086	0.086	strong	.	C1orf127	134	.	NM_001170754	exon12	c.C2090T	p.A697V	AGGGGCGCTGCCA	.	PASS	Atlas-SNP
MKRN1	23608	hgsc.bcm.edu	37	7	140158960	140158960	+	Silent	SNP	G	G	A	rs61736379	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	260.0	125.0	198.0	0.0	0.480769	0	G|0.993;A|0.007	0.007	strong	.	MKRN1	35	.	NM_013446	exon4	c.C618T	p.A206A	CTCCACGGCGGTT	.	PASS	Atlas-SNP
SPAG7	9552	hgsc.bcm.edu	37	17	4863574	4863574	+	Silent	SNP	G	G	A	rs73343383	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	67.0	163.0	0.0	0.527559	0	G|0.978;A|0.022	0.022	strong	.	SPAG7	22	.	NM_004890	exon4	c.C282T	p.S94S	CCCAAAGGAGAAG	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96508566	96508566	+	Missense_Mutation	SNP	T	T	A	rs35123499	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	177.0	88.0	133.0	0.0	0.497175	0	T|0.980;A|0.020	0.020	strong	.	UGGT2	127	.	NM_020121	exon34	c.A3854T	p.Y1285F	AATCCATACTCTT	.	PASS	Atlas-SNP
KNTC1	9735	hgsc.bcm.edu	37	12	123089955	123089955	+	Missense_Mutation	SNP	C	C	T	rs7310898	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	71.0	172.0	0.0	0.412791	0	C|0.962;T|0.038	0.038	strong	KNTC1,caecum,carcinoma,0,1	KNTC1	182	1	NM_014708	exon51	c.C5489T	p.P1830L	CAAAACCTGGTGA	.	PASS	Atlas-SNP
LIPN	643418	hgsc.bcm.edu	37	10	90530683	90530683	+	Missense_Mutation	SNP	C	C	T	rs114737713	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	76.0	136.0	0.0	0.506667	0	C|0.983;T|0.017	0.017	strong	.	LIPN	28	.	NM_001102469	exon6	c.C754T	p.L252F	AAGATACTCTGGT	.	PASS	Atlas-SNP
TBXAS1	6916	hgsc.bcm.edu	37	7	139661964	139661964	+	Missense_Mutation	SNP	C	C	G	rs4529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	55.0	136.0	0.0	0.482456	0	C|0.953;G|0.047	0.047	strong	.	TBXAS1	121	.	NM_001166253	exon10	c.C1207G	p.L403V	ACCTACCTACTGG	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46900670	46900670	+	Silent	SNP	C	C	T	rs112723616	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	36.0	31.0	0.0	0.631579	0	C|0.990;T|0.010	0.010	strong	.	COL18A1	129	.	NM_030582	exon12	c.C2049T	p.G683G	GCCCGGCGAGCCA	.	PASS	Atlas-SNP
C1orf109	54955	hgsc.bcm.edu	37	1	38155319	38155319	+	Silent	SNP	C	C	T	rs61731880	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	103.0	187.0	0.0	0.481308	0	C|0.966;T|0.034	0.034	strong	.	C1orf109	13	.	NM_017850	exon2	c.G234A	p.L78L	AGCCACCAGCTGC	.	PASS	Atlas-SNP
DPY19L3	147991	hgsc.bcm.edu	37	19	32930808	32930808	+	Missense_Mutation	SNP	G	G	A	rs139732410	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	51.0	100.0	0.0	0.463636	0	G|0.998;A|0.002	0.002	strong	.	DPY19L3	70	.	NM_001172774	exon8	c.G847A	p.A283T	CTGCCAGCAGTGA	.	PASS	Atlas-SNP
TNFRSF11A	8792	hgsc.bcm.edu	37	18	60036547	60036547	+	Missense_Mutation	SNP	G	G	A	rs35993683	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	27.0	12.0	27.0	0.0	0.444444	0	G|0.989;A|0.011	0.011	strong	.	TNFRSF11A	51	.	NM_003839	exon9	c.G1397A	p.R466H	CAAAACGTGGACC	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164750325	164750325	+	Silent	SNP	A	A	G	rs140829463	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	24.0	65.0	0.0	0.421053	0	A|0.999;G|0.001	0.001	strong	.	SI	500	.	NM_001041	exon24	c.T2721C	p.Y907Y	AGCATCATAAGTG	.	PASS	Atlas-SNP
PLA2G4F	255189	hgsc.bcm.edu	37	15	42434905	42434905	+	Missense_Mutation	SNP	T	T	C	rs144100358	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	67.0	97.0	0.0	0.587719	0	T|0.992;C|0.008	0.008	strong	.	PLA2G4F	75	.	NM_213600	exon19	c.A2150G	p.K717R	GTCATCTTCAAGA	.	PASS	Atlas-SNP
FBXW12	285231	hgsc.bcm.edu	37	3	48420987	48420987	+	Missense_Mutation	SNP	A	A	G	rs77256337	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	119.0	214.0	1.0	0.540909	0.0046729	A|0.994;G|0.006	0.006	strong	.	FBXW12	44	.	NM_207102	exon7	c.A713G	p.H238R	TTCTACACTGCTC	.	PASS	Atlas-SNP
CRTAC1	55118	hgsc.bcm.edu	37	10	99667840	99667840	+	Silent	SNP	A	A	G	rs35333633	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	75.0	115.0	0.0	0.490196	0	A|0.946;G|0.054	0.054	strong	.	CRTAC1	86	.	NM_001206528	exon6	c.T780C	p.N260N	ATTCTCATTGTCG	.	PASS	Atlas-SNP
TTF2	8458	hgsc.bcm.edu	37	1	117637966	117637966	+	Silent	SNP	A	A	G	rs34079217	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	43.0	96.0	0.0	0.401869	0	A|0.964;G|0.036	0.036	strong	.	TTF2	92	.	NM_003594	exon19	c.A3012G	p.Q1004Q	AATTCAAAGAAAT	.	PASS	Atlas-SNP
MSL1	339287	hgsc.bcm.edu	37	17	38285681	38285681	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	5.0	80.0	0.0	0.0526316	0	.	.	none	.	MSL1	21	.	NM_001012241	exon4	c.T387C	p.S129S	CCGGTCTTCAGTG	.	PASS	Atlas-SNP
NF1	4763	hgsc.bcm.edu	37	17	29652884	29652884	+	Silent	SNP	T	T	C	rs10512435	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	42.0	93.0	0.0	0.552632	0	T|0.979;C|0.021	0.021	strong	.	NF1	1586	.	NM_001042492	exon37	c.T4882C	p.L1628L	CATGTCTTACTGA	.	PASS	Atlas-SNP
TRIO	7204	hgsc.bcm.edu	37	5	14291259	14291259	+	Silent	SNP	G	G	A	rs61737132	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	63.0	142.0	0.0	0.440559	0	G|0.963;A|0.037	0.037	strong	.	TRIO	305	.	NM_007118	exon5	c.G975A	p.L325L	GCATCTGCACCAG	.	PASS	Atlas-SNP
WDR53	348793	hgsc.bcm.edu	37	3	196281263	196281263	+	Missense_Mutation	SNP	C	C	T	rs61730533	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	549.0	259.0	523.0	1.0	0.471767	0.00191205	C|0.942;T|0.058	0.058	strong	.	WDR53	26	.	NM_182627	exon4	c.G896A	p.G299D	TTTCCACCCTGCT	.	PASS	Atlas-SNP
STOX1	219736	hgsc.bcm.edu	37	10	70646139	70646139	+	Missense_Mutation	SNP	G	G	A	rs7904300	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	42.0	88.0	0.0	0.4	0	G|0.968;A|0.032	0.032	strong	.	STOX1	75	.	NM_152709	exon3	c.G2587A	p.A863T	AGAAAAGCCAGTT	.	PASS	Atlas-SNP
SENP7	57337	hgsc.bcm.edu	37	3	101090925	101090925	+	Missense_Mutation	SNP	C	C	A	rs115061809	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	72.0	145.0	0.0	0.461538	0	C|0.988;A|0.012	0.012	strong	.	SENP7	170	.	NM_020654	exon7	c.G723T	p.Q241H	CGCAGTCTGCTTT	.	PASS	Atlas-SNP
CATSPERG	57828	hgsc.bcm.edu	37	19	38834974	38834974	+	Missense_Mutation	SNP	G	G	A	rs61732182	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	69.0	117.0	0.0	0.543307	0	G|0.997;A|0.003	0.003	strong	.	CATSPERG	121	.	NM_021185	exon6	c.G635A	p.R212Q	GAGACCGGGACAA	.	PASS	Atlas-SNP
CYP1A2	1544	hgsc.bcm.edu	37	15	75043592	75043592	+	Missense_Mutation	SNP	C	C	A	rs17861157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	119.0	111.0	1.0	1	0.00900901	C|0.973;A|0.027	0.027	strong	.	CYP1A2	70	.	NM_000761	exon3	c.C894A	p.S298R	AGCCAGCGGCAAC	.	PASS	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39254074	39254074	+	Missense_Mutation	SNP	G	G	T	rs78662167		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	19.0	139.0	0.0	0.142857	0	G|0.500;T|0.500	0.500	weak	.	KRTAP4-8	57	.	NM_031960	exon1	c.C263A	p.T88N	CAGCAGGTGGGCT	.	PASS	Atlas-SNP
C9orf173	441476	hgsc.bcm.edu	37	9	140146526	140146526	+	Silent	SNP	G	G	A	rs74822962	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	52.0	58.0	0.0	0.732394	0	G|0.991;A|0.009	0.009	strong	C9orf173,colon,carcinoma,0,1	C9orf173	19	1	NM_001256701	exon3	c.G342A	p.P114P	GAGCCCGTCCGTA	.	PASS	Atlas-SNP
ZFC3H1	196441	hgsc.bcm.edu	37	12	72020103	72020103	+	Silent	SNP	G	G	A	rs56384440	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	70.0	173.0	0.0	0.47619	0	A|0.013;G|0.987	0.013	strong	.	ZFC3H1	172	.	NM_144982	exon22	c.C4254T	p.D1418D	CACCTCGTCCTTG	.	PASS	Atlas-SNP
NUDT9	53343	hgsc.bcm.edu	37	4	88344063	88344063	+	Silent	SNP	G	G	C	rs11937770	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	20.0	37.0	0.0	0.952381	0	G|0.895;C|0.105	0.105	strong	.	NUDT9	21	.	NM_001248011	exon1	c.G6C	p.A2A	CATGGCGGGACGC	.	PASS	Atlas-SNP
GJB4	127534	hgsc.bcm.edu	37	1	35227041	35227041	+	Silent	SNP	C	C	T	rs76188300	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	77.0	148.0	0.0	0.463855	0	C|0.964;T|0.036	0.036	strong	.	GJB4	51	.	NM_153212	exon2	c.C186T	p.N62N	CCCCAACGTCTGC	.	PASS	Atlas-SNP
ABCB11	8647	hgsc.bcm.edu	37	2	169853220	169853220	+	Silent	SNP	G	G	A	rs11568377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	59.0	84.0	0.0	1	0	G|0.935;A|0.065	0.065	strong	.	ABCB11	136	.	NM_003742	exon6	c.C402T	p.I134I	GCTCTCGATGTTC	.	PASS	Atlas-SNP
SPATA5L1	79029	hgsc.bcm.edu	37	15	45695612	45695612	+	Silent	SNP	C	C	T	rs1346265	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	35.0	62.0	0.0	0.443038	0	C|0.860;T|0.140	0.140	strong	.	SPATA5L1	40	.	NM_024063	exon1	c.C985T	p.L329L	ACGCTGCTGGACG	.	PASS	Atlas-SNP
PVRL2	5819	hgsc.bcm.edu	37	19	45368805	45368805	+	Silent	SNP	C	C	T	rs34929997	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	11.0	47.0	0.0	0.333333	0	C|0.980;T|0.020	0.020	strong	.	PVRL2	58	.	NM_002856	exon2	c.C366T	p.D122D	CCAGGACGCCACG	.	PASS	Atlas-SNP
TTYH2	94015	hgsc.bcm.edu	37	17	72227040	72227040	+	Missense_Mutation	SNP	G	G	A	rs150215307	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	59.0	183.0	0.0	0.364198	0	G|0.995;A|0.005	0.005	strong	.	TTYH2	63	.	NM_032646	exon3	c.G316A	p.V106I	GTGGGCGTTGGTT	.	PASS	Atlas-SNP
KDM3A	55818	hgsc.bcm.edu	37	2	86709704	86709704	+	Silent	SNP	C	C	T	rs34673273	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	96.0	144.0	0.0	0.518919	0	C|0.969;T|0.031	0.031	strong	.	KDM3A	179	.	NM_001146688	exon18	c.C2809T	p.L937L	AGCATTCTGGGCT	.	PASS	Atlas-SNP
MAGED2	10916	hgsc.bcm.edu	37	X	54837277	54837277	+	Missense_Mutation	SNP	G	G	C	rs12014977	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	105.0	150.0	0.0	0.535714	0	G|0.973;C|0.027	0.027	strong	.	MAGED2	74	.	NM_201222	exon4	c.G561C	p.E187D	GGAAGAGGATGGC	.	PASS	Atlas-SNP
GPR110	266977	hgsc.bcm.edu	37	6	46977783	46977783	+	Missense_Mutation	SNP	C	C	T	rs45598235	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	85.0	134.0	0.0	0.482955	0	C|0.952;T|0.048	0.048	strong	GPR110,NS,carcinoma,0,1	GPR110	102	1	NM_153840	exon11	c.G1388A	p.R463H	AACACACGGCCTC	.	PASS	Atlas-SNP
CHI3L1	1116	hgsc.bcm.edu	37	1	203152851	203152851	+	Missense_Mutation	SNP	C	C	T	rs147131854	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	50.0	101.0	0.0	0.485437	0	C|0.999;T|0.001	0.001	strong	CHI3L1,colon,carcinoma,0,1	CHI3L1	51	1	NM_001276	exon5	c.G383A	p.R128H	TGGGTGCGCAGAA	.	PASS	Atlas-SNP
COX1	5742	hgsc.bcm.edu	37	MT	6150	6150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	9.0	8.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361624	exon1	c.G247A	p.V83I	TGACTAGTTCCCC	.	PASS	Atlas-SNP
ZNF43	7594	hgsc.bcm.edu	37	19	21991663	21991663	+	Silent	SNP	A	A	G	rs61733114	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	28.0	52.0	0.0	0.571429	0	A|0.968;G|0.032	0.032	strong	.	ZNF43	152	.	NM_001256653	exon4	c.T1203C	p.H401H	TTCAGTATGAATT	.	PASS	Atlas-SNP
FAM166A	401565	hgsc.bcm.edu	37	9	140140188	140140188	+	Silent	SNP	G	G	A	rs112239130	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	76.0	135.0	0.0	0.655172	0	G|0.992;A|0.008	0.008	strong	.	FAM166A	44	.	NM_001001710	exon2	c.C174T	p.P58P	GGACATGGGGGAC	.	PASS	Atlas-SNP
WDR31	114987	hgsc.bcm.edu	37	9	116085148	116085148	+	Silent	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	68.0	176.0	0.0	0.348718	0	.	.	none	.	WDR31	23	.	NM_001012361	exon7	c.T513G	p.L171L	CCACAGAAGCAGG	.	PASS	Atlas-SNP
KLF16	83855	hgsc.bcm.edu	37	19	1854701	1854701	+	Silent	SNP	G	G	A	rs76157530	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	25.0	30.0	0.0	0.581395	0	G|0.989;A|0.011	0.011	strong	.	KLF16	9	.	NM_031918	exon2	c.C516T	p.D172D	CAGCTCGTCGGAG	.	PASS	Atlas-SNP
ABCC11	85320	hgsc.bcm.edu	37	16	48234214	48234214	+	Silent	SNP	C	C	T	rs61745566	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	27.0	62.0	0.0	0.442623	0	C|0.980;T|0.020	0.020	strong	.	ABCC11	177	.	NM_033151	exon14	c.G2055A	p.T685T	GACGACCGTCTTC	.	PASS	Atlas-SNP
WDR19	57728	hgsc.bcm.edu	37	4	39267749	39267749	+	Missense_Mutation	SNP	G	G	A	rs16995209	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	66.0	141.0	0.0	0.409938	0	G|0.962;A|0.038	0.038	strong	.	WDR19	96	.	NM_025132	exon29	c.G3250A	p.G1084S	AACGATGGCATGC	.	PASS	Atlas-SNP
PTPN1	5770	hgsc.bcm.edu	37	20	49197955	49197955	+	Silent	SNP	C	C	T	rs74607837	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	81.0	138.0	0.0	0.5	0	C|0.980;T|0.020	0.020	strong	.	PTPN1	36	.	NM_002827	exon9	c.C1242T	p.C414C	CATGTGCGTGGCT	.	PASS	Atlas-SNP
KRTAP3-2	83897	hgsc.bcm.edu	37	17	39156085	39156085	+	Silent	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	58.0	172.0	0.0	0.333333	0	.	.	none	KRTAP3-2,rectum,carcinoma,0,1	KRTAP3-2	11	1	NM_031959	exon1	c.C21A	p.R7R	GCAGCTGCGAGAG	.	PASS	Atlas-SNP
TAGLN	6876	hgsc.bcm.edu	37	11	117075014	117075014	+	Missense_Mutation	SNP	A	A	G	rs12284316	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	255.0	146.0	312.0	1.0	0.572549	0.00320513	A|0.996;G|0.004	0.004	strong	.	TAGLN	17	.	NM_001001522	exon5	c.A545G	p.N182S	GCAGCAACAGAGG	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117110112	117110112	+	Missense_Mutation	SNP	T	T	C	rs1265891	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	101.0	138.0	1.0	1	0.00724638	T|0.754;C|0.246	0.246	strong	.	AKNA	119	.	NM_030767	exon16	c.A3290G	p.Q1097R	AGTGGCTGGTGCA	.	PASS	Atlas-SNP
TEKT3	64518	hgsc.bcm.edu	37	17	15217535	15217535	+	Silent	SNP	C	C	T	rs144456077	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	312.0	159.0	286.0	0.0	0.509615	0	C|0.996;T|0.004	0.004	strong	TEKT3,NS,adenocarcinoma,0,1	TEKT3	64	1	NM_031898	exon6	c.G747A	p.A249A	CTGGGACGCTCTG	.	PASS	Atlas-SNP
GPR107	57720	hgsc.bcm.edu	37	9	132854643	132854643	+	Silent	SNP	T	T	C	rs34227818	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	126.0	163.0	0.0	0.62069	0	T|0.980;C|0.020	0.020	strong	.	GPR107	30	.	NM_001136557	exon9	c.T846C	p.H282H	GATTCATATCCTT	.	PASS	Atlas-SNP
TICRR	90381	hgsc.bcm.edu	37	15	90164769	90164769	+	Silent	SNP	T	T	C	rs75934760	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	26.0	70.0	0.0	0.472727	0	T|0.973;C|0.027	0.027	strong	.	.	.	.	NM_152259	exon19	c.T3300C	p.P1100P	GGTACCTGCAGCT	.	PASS	Atlas-SNP
MOGS	7841	hgsc.bcm.edu	37	2	74688884	74688884	+	Missense_Mutation	SNP	G	G	A	rs13405869	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	47.0	126.0	0.0	0.398305	0	G|0.980;A|0.020	0.020	strong	.	MOGS	58	.	NM_006302	exon4	c.C2032T	p.R678W	GGGGCCGACCCAC	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82764924	82764924	+	Missense_Mutation	SNP	C	C	T	rs138200846	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	83.0	159.0	0.0	0.535484	0	C|0.995;T|0.005	0.005	strong	.	PCLO	1506	.	NM_014510	exon3	c.G1942A	p.G648R	GATCCCCGCCTAG	.	PASS	Atlas-SNP
UCK1	83549	hgsc.bcm.edu	37	9	134404337	134404337	+	Silent	SNP	G	G	A	rs11557925	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	20.0	34.0	0.0	0.571429	0	G|0.976;A|0.024	0.024	strong	.	UCK1	29	.	NM_001261451	exon5	c.C612T	p.C204C	CGGCAGGCAGAAC	.	PASS	Atlas-SNP
CCDC138	165055	hgsc.bcm.edu	37	2	109429277	109429277	+	Missense_Mutation	SNP	G	G	C	rs58170568	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	76.0	165.0	0.0	0.466258	0	G|0.993;C|0.007	0.007	strong	.	CCDC138	49	.	NM_144978	exon9	c.G935C	p.R312T	TGCAGAGGAAGTA	.	PASS	Atlas-SNP
CXorf57	55086	hgsc.bcm.edu	37	X	105883826	105883826	+	Missense_Mutation	SNP	T	T	G	rs5962707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	419.0	145.0	406.0	0.0	0.346062	0	0|0.014;G|0.148	0.148	strong	.	CXorf57	107	.	NM_018015	exon10	c.T1779G	p.I593M	AGAAATTCAAGAA	.	PASS	Atlas-SNP
NPSR1	387129	hgsc.bcm.edu	37	7	34917759	34917759	+	Missense_Mutation	SNP	C	C	T	rs13230135	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	288.0	146.0	224.0	0.0	0.506944	0	C|0.987;T|0.013	0.013	strong	.	NPSR1	134	.	NM_207173	exon9	c.C1097T	p.T366I	AGGGTACTTGGCC	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28617413	28617413	+	Missense_Mutation	SNP	A	A	G	rs28374453	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	271.0	83.0	516.0	0.0	0.306273	0	A|0.974;G|0.026	0.026	strong	SULT1A1_ENST00000350842,NS,carcinoma,0,10	SULT1A1	53	10	NM_177534	exon6	c.T739C	p.F247L	CCATGAACTCCTG	.	scavenged	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	37	9	136535746	136535746	+	Missense_Mutation	SNP	C	C	T	rs61685718	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	41.0	107.0	0.0	0.344538	0	C|0.987;T|0.013	0.013	strong	SARDH,colon,carcinoma,0,1	SARDH	112	1	NM_007101	exon19	c.G2455A	p.A819T	GGCCTGCGGCCCG	.	PASS	Atlas-SNP
SMURF2	64750	hgsc.bcm.edu	37	17	62567987	62567987	+	Silent	SNP	G	G	A	rs34788315	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	92.0	205.0	0.0	0.505495	0	G|0.964;A|0.036	0.036	strong	.	SMURF2	63	.	NM_022739	exon10	c.C945T	p.F315F	GTCAACGAAATAA	.	PASS	Atlas-SNP
OAF	220323	hgsc.bcm.edu	37	11	120097551	120097551	+	Silent	SNP	G	G	A	rs873058	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	45.0	85.0	0.0	0.642857	0	G|0.982;A|0.018	0.018	strong	.	OAF	12	.	NM_178507	exon3	c.G393A	p.A131A	GCAGGCGGAGGAG	.	PASS	Atlas-SNP
SOWAHA	134548	hgsc.bcm.edu	37	5	132149593	132149593	+	Missense_Mutation	SNP	G	G	A	rs114865630	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	16.0	12.0	4.0	0.0	0.75	0	G|0.964;A|0.036	0.036	strong	.	.	.	.	NM_175873	exon1	c.G280A	p.G94S	CCCTTCGGCCCCC	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	648916	648916	+	Silent	SNP	T	T	C	rs12942598	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	38.0	80.0	0.0	0.387755	0	T|0.974;C|0.026	0.026	strong	.	GEMIN4	116	.	NM_015721	exon2	c.A2367G	p.T789T	AAAAAGTGTGGCT	.	PASS	Atlas-SNP
MBOAT1	154141	hgsc.bcm.edu	37	6	20109842	20109842	+	Missense_Mutation	SNP	T	T	C	rs2065649	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	47.0	113.0	0.0	0.460784	0	T|0.949;C|0.051	0.051	strong	.	MBOAT1	48	.	NM_001080480	exon12	c.A1348G	p.I450V	AGCTGATGGTCGG	.	PASS	Atlas-SNP
FAAH	2166	hgsc.bcm.edu	37	1	46876488	46876488	+	Silent	SNP	G	G	C	rs74783386	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	80.0	168.0	0.0	0.454545	0	G|0.998;C|0.002	0.002	strong	.	FAAH	36	.	NM_001441	exon11	c.G1278C	p.L426L	GCAGCTGCCAAGG	.	PASS	Atlas-SNP
CEACAM8	1088	hgsc.bcm.edu	37	19	43098931	43098931	+	Missense_Mutation	SNP	C	C	A	rs28367882	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	33.0	85.0	0.0	0.515625	0	C|0.939;A|0.061	0.061	strong	.	CEACAM8	44	.	NM_001816	exon1	c.G50T	p.G17V	AGGAGCCCCTGCC	.	PASS	Atlas-SNP
MED22	6837	hgsc.bcm.edu	37	9	136208405	136208405	+	Missense_Mutation	SNP	C	C	T	rs145653063	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	39.0	106.0	0.0	0.33913	0	C|0.989;T|0.011	0.011	strong	.	MED22	13	.	NM_133640	exon5	c.G553A	p.A185T	CAGGGGCTGCCAC	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73566094	73566094	+	Missense_Mutation	SNP	G	G	C	rs115026154	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	62.0	87.0	0.0	0.62	0	G|0.977;C|0.023	0.023	strong	.	LLGL2	155	.	NM_004524	exon15	c.G1632C	p.Q544H	GGAGCAGGTGGAG	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15794423	15794423	+	Silent	SNP	C	C	T	rs114945576	byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	52.0	124.0	0.0	0.275132	0	C|0.990;T|0.010	0.010	strong	.	CYP4F12	89	.	NM_023944	exon7	c.C768T	p.F256F	GCGCTTCCACAGG	.	PASS	Atlas-SNP
GGT7	2686	hgsc.bcm.edu	37	20	33447314	33447314	+	Missense_Mutation	SNP	C	C	T	rs61319953	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	34.0	76.0	0.0	0.485714	0	C|0.971;T|0.029	0.029	strong	.	GGT7	41	.	NM_178026	exon7	c.G946A	p.V316I	CAAGTACATCCAG	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	169993977	169993977	+	Silent	SNP	C	C	T	rs34029982	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	46.0	113.0	0.0	0.479167	0	C|0.992;T|0.008	0.008	strong	.	LRP2	751	.	NM_004525	exon76	c.G13545A	p.G4515G	CTGCTTCCCCATT	.	PASS	Atlas-SNP
ZNF467	168544	hgsc.bcm.edu	37	7	149462055	149462055	+	Silent	SNP	G	G	A	rs863021	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	17.0	8.0	4.0	0.0	0.470588	0	G|0.947;A|0.053	0.053	strong	.	ZNF467	50	.	NM_207336	exon5	c.C1536T	p.S512S	GGGGCGGCTGCCA	.	PASS	Atlas-SNP
NUFIP2	57532	hgsc.bcm.edu	37	17	27620934	27620934	+	Silent	SNP	G	G	A	rs1054145	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	525.0	275.0	476.0	0.0	0.52381	0	G|0.981;A|0.019	0.019	strong	NUFIP2,NS,carcinoma,-2,1	NUFIP2	60	1	NM_020772	exon1	c.C144T	p.H48H	ATGATGGTGGTGG	.	PASS	Atlas-SNP
MTTP	4547	hgsc.bcm.edu	37	4	100512919	100512919	+	Missense_Mutation	SNP	C	C	G	rs17599091	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	60.0	117.0	0.0	0.4	0	C|0.964;G|0.036	0.036	strong	.	MTTP	127	.	NM_000253	exon7	c.C730G	p.Q244E	TTCCTACAAACCA	.	PASS	Atlas-SNP
DDX51	317781	hgsc.bcm.edu	37	12	132628281	132628281	+	Missense_Mutation	SNP	C	C	T	rs78871841	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	16.0	6.0	8.0	0.0	0.375	0	C|0.962;T|0.038	0.038	strong	.	DDX51	33	.	NM_175066	exon2	c.G478A	p.G160S	CCAGGCCGGGGAC	.	PASS	Atlas-SNP
CD36	948	hgsc.bcm.edu	37	7	80300449	80300449	+	Nonsense_Mutation	SNP	T	T	G	rs3211938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	47.0	49.0	0.0	1	0	T|0.967;G|0.033	0.033	strong	.	CD36	185	.	NM_001127444	exon8	c.T975G	p.Y325X	ATCATATGGTGTG	.	PASS	Atlas-SNP
LRRC8B	23507	hgsc.bcm.edu	37	1	90049088	90049088	+	Silent	SNP	G	G	A	rs35903285	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	43.0	67.0	0.0	0.457447	0	G|0.976;A|0.024	0.024	strong	.	LRRC8B	49	.	NM_015350	exon5	c.G879A	p.V293V	TGATGTGCAGGCT	.	PASS	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23745723	23745723	+	Silent	SNP	G	G	A	rs11844797	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	67.0	155.0	0.0	0.5	0	G|0.948;A|0.052	0.052	strong	.	HOMEZ	80	.	NM_020834	exon2	c.C714T	p.N238N	TGACTGGTTGGGA	.	PASS	Atlas-SNP
COL20A1	57642	hgsc.bcm.edu	37	20	61960961	61960961	+	Missense_Mutation	SNP	T	T	C	rs6011740	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	31.0	14.0	39.0	0.0	0.451613	0	T|0.949;C|0.051	0.051	strong	.	COL20A1	137	.	NM_020882	exon35	c.T3806C	p.M1269T	GTCAGATGGGCAG	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011571	46011571	+	Silent	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	341.0	21.0	280.0	0.0	0.0615836	0	.	.	none	.	KRTAP10-6	57	.	NM_198688	exon1	c.C795A	p.P265P	CTGGCAGGGGGAG	.	PASS	Atlas-SNP
MYH8	4626	hgsc.bcm.edu	37	17	10312792	10312792	+	Silent	SNP	C	C	T	rs73275411	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	251.0	134.0	316.0	0.0	0.533865	0	C|0.976;T|0.024	0.024	strong	.	MYH8	346	.	NM_002472	exon16	c.G1701A	p.Q567Q	GGGCTTCTGGAAG	.	PASS	Atlas-SNP
KRTAP26-1	388818	hgsc.bcm.edu	37	21	31692173	31692173	+	Missense_Mutation	SNP	C	C	T	rs78165499	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	114.0	231.0	0.0	0.581633	0	C|0.988;T|0.012	0.012	strong	.	KRTAP26-1	58	.	NM_203405	exon1	c.G181A	p.G61S	GTTCACCGCAGGT	.	PASS	Atlas-SNP
E2F4	1874	hgsc.bcm.edu	37	16	67229827	67229827	+	Silent	SNP	C	C	T	rs3730404	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	63.0	118.0	0.0	0.547826	0	C|0.949;T|0.051	0.051	strong	.	E2F4	25	.	NM_001950	exon7	c.C951T	p.S317S	CAGCAGCAGCAGC	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140604694	140604694	+	Silent	SNP	G	G	A	rs76971158	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	119.0	194.0	0.0	0.481781	0	G|0.978;A|0.022	0.022	strong	PCDHB14,caecum,carcinoma,0,1	PCDHB14	132	1	NM_018934	exon1	c.G1617A	p.P539P	GTCCCCGGCGTTG	.	PASS	Atlas-SNP
TTF2	8458	hgsc.bcm.edu	37	1	117618024	117618024	+	Missense_Mutation	SNP	G	G	C	rs17036832	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	58.0	120.0	0.0	0.491525	0	A|0.000;C|0.019;G|0.980	0.019	strong	.	TTF2	92	.	NM_003594	exon5	c.G818C	p.S273T	CAATAAGCAAGCC	.	PASS	Atlas-SNP
ADAMTS8	11095	hgsc.bcm.edu	37	11	130284495	130284495	+	Silent	SNP	C	C	T	rs142963990	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	271.0	127.0	258.0	1.0	0.468635	0.00387597	C|0.996;T|0.004	0.004	strong	.	ADAMTS8	172	.	NM_007037	exon5	c.G1497A	p.T499T	GCACGGCGTGCCG	.	PASS	Atlas-SNP
TF	7018	hgsc.bcm.edu	37	3	133486988	133486988	+	Silent	SNP	C	C	T	rs7845	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	36.0	78.0	0.0	0.444444	0	C|0.985;G|0.000;T|0.015	0.015	strong	.	TF	116	.	NM_001063	exon13	c.C1602T	p.Y534Y	ATACTACGGCTAC	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15795939	15795939	+	Silent	SNP	A	A	G	rs61729075	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	258.0	71.0	157.0	0.0	0.275194	0	A|0.981;G|0.019	0.019	strong	.	CYP4F12	89	.	NM_023944	exon9	c.A1047G	p.E349E	CCCAGAATACCAG	.	PASS	Atlas-SNP
ZDHHC1	29800	hgsc.bcm.edu	37	16	67440289	67440289	+	Silent	SNP	C	C	T	rs8058306	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	71.0	138.0	0.0	0.440994	0	C|0.924;T|0.076	0.076	strong	.	ZDHHC1	28	.	NM_013304	exon3	c.G66A	p.T22T	CGGTGCCGTCCAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515030	195515030	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	436.0	23.0	143.0	0.0	0.0527523	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G3421T	p.D1141Y	AAGTGTCGGTGAC	.	scavenged	Atlas-SNP
CFC1B	653275	hgsc.bcm.edu	37	2	131356322	131356322	+	Missense_Mutation	SNP	C	C	T	rs201431919	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	797.0	540.0	1076.0	0.0	0.677541	0	C|0.969;T|0.031	0.031	strong	CFC1,fourth_ventricle,glioma,0,1	.	.	1	NM_001079530	exon3	c.G140A	p.R47Q	GACTGTCGGTGCT	.	PASS	Atlas-SNP
MSLN	10232	hgsc.bcm.edu	37	16	815593	815593	+	Missense_Mutation	SNP	G	G	C	rs115279916	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	65.0	60.0	0.0	0.555556	0	G|0.985;C|0.015	0.015	strong	.	MSLN	109	.	NM_005823	exon10	c.G771C	p.Q257H	GGGCCAGCCCATC	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100678693	100678693	+	Silent	SNP	T	T	C	rs78176991	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	16.0	148.0	0.0	0.111111	0	T|0.994;C|0.006	0.006	strong	.	MUC17	804	.	NM_001040105	exon3	c.T3996C	p.Y1332Y	AACTTATAGTGAA	.	PASS	Atlas-SNP
KIAA1967	57805	hgsc.bcm.edu	37	8	22473646	22473646	+	Missense_Mutation	SNP	A	A	C	rs143150726	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	44.0	113.0	0.0	0.37931	0	A|0.998;C|0.002	0.002	strong	.	KIAA1967	72	.	NM_021174	exon14	c.A1730C	p.E577A	AGGAGGAGGCGGC	.	PASS	Atlas-SNP
GBE1	2632	hgsc.bcm.edu	37	3	81586149	81586149	+	Silent	SNP	G	G	A	rs2229520	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	49.0	107.0	0.0	0.385827	0	G|0.987;A|0.013	0.013	strong	.	GBE1	111	.	NM_000158	exon13	c.C1716T	p.D572D	AAGGTCGTCGTCA	.	PASS	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1634225	1634225	+	Missense_Mutation	SNP	G	G	A	rs8060532	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	24.0	41.0	0.0	0.55814	0	G|0.969;A|0.031	0.031	strong	.	IFT140	128	.	NM_014714	exon11	c.C1352T	p.A451V	TTGGTGGCAAACA	.	PASS	Atlas-SNP
PRPH2	5961	hgsc.bcm.edu	37	6	42689940	42689940	+	Missense_Mutation	SNP	G	G	A	rs61755770	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	68.0	94.0	0.0	0.561983	0	G|0.994;A|0.006	0.006	strong	.	PRPH2	47	.	NM_000322	exon1	c.C133T	p.L45F	TTCGGAGTTCAAT	.	PASS	Atlas-SNP
DCTN1	1639	hgsc.bcm.edu	37	2	74597937	74597937	+	Missense_Mutation	SNP	G	G	T	rs13420401	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	73.0	113.0	0.0	0.528986	0	G|0.954;T|0.046	0.046	strong	.	DCTN1	110	.	NM_004082	exon10	c.C859A	p.L287M	CCTCCAGCGCCTC	.	PASS	Atlas-SNP
PPP1R26	9858	hgsc.bcm.edu	37	9	138378308	138378308	+	Missense_Mutation	SNP	G	G	A	rs35142799	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	107.0	120.0	0.0	0.727891	0	G|0.994;A|0.006	0.006	strong	.	.	.	.	NM_014811	exon4	c.G1952A	p.G651D	GGGAGGGCACCGC	.	PASS	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	37	3	132218075	132218075	+	Missense_Mutation	SNP	C	C	T	rs61748102	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	66.0	142.0	0.0	0.445946	0	C|0.981;T|0.019	0.019	strong	.	DNAJC13	253	.	NM_015268	exon37	c.C4262T	p.A1421V	TGCCTGCGGCTAC	.	PASS	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	37	6	79700648	79700648	+	Silent	SNP	C	C	T	rs149171291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	101.0	243.0	1.0	0.459091	0.00411523	C|0.997;T|0.003	0.003	strong	.	PHIP	177	.	NM_017934	exon20	c.G2256A	p.R752R	TTCTGACCTGTAA	.	PASS	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	37	16	3613239	3613239	+	Missense_Mutation	SNP	C	C	T	rs8057436	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	32.0	20.0	24.0	0.0	0.625	0	C|0.969;T|0.031	0.031	strong	.	NLRC3	103	.	NM_178844	exon5	c.G1699A	p.V567M	GCAACACGTTGAT	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81232426	81232426	+	Missense_Mutation	SNP	A	A	C	rs9934856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	111.0	245.0	0.0	0.546798	0	A|0.984;C|0.016;G|0.000	0.016	strong	.	PKD1L2	361	.	NM_001076780	exon7	c.T1384G	p.L462V	GCTCCAAATGGTC	.	PASS	Atlas-SNP
OR1F1	4992	hgsc.bcm.edu	37	16	3254622	3254622	+	Missense_Mutation	SNP	G	G	A	rs8045183	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	250.0	126.0	243.0	1.0	0.504	0.00411523	G|0.966;A|0.034	0.034	strong	.	OR1F1	36	.	NM_012360	exon1	c.G376A	p.V126M	GTCGCCGTGTGCC	.	PASS	Atlas-SNP
GAB4	128954	hgsc.bcm.edu	37	22	17447237	17447237	+	Silent	SNP	C	C	G	rs115898475	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	33.0	64.0	0.0	0.6	0	C|0.994;G|0.006	0.006	strong	.	GAB4	95	.	NM_001037814	exon6	c.G1041C	p.V347V	CAGGCCCACAAGC	.	PASS	Atlas-SNP
TMED7-TICAM2	100302736	hgsc.bcm.edu	37	5	114916763	114916763	+	Missense_Mutation	SNP	C	C	T	rs113049216	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	68.0	122.0	0.0	0.459459	0	C|0.989;T|0.011	0.011	strong	.	.	.	.	NM_001164468	exon4	c.G698A	p.S233N	TCCACGCTCTGAG	.	PASS	Atlas-SNP
PPAN	56342	hgsc.bcm.edu	37	19	10221804	10221804	+	Missense_Mutation	SNP	G	G	T	rs200927331	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	14.0	7.0	8.0	0.0	0.5	0	.	.	weak	.	PPAN	43	.	NM_020230	exon12	c.G1385T	p.G462V	GGCGAGGCCGGGG	.	PASS	Atlas-SNP
SIRPB1	10326	hgsc.bcm.edu	37	20	1546906	1546906	+	Silent	SNP	C	C	T	rs11907593	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	51.0	71.0	0.0	0.69863	0	C|0.984;T|0.016	0.016	strong	.	SIRPB1	83	.	NM_006065	exon5	c.G1092A	p.A364A	AGCCAGCGCTGCT	.	PASS	Atlas-SNP
DGKZ	8525	hgsc.bcm.edu	37	11	46388024	46388024	+	Missense_Mutation	SNP	G	G	A	rs11827702	bycluster;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	26.0	23.0	0.0	0.590909	0	G|0.968;A|0.032	0.032	strong	.	DGKZ	199	.	NM_001105540	exon2	c.G218A	p.R73Q	GCCGCCGGCGCTC	.	PASS	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127231765	127231765	+	Missense_Mutation	SNP	C	C	T	rs76434769	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	140.0	134.0	1.0	0.979021	0.00746269	C|0.977;T|0.023	0.023	strong	.	GPR144	33	.	NM_001161808	exon16	c.C2497T	p.R833C	GCCCGCCGCCGTG	.	PASS	Atlas-SNP
TMEM176A	55365	hgsc.bcm.edu	37	7	150500832	150500832	+	Missense_Mutation	SNP	C	C	T	rs76937000	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	38.0	50.0	0.0	0.506667	0	C|0.977;T|0.023	0.023	strong	.	TMEM176A	35	.	NM_018487	exon5	c.C467T	p.S156L	CCAGCTCGAGTGA	.	PASS	Atlas-SNP
OR4A5	81318	hgsc.bcm.edu	37	11	51412370	51412370	+	Missense_Mutation	SNP	T	T	A	rs149177099	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	38.0	94.0	0.0	0.431818	0	T|0.990;A|0.010	0.010	strong	OR4A5,NS,carcinoma,-1,1	OR4A5	116	1	NM_001005272	exon1	c.A26T	p.E9V	ACAAATTCTGTAA	.	PASS	Atlas-SNP
OR5L1	219437	hgsc.bcm.edu	37	11	55579078	55579078	+	Missense_Mutation	SNP	A	A	T	rs2869020	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	107.0	238.0	1.0	0.44958	0.00420168	A|0.976;T|0.024	0.024	strong	.	OR5L1	145	.	NM_001004738	exon1	c.A136T	p.I46F	GGCATGATTGCAC	.	PASS	Atlas-SNP
CRAT	1384	hgsc.bcm.edu	37	9	131860421	131860421	+	Silent	SNP	G	G	A	rs16930895	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	17.0	53.0	0.0	0.459459	0	G|0.943;A|0.057	0.057	strong	.	CRAT	43	.	NM_000755	exon11	c.C1335T	p.Y445Y	CTGTCCGTAGATC	.	PASS	Atlas-SNP
RBM11	54033	hgsc.bcm.edu	37	21	15599354	15599354	+	Missense_Mutation	SNP	G	G	A	rs139439630	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	361.0	160.0	342.0	0.0	0.443213	0	G|0.988;A|0.012	0.012	strong	.	RBM11	41	.	NM_144770	exon5	c.G586A	p.D196N	CCAAGTGACTCTG	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144940462	144940462	+	Silent	SNP	G	G	A	rs56146920	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	11.0	174.0	0.0	0.0555556	0	G|0.500;A|0.500	0.500	weak	.	EPPK1	199	.	NM_031308	exon1	c.C6960T	p.S2320S	GAAGAGGGAGATC	.	PASS	Atlas-SNP
OR52L1	338751	hgsc.bcm.edu	37	11	6007679	6007679	+	Missense_Mutation	SNP	C	C	T	rs61742092	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	70.0	164.0	0.0	0.4375	0	A|0.000;C|0.988;T|0.012	0.012	strong	OR52L1_ENST00000332249,NS,carcinoma,-1,2	OR52L1	100	2	NM_001005173	exon1	c.G482A	p.C161Y	CCGATGCACCCTA	.	PASS	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	37	13	103514939	103514939	+	Silent	SNP	C	C	T	rs4150316	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	69.0	111.0	0.0	0.575	0	C|0.959;T|0.041	0.041	strong	.	.	.	.	NM_001204425	exon16	c.C2802T	p.H934H	TGTTCACGTGGGG	.	PASS	Atlas-SNP
CYP3A7	1551	hgsc.bcm.edu	37	7	99317993	99317993	+	Silent	SNP	G	G	A	rs45466796	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	299.0	142.0	251.0	0.0	0.474916	0	G|0.983;A|0.017	0.017	strong	.	CYP3A7	59	.	NM_000765	exon4	c.C261T	p.P87P	CATGTCGGGATCT	.	PASS	Atlas-SNP
ABI3	51225	hgsc.bcm.edu	37	17	47295165	47295165	+	Missense_Mutation	SNP	G	G	A	rs137924898	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	28.0	64.0	0.0	0.474576	0	G|0.997;A|0.003	0.003	strong	.	ABI3	35	.	NM_016428	exon3	c.G350A	p.R117Q	TCCAGCGGCTGCC	.	PASS	Atlas-SNP
EBNA1BP2	10969	hgsc.bcm.edu	37	1	43630156	43630156	+	Silent	SNP	A	A	C	rs11559311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	80.0	140.0	0.0	0.506329	0	A|0.912;C|0.088	0.088	strong	.	EBNA1BP2	37	.	NM_001159936	exon10	c.T1044G	p.P348P	TTTTCCAGGTCTC	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140605092	140605092	+	Missense_Mutation	SNP	C	C	G	rs76671799	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	29.0	40.0	0.0	0.439394	0	C|0.978;G|0.022	0.022	strong	.	PCDHB14	132	.	NM_018934	exon1	c.C2015G	p.P672R	ACCTGCCGCTCCC	.	PASS	Atlas-SNP
EPHA1	2041	hgsc.bcm.edu	37	7	143088592	143088592	+	Silent	SNP	G	G	A	rs56307701	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	84.0	134.0	0.0	0.48	0	G|0.988;A|0.013	0.013	strong	.	EPHA1	193	.	NM_005232	exon18	c.C2889T	p.H963H	CTTCTGGTGCCCG	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	117068826	117068826	+	Silent	SNP	G	G	A	rs1249762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	31.0	62.0	0.0	0.424658	0	G|0.974;A|0.026	0.026	strong	.	COL27A1	200	.	NM_032888	exon58	c.G4965A	p.V1655V	GCTGGTGCTGGAC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13753517	13753517	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	24.0	218.0	0.0	0.111111	0	.	.	none	DNAH5,NS,carcinoma,+1,1	DNAH5	868	1	NM_001369	exon63	c.T10697A	p.M3566K	ATCAACATCTCAC	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	7043335	7043335	+	Missense_Mutation	SNP	A	A	G	rs9950267	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	135.0	160.0	0.0	0.985401	0	A|0.939;G|0.061	0.061	strong	.	LAMA1	458	.	NM_005559	exon8	c.T1046C	p.L349S	GTATTCAAACTTT	.	PASS	Atlas-SNP
ZNF678	339500	hgsc.bcm.edu	37	1	227842405	227842405	+	Missense_Mutation	SNP	C	C	A	rs61283390	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	52.0	62.0	0.0	0.577778	0	C|0.987;A|0.013	0.013	strong	.	ZNF678	137	.	NM_178549	exon4	c.C619A	p.P207T	GAGAAACCCTACA	.	PASS	Atlas-SNP
DDX27	55661	hgsc.bcm.edu	37	20	47838020	47838020	+	Missense_Mutation	SNP	C	C	T	rs114928867	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	59.0	115.0	0.0	0.468254	0	C|0.997;T|0.003	0.003	strong	.	DDX27	74	.	NM_017895	exon2	c.C218T	p.A73V	AAAAAGCTTTGGG	.	PASS	Atlas-SNP
TJP3	27134	hgsc.bcm.edu	37	19	3747910	3747910	+	Missense_Mutation	SNP	G	G	A	rs10408494	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	80.0	100.0	0.0	0.571429	0	G|0.950;A|0.050	0.050	strong	.	TJP3	79	.	NM_001267561	exon19	c.G2468A	p.G823D	AGGGCGGCGCGTA	.	PASS	Atlas-SNP
TRIM15	89870	hgsc.bcm.edu	37	6	30139971	30139971	+	Missense_Mutation	SNP	G	G	C	rs115649931	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	32.0	41.0	0.0	0.561404	0	G|0.990;C|0.010	0.010	strong	.	TRIM15	34	.	NM_033229	exon7	c.G1243C	p.V415L	CGCGGCGTGAGAG	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1052086	1052086	+	Silent	SNP	G	G	A	rs61576791	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	44.0	91.0	0.0	0.431373	0	G|0.938;A|0.062	0.062	strong	.	ABCA7	174	.	NM_019112	exon22	c.G3108A	p.T1036T	CCTGACGCTGGTG	.	PASS	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	37	2	1642700	1642700	+	Missense_Mutation	SNP	G	G	A	rs61747875	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	53.0	130.0	0.0	0.40458	0	G|0.990;A|0.010	0.010	strong	.	PXDN	255	.	NM_012293	exon21	c.C4124T	p.T1375I	GAGCGTGTGCTGA	.	PASS	Atlas-SNP
STRADA	92335	hgsc.bcm.edu	37	17	61787892	61787892	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	69.0	121.0	0.0	0.482517	0	.	.	none	.	STRADA	27	.	NM_001003787	exon8	c.G540A	p.L180L	GGCCTTCAGCACC	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121576518	121576518	+	Missense_Mutation	SNP	C	C	G	rs201833154	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	73.0	136.0	0.0	0.51773	0	.	.	weak	C6orf170,colon,carcinoma,-2,1	C6orf170	146	1	NM_152730	exon17	c.G1974C	p.E658D	AGAACCCTCTACT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470130	10470130	+	Missense_Mutation	SNP	C	C	T	rs79401306	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	11.0	24.0	0.0	0.333333	0	C|0.987;T|0.013	0.013	strong	.	RP1L1	453	.	NM_178857	exon4	c.G1478A	p.R493Q	GCTTTCCGCTCAG	.	PASS	Atlas-SNP
PDP1	54704	hgsc.bcm.edu	37	8	94935623	94935623	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	221.0	117.0	159.0	0.0	0.529412	0	.	.	none	PDP1,caecum,carcinoma,-2,1	PDP1	97	1	NM_001161780	exon3	c.A1411G	p.I471V	CAGCCAATAGCTG	.	PASS	Atlas-SNP
TSPAN18	90139	hgsc.bcm.edu	37	11	44948263	44948263	+	Silent	SNP	C	C	T	rs34695714	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	65.0	107.0	0.0	0.524194	0	C|0.972;T|0.028	0.028	strong	TSPAN18,colon,carcinoma,+1,1	TSPAN18	38	1	NM_130783	exon8	c.C654T	p.Y218Y	GACCTACGTCTAC	.	PASS	Atlas-SNP
ZNF180	7733	hgsc.bcm.edu	37	19	45001398	45001398	+	Silent	SNP	G	G	A	rs10423647	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	20.0	32.0	0.0	0.454545	0	G|0.906;A|0.094	0.094	strong	.	ZNF180	103	.	NM_013256	exon2	c.C70T	p.L24L	CCTCCAGGCACAG	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	140743460	140743460	+	Silent	SNP	G	G	A	rs148857575	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	43.0	76.0	0.0	0.505882	0	G|0.998;A|0.002	0.002	strong	.	TRAPPC9	114	.	NM_031466	exon23	c.C3585T	p.S1195S	CTGGCCGGACGGC	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41245643	41245643	+	Silent	SNP	A	A	G	rs369373293		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	61.0	122.0	0.0	0.448529	0	.	.	weak	.	BRCA1	304	.	NM_007300	exon10	c.T1905C	p.N635N	AGTACAATTAGGT	.	PASS	Atlas-SNP
TMBIM6	7009	hgsc.bcm.edu	37	12	50153060	50153060	+	Silent	SNP	A	A	G	rs12310796	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	58.0	142.0	0.0	0.453125	0	A|0.993;G|0.007	0.007	strong	.	TMBIM6	26	.	NM_001098576	exon8	c.A744G	p.Q248Q	TACTCAACTCATT	.	PASS	Atlas-SNP
FLT3LG	2323	hgsc.bcm.edu	37	19	49977929	49977929	+	Silent	SNP	A	A	G	rs75750998	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	357.0	183.0	285.0	0.0	0.512605	0	A|0.974;G|0.026	0.026	strong	.	FLT3LG	22	.	NM_001204503	exon1	c.A33G	p.T11T	CCCAACAGTGCGT	.	PASS	Atlas-SNP
GLI3	2737	hgsc.bcm.edu	37	7	42004897	42004897	+	Silent	SNP	G	G	C	rs35448119	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	41.0	100.0	0.0	0.465909	0	G|0.984;C|0.016	0.016	strong	.	GLI3	312	.	NM_000168	exon15	c.C3774G	p.L1258L	CCTGTTGAGACAG	.	PASS	Atlas-SNP
KCNK12	56660	hgsc.bcm.edu	37	2	47748487	47748487	+	Silent	SNP	G	G	A	rs77883212	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	35.0	86.0	0.0	0.432099	0	G|0.986;A|0.014	0.014	strong	.	KCNK12	11	.	NM_022055	exon2	c.C852T	p.I284I	GAGCAGGATGAAG	.	PASS	Atlas-SNP
ERN1	2081	hgsc.bcm.edu	37	17	62137893	62137893	+	Missense_Mutation	SNP	T	T	C	rs79107850	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	64.0	135.0	0.0	0.426667	0	T|0.990;C|0.010	0.010	strong	.	ERN1	102	.	NM_001433	exon11	c.A1142G	p.N381S	AGATTGTTGGGAA	.	PASS	Atlas-SNP
OC90	729330	hgsc.bcm.edu	37	8	133036743	133036743	+	Silent	SNP	A	A	G	rs11991659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	20.0	52.0	0.0	0.588235	0	A|0.952;G|0.048	0.048	strong	OC90_ENST00000262283,brain,primitive_neuroectodermal_tumour-medulloblastoma,-1,2	OC90	163	2	NM_001080399	exon14	c.T1419C	p.P473P	ATGAAGAGGCCCG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179610695	179610695	+	Missense_Mutation	SNP	C	C	T	rs72648915	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	47.0	97.0	0.0	0.47	0	C|0.961;T|0.039	0.039	strong	.	TTN	18412	.	NM_133379	exon46	c.G16432A	p.V5478M	CTATCACAGCAAA	.	PASS	Atlas-SNP
IKBKE	9641	hgsc.bcm.edu	37	1	206658404	206658404	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	56.0	162.0	0.0	0.459016	0	.	.	none	.	IKBKE	77	.	NM_001193322	exon14	c.C1498T	p.R500W	AGGCTGCGGACTG	.	PASS	Atlas-SNP
GTPBP3	84705	hgsc.bcm.edu	37	19	17450038	17450038	+	Silent	SNP	C	C	T	rs11880362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	23.0	43.0	0.0	0.489362	0	C|0.972;T|0.028	0.028	strong	.	GTPBP3	40	.	NM_133644	exon5	c.C867T	p.P289P	TGGACCCCCCAAT	.	PASS	Atlas-SNP
MRPS24	64951	hgsc.bcm.edu	37	7	43906544	43906544	+	Silent	SNP	C	C	T	rs9154	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	28.0	55.0	0.0	0.411765	0	C|0.953;T|0.047	0.047	strong	MRPS24,colon,carcinoma,-1,2	MRPS24	9	2	NM_032014	exon4	c.G258A	p.T86T	CTCCACCGTTCGC	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15795690	15795690	+	Missense_Mutation	SNP	G	G	C	rs61729079	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	48.0	96.0	0.0	0.317881	0	G|0.981;C|0.019	0.019	strong	.	CYP4F12	89	.	NM_023944	exon8	c.G983C	p.G328A	TGTTTGGAGGTGA	.	PASS	Atlas-SNP
RPGR	6103	hgsc.bcm.edu	37	X	38145841	38145841	+	Missense_Mutation	SNP	C	C	T	rs147388235	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	522.0	236.0	469.0	1.0	0.452107	0.0021322	C|0.985;T|0.015	0.015	strong	.	RPGR	175	.	NM_001034853	exon15	c.G2411A	p.R804K	TCCCCTCTCCCCT	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	37	19	617804	617804	+	Silent	SNP	G	G	A	rs144281668	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	58.0	128.0	0.0	0.417266	0	G|0.999;A|0.001	0.001	strong	.	POLRMT	91	.	NM_005035	exon18	c.C3468T	p.H1156H	AGCTGCGTGAGTC	.	PASS	Atlas-SNP
SPTAN1	6709	hgsc.bcm.edu	37	9	131362361	131362361	+	Silent	SNP	T	T	C	rs945831	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	93.0	202.0	0.0	0.406114	0	T|0.963;C|0.037	0.037	strong	.	SPTAN1	266	.	NM_003127	exon27	c.T3546C	p.D1182D	ATAGGATGAAACT	.	PASS	Atlas-SNP
RIF1	55183	hgsc.bcm.edu	37	2	152320501	152320501	+	Silent	SNP	T	T	C	rs7566841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	50.0	113.0	0.0	0.625	0	T|0.981;C|0.019	0.019	strong	.	RIF1	244	.	NM_018151	exon30	c.T4467C	p.T1489T	GAAGACTCTTGGG	.	PASS	Atlas-SNP
CNNM1	26507	hgsc.bcm.edu	37	10	101120671	101120671	+	Silent	SNP	G	G	A	rs61735150	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	46.0	75.0	0.0	0.494624	0	G|0.992;A|0.008	0.008	strong	CNNM1_ENST00000356713,NS,carcinoma,0,2	CNNM1	101	2	NM_020348	exon3	c.G1797A	p.T599T	GGACACGGAGATG	.	PASS	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320000	90320000	+	Missense_Mutation	SNP	G	G	A	rs28462216	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	42.0	36.0	0.0	1	0	G|0.940;A|0.060	0.060	strong	.	MESP2	20	.	NM_001039958	exon1	c.G412A	p.V138M	TCGGCCGTGCTGG	.	PASS	Atlas-SNP
KIAA0947	23379	hgsc.bcm.edu	37	5	5464237	5464237	+	Missense_Mutation	SNP	A	A	C	rs10065646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	23.0	43.0	0.0	0.534884	0	A|0.932;C|0.068	0.068	strong	.	KIAA0947	301	.	NM_015325	exon13	c.A4790C	p.Q1597P	AAACTCAAAGAAG	.	PASS	Atlas-SNP
SIPA1L3	23094	hgsc.bcm.edu	37	19	38610394	38610394	+	Missense_Mutation	SNP	G	G	A	rs140119542	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	33.0	61.0	0.0	0.5	0	G|1.000;A|0.000	0.000	strong	SIPA1L3,caecum,carcinoma,0,1	SIPA1L3	150	1	NM_015073	exon9	c.G2740A	p.G914R	TACTGCGGGGATG	.	PASS	Atlas-SNP
ACER2	340485	hgsc.bcm.edu	37	9	19450598	19450598	+	Silent	SNP	G	G	C	rs7855739	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	330.0	328.0	282.0	1.0	0.993939	0.0035461	G|0.933;C|0.067	0.067	strong	.	ACER2	24	.	NM_001010887	exon6	c.G792C	p.L264L	CCTCCTGTGTGCC	.	PASS	Atlas-SNP
PDIA4	9601	hgsc.bcm.edu	37	7	148701245	148701245	+	Missense_Mutation	SNP	C	C	T	rs61739277	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	78.0	208.0	0.0	0.445714	0	C|0.992;T|0.008	0.008	strong	.	PDIA4	57	.	NM_004911	exon10	c.G1579A	p.V527I	CCTTGACGGGTCC	.	PASS	Atlas-SNP
KRT72	140807	hgsc.bcm.edu	37	12	52995127	52995127	+	Missense_Mutation	SNP	C	C	T	rs61747194	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	21.0	45.0	0.0	0.456522	0	C|0.987;T|0.013	0.013	strong	.	KRT72	70	.	NM_001146225	exon1	c.G110A	p.R37Q	TTGACCCGGGCCC	.	PASS	Atlas-SNP
USP19	10869	hgsc.bcm.edu	37	3	49149020	49149020	+	Missense_Mutation	SNP	T	T	C	rs13321689	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	39.0	65.0	0.0	0.609375	0	T|0.972;C|0.028	0.028	strong	.	USP19	158	.	NM_001199161	exon21	c.A3130G	p.T1044A	CACTGGTGCTGGG	.	PASS	Atlas-SNP
ZBTB37	84614	hgsc.bcm.edu	37	1	173839435	173839435	+	Silent	SNP	G	G	A	rs9425761	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	89.0	170.0	0.0	0.463542	0	G|0.875;A|0.125	0.125	strong	.	ZBTB37	38	.	NM_032522	exon3	c.G72A	p.Q24Q	AAACCAGTTGCGC	.	PASS	Atlas-SNP
SRGAP2D	100996712	hgsc.bcm.edu	37	1	206574931	206574931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1642.0	188.0	1644.0	1.0	0.114495	0.000608273	.	.	none	SRGAP2_ENST00000414007,NS,carcinoma,0,3	.	.	3	NM_001271887	exon4	c.G521A	p.R174H	AGCAGCGCCTCAT	.	scavenged	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118512719	118512719	+	Missense_Mutation	SNP	G	G	T	rs140504036	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	49.0	59.0	0.0	1	0	G|0.999;T|0.001	0.001	strong	.	SPAG17	263	.	NM_206996	exon46	c.C6347A	p.P2116Q	CTGGGTGGGGGCT	.	PASS	Atlas-SNP
NAT10	55226	hgsc.bcm.edu	37	11	34133767	34133767	+	Silent	SNP	G	G	A	rs36003235	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	77.0	168.0	0.0	0.472393	0	G|0.996;A|0.004	0.004	strong	.	NAT10	78	.	NM_024662	exon4	c.G369A	p.L123L	TGTGCTGCAGGTG	.	PASS	Atlas-SNP
TMEM102	284114	hgsc.bcm.edu	37	17	7339903	7339903	+	Missense_Mutation	SNP	C	C	G	rs76805816	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	62.0	89.0	0.0	0.473282	0	C|0.967;G|0.033	0.033	strong	.	TMEM102	11	.	NM_178518	exon3	c.C605G	p.A202G	ACGAGGCGCCGGT	.	PASS	Atlas-SNP
MAP3K19	80122	hgsc.bcm.edu	37	2	135745648	135745648	+	Missense_Mutation	SNP	G	G	A	rs113683052	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	45.0	119.0	0.0	0.424528	0	G|0.989;A|0.011	0.011	strong	.	.	.	.	NM_025052	exon7	c.C794T	p.P265L	GCTCCCGGAGGCT	.	PASS	Atlas-SNP
CLDND2	125875	hgsc.bcm.edu	37	19	51870771	51870771	+	Missense_Mutation	SNP	C	C	A	rs61737052	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	101.0	179.0	0.0	0.526042	0	C|0.949;A|0.051	0.051	strong	.	CLDND2	11	.	NM_152353	exon3	c.G370T	p.V124F	AGAAGACGTTGTT	.	PASS	Atlas-SNP
OR51L1	119682	hgsc.bcm.edu	37	11	5020542	5020542	+	Silent	SNP	A	A	T	rs368384016		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	423.0	203.0	374.0	0.0	0.479905	0	.	.	weak	.	OR51L1	60	.	NM_001004755	exon1	c.A330T	p.T110T	ATTCACATTCCTG	.	PASS	Atlas-SNP
INCENP	3619	hgsc.bcm.edu	37	11	61897542	61897542	+	Silent	SNP	G	G	A	rs145875137	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	20.0	42.0	0.0	0.5	0	G|0.996;A|0.004	0.004	strong	.	INCENP	122	.	NM_001040694	exon4	c.G543A	p.Q181Q	TGAGCAGCATGTC	.	PASS	Atlas-SNP
MS4A6A	64231	hgsc.bcm.edu	37	11	59943082	59943082	+	Silent	SNP	C	C	T	rs138028890	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	64.0	94.0	0.0	0.581818	0	C|0.997;T|0.003	0.003	strong	.	MS4A6A	85	.	NM_001247999	exon6	c.G426A	p.V142V	GCTATGCACCTGA	.	PASS	Atlas-SNP
TAAR1	134864	hgsc.bcm.edu	37	6	132967032	132967032	+	Silent	SNP	T	T	G	rs73775159	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	272.0	144.0	221.0	0.0	0.529412	0	T|0.989;G|0.011	0.011	strong	.	TAAR1	41	.	NM_138327	exon1	c.A111C	p.T37T	AACGAGTGTGGTC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103398300	103398300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	227.0	27.0	207.0	0.0	0.118943	0	.	.	none	.	.	.	.	NM_001146197	exon4	c.C4747T	p.L1583F	TGACAAGCTCATT	.	PASS	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	37	17	48594973	48594973	+	Missense_Mutation	SNP	G	G	A	rs75706684	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	100.0	169.0	0.0	0.510204	0	G|0.970;A|0.030	0.030	strong	MYCBPAP,NS,NS,0,1	MYCBPAP	135	1	NM_032133	exon4	c.G511A	p.D171N	AGCTTCGATGGCA	.	PASS	Atlas-SNP
PPIG	9360	hgsc.bcm.edu	37	2	170493784	170493784	+	Silent	SNP	T	T	C	rs114584157	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	44.0	137.0	0.0	0.357724	0	T|0.997;C|0.003	0.003	strong	.	PPIG	100	.	NM_004792	exon14	c.T2016C	p.N672N	TCATAATAGCTCA	.	PASS	Atlas-SNP
CHRD	8646	hgsc.bcm.edu	37	3	184099050	184099050	+	Missense_Mutation	SNP	C	C	T	rs34095724	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	135.0	232.0	0.0	0.521236	0	C|0.949;T|0.051	0.051	strong	.	CHRD	149	.	NM_003741	exon3	c.C280T	p.P94S	AGGGGCCCTGGCA	.	PASS	Atlas-SNP
KRTAP22-2	100288287	hgsc.bcm.edu	37	21	31962649	31962649	+	Silent	SNP	G	G	A	rs78392137	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	79.0	123.0	0.0	0.530201	0	G|0.990;A|0.010	0.010	strong	.	KRTAP22-2	6	.	NM_001164434	exon1	c.C45T	p.C15C	ATAGCTGCAACCA	.	PASS	Atlas-SNP
FAM211B	388886	hgsc.bcm.edu	37	22	24984261	24984261	+	Nonsense_Mutation	SNP	G	G	A	rs201281973	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	106.0	195.0	0.0	0.527363	0	G|1.000;A|0.000	0.000	strong	C22orf36,colon,carcinoma,0,1	.	.	1	NM_207644	exon3	c.C343T	p.R115X	GCTGTCGGCAGAT	.	PASS	Atlas-SNP
DEF8	54849	hgsc.bcm.edu	37	16	90032296	90032296	+	Silent	SNP	T	T	G	rs11861894	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	63.0	122.0	0.0	0.577982	0	T|0.861;G|0.139	0.139	strong	.	DEF8	28	.	NM_207514	exon13	c.T1464G	p.T488T	CACCACTTGTCCC	.	PASS	Atlas-SNP
IFNA14	3448	hgsc.bcm.edu	37	9	21239578	21239578	+	Silent	SNP	C	C	T	rs141933410	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	429.0	43.0	360.0	0.0	0.100233	0	C|0.999;G|0.000;T|0.001	0.001	strong	.	IFNA14	29	.	NM_002172	exon1	c.G357A	p.L119L	GGCTTCCAGGTCA	.	PASS	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	37	13	103518036	103518036	+	Silent	SNP	A	A	G	rs55686372	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	29.0	61.0	0.0	0.460317	0	A|0.995;G|0.005	0.005	strong	.	.	.	.	NM_001204425	exon17	c.A3336G	p.Q1112Q	AGTGCAAAGTGTG	.	PASS	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	37	4	6621677	6621677	+	Silent	SNP	C	C	G	rs147252633	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	88.0	204.0	0.0	0.486188	0	C|0.994;G|0.006	0.006	strong	.	MAN2B2	80	.	NM_015274	exon18	c.C2838G	p.S946S	GGGGTCCGTGGTG	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88500822	88500822	+	Missense_Mutation	SNP	C	C	G	rs77490207	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	31.0	62.0	0.0	0.516667	0	C|0.988;G|0.012	0.012	strong	.	ZNF469	121	.	NM_001127464	exon2	c.C6860G	p.P2287R	CCCCGCCCCACAC	.	PASS	Atlas-SNP
LIFR	3977	hgsc.bcm.edu	37	5	38510768	38510768	+	Silent	SNP	T	T	C	rs141925289	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	54.0	118.0	0.0	0.439024	0	T|0.997;C|0.003	0.003	strong	.	LIFR	348	.	NM_002310	exon7	c.A789G	p.V263V	TGAGCCTACAAGT	.	PASS	Atlas-SNP
RAB11FIP1	80223	hgsc.bcm.edu	37	8	37730017	37730017	+	Missense_Mutation	SNP	G	G	A	rs16887092	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	113.0	114.0	0.0	1	0	G|0.890;A|0.110	0.110	strong	.	RAB11FIP1	105	.	NM_001002814	exon4	c.C2303T	p.A768V	TCTTCAGCTGCAT	.	PASS	Atlas-SNP
TRAF3IP1	26146	hgsc.bcm.edu	37	2	239237783	239237783	+	Missense_Mutation	SNP	C	C	T	rs34723381	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	55.0	142.0	0.0	0.416667	0	C|0.950;T|0.050	0.050	strong	.	TRAF3IP1	58	.	NM_015650	exon5	c.C715T	p.R239W	AGGGAGCGGGACA	.	PASS	Atlas-SNP
THBD	7056	hgsc.bcm.edu	37	20	23029971	23029971	+	Silent	SNP	G	G	T	rs201268201	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	30.0	32.0	0.0	0.75	0	G|0.999;T|0.001	0.001	strong	.	THBD	26	.	NM_000361	exon1	c.C171A	p.G57G	TAGGTGGCCCCGC	.	PASS	Atlas-SNP
RABGAP1L	9910	hgsc.bcm.edu	37	1	174219724	174219724	+	Missense_Mutation	SNP	A	A	G	rs7339904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	56.0	97.0	0.0	0.538462	0	A|0.914;G|0.086	0.086	strong	.	RABGAP1L	103	.	NM_014857	exon6	c.A829G	p.S277G	ACCTTCAGTGTCT	.	PASS	Atlas-SNP
RASA1	5921	hgsc.bcm.edu	37	5	86681125	86681125	+	Silent	SNP	A	A	T	rs137898246	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	68.0	115.0	0.0	0.557377	0	A|1.000;G|0.000;T|0.000	0.000	strong	.	RASA1	213	.	NM_002890	exon22	c.A2766T	p.P922P	TTCTCCATCTCCT	.	PASS	Atlas-SNP
PRPH2	5961	hgsc.bcm.edu	37	6	42666244	42666244	+	Missense_Mutation	SNP	A	A	C	rs140406696	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	40.0	76.0	0.0	0.487805	0	A|1.000;C|0.000	0.000	weak	.	PRPH2	47	.	NM_000322	exon3	c.T830G	p.V277G	ATGGTCACCTGGT	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18376509	18376509	+	Missense_Mutation	SNP	G	G	A	rs16982285	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	66.0	152.0	0.0	0.442953	0	G|0.854;A|0.146	0.146	strong	KIAA1683_ENST00000392413,colon,carcinoma,0,2	KIAA1683	190	2	NM_001145304	exon3	c.C1841T	p.A614V	GTTTTCGCCTGTT	.	PASS	Atlas-SNP
ZBTB9	221504	hgsc.bcm.edu	37	6	33423698	33423698	+	Missense_Mutation	SNP	C	C	G	rs9469425	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	35.0	82.0	0.0	0.603448	0	C|0.921;G|0.079	0.079	strong	.	ZBTB9	23	.	NM_152735	exon2	c.C821G	p.A274G	TTCCTGCCCCTCC	.	PASS	Atlas-SNP
SPP1	6696	hgsc.bcm.edu	37	4	88903774	88903774	+	Missense_Mutation	SNP	G	G	A	rs7435825	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	85.0	186.0	0.0	0.467033	0	G|0.958;A|0.042	0.042	strong	.	SPP1	35	.	NM_001251830	exon8	c.G710A	p.S237N	AGGACAGTTATGA	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73566469	73566469	+	Missense_Mutation	SNP	C	C	T	rs150412778	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	58.0	102.0	0.0	0.557692	0	C|0.989;T|0.011	0.011	strong	.	LLGL2	155	.	NM_004524	exon16	c.C1915T	p.P639S	GAGGGCCCACTCT	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31379802	31379802	+	Missense_Mutation	SNP	A	A	G	rs41546915		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	39.0	129.0	0.0	0.493671	0	.	.	weak	.	MICA	21	.	NM_001177519	exon4	c.A692G	p.Y231C	GCTTCTATCCCCG	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50667859	50667859	+	Silent	SNP	A	A	G	rs6010211	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	86.0	158.0	0.0	0.413462	0	A|0.936;G|0.064	0.064	strong	.	TUBGCP6	132	.	NM_020461	exon4	c.T1264C	p.L422L	TGTACAAAGAGTC	.	PASS	Atlas-SNP
PI16	221476	hgsc.bcm.edu	37	6	36930795	36930795	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	54.0	93.0	0.0	0.415385	0	.	.	none	.	PI16	50	.	NM_001199159	exon6	c.A677T	p.D226V	CATCAGACTCTAG	.	PASS	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	37	19	52000616	52000616	+	Missense_Mutation	SNP	T	T	C	rs28572419	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	212.0	120.0	184.0	1.0	0.566038	0.00543478	T|0.968;C|0.032	0.032	strong	.	SIGLEC12	243	.	NM_053003	exon6	c.A1489G	p.I497V	AGATGATGCAGAA	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	37	12	101679569	101679569	+	Missense_Mutation	SNP	A	A	G	rs140064475	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	25.0	69.0	0.0	0.568182	0	A|0.998;G|0.002	0.002	strong	.	UTP20	222	.	NM_014503	exon4	c.A236G	p.N79S	CATTCAATCAGTT	.	PASS	Atlas-SNP
KEL	3792	hgsc.bcm.edu	37	7	142640004	142640004	+	Silent	SNP	T	T	C	rs8176039	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	64.0	113.0	0.0	0.496124	0	A|0.102;C|0.060	0.060	strong	.	KEL	128	.	NM_000420	exon17	c.A1899G	p.L633L	ATTCTCTAAGAAT	.	PASS	Atlas-SNP
WDR62	284403	hgsc.bcm.edu	37	19	36583692	36583692	+	Missense_Mutation	SNP	A	A	G	rs61747277	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	76.0	151.0	0.0	0.447059	0	A|0.982;G|0.018	0.018	strong	.	WDR62	102	.	NM_173636	exon19	c.A2312G	p.K771R	ATGACAAGAAGCG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152282899	152282899	+	Missense_Mutation	SNP	G	G	T	rs3120648	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	424.0	423.0	461.0	0.0	0.997642	0	G|0.915;T|0.085	0.085	strong	.	FLG	900	.	NM_002016	exon3	c.C4463A	p.T1488N	CGAATGGTGTCCT	.	PASS	Atlas-SNP
CCDC157	550631	hgsc.bcm.edu	37	22	30772567	30772567	+	Missense_Mutation	SNP	T	T	C	rs202178544	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	15.0	109.0	0.0	0.12	0	.	.	weak	CCDC157_ENST00000405659,bladder,carcinoma,0,4	CCDC157	86	4	NM_001017437	exon12	c.T2092C	p.S698P	TCCCCATCTCGGC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228399628	228399628	+	Silent	SNP	G	G	A	rs114375717	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	42.0	62.0	0.0	0.591549	0	G|0.992;A|0.008	0.008	strong	.	OBSCN	2142	.	NM_001271223	exon2	c.G144A	p.Q48Q	CCAGCAGCCGGTG	.	PASS	Atlas-SNP
URB1	9875	hgsc.bcm.edu	37	21	33755787	33755787	+	Missense_Mutation	SNP	G	G	A	rs148857803	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	27.0	70.0	0.0	0.397059	0	G|0.998;A|0.002	0.002	strong	.	URB1	176	.	NM_014825	exon4	c.C511T	p.H171Y	CAAAATGGCTGCA	.	PASS	Atlas-SNP
MCM8	84515	hgsc.bcm.edu	37	20	5974265	5974265	+	Missense_Mutation	SNP	A	A	G	rs16991638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	17.0	46.0	0.0	0.354167	0	A|0.934;G|0.066	0.066	strong	.	MCM8	125	.	NM_032485	exon18	c.A2354G	p.N785S	TCAACAACGTTGC	.	PASS	Atlas-SNP
POLR1A	25885	hgsc.bcm.edu	37	2	86305404	86305404	+	Missense_Mutation	SNP	T	T	C	rs35239368	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	64.0	111.0	0.0	0.5	0	T|0.930;C|0.070	0.070	strong	.	POLR1A	137	.	NM_015425	exon10	c.A1090G	p.K364E	AGTCTTTTTCCTG	.	PASS	Atlas-SNP
RBM10	8241	hgsc.bcm.edu	37	X	47041414	47041414	+	Silent	SNP	C	C	T	rs112102343	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	73.0	111.0	0.0	0.506944	0	C|0.986;T|0.014	0.014	strong	.	RBM10	117	.	NM_001204468	exon16	c.C1953T	p.T651T	CCAGACCGGCCTC	.	PASS	Atlas-SNP
HS3ST3B1	9953	hgsc.bcm.edu	37	17	14248345	14248345	+	Silent	SNP	G	G	A	rs77608217	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	290.0	148.0	241.0	0.0	0.510345	0	G|0.995;A|0.005	0.005	strong	.	HS3ST3B1	19	.	NM_006041	exon2	c.G555A	p.R185R	TCTCAGGGACCTG	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241835110	241835110	+	Missense_Mutation	SNP	G	G	A	rs146162100	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	68.0	143.0	0.0	0.478873	0	G|0.990;A|0.010	0.010	strong	.	C2orf54	14	.	NM_001085437	exon1	c.C305T	p.P102L	TCCTCCGGCTGGG	.	PASS	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	37	6	135358398	135358398	+	Silent	SNP	G	G	A	rs116294454	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	48.0	77.0	0.0	0.489796	0	G|0.978;A|0.022	0.022	strong	.	HBS1L	75	.	NM_001145207	exon5	c.C1197T	p.N399N	TGACTGGTTACAA	.	PASS	Atlas-SNP
ZNF319	57567	hgsc.bcm.edu	37	16	58031996	58031996	+	Silent	SNP	G	G	A	rs115738968	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	18.0	49.0	0.0	0.529412	0	G|0.992;A|0.008	0.008	strong	.	ZNF319	42	.	NM_020807	exon2	c.C174T	p.P58P	CAGGCCGGGGTCT	.	PASS	Atlas-SNP
LZTS2	84445	hgsc.bcm.edu	37	10	102762439	102762439	+	Silent	SNP	C	C	T	rs142122181	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	70.0	108.0	0.0	0.57377	0	C|0.998;T|0.002	0.002	strong	.	LZTS2	57	.	NM_032429	exon2	c.C144T	p.H48H	CCACCACGGCCCT	.	PASS	Atlas-SNP
OR6P1	128366	hgsc.bcm.edu	37	1	158532908	158532908	+	Missense_Mutation	SNP	T	T	C	rs114056876	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	49.0	92.0	0.0	0.544444	0	T|0.988;C|0.012	0.012	strong	.	OR6P1	47	.	NM_001160325	exon1	c.A487G	p.I163V	GGGAAATAAAAAG	.	PASS	Atlas-SNP
C1orf127	148345	hgsc.bcm.edu	37	1	11009679	11009679	+	Splice_Site	SNP	G	G	A	rs1281013	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	51.0	103.0	0.0	0.51	0	G|0.907;A|0.093	0.093	strong	.	C1orf127	134	.	NM_001170754	exon12	c.1290+2C>T	.	AGACGTGCTTTGG	.	PASS	Atlas-SNP
PCDHA5	56143	hgsc.bcm.edu	37	5	140201418	140201418	+	Missense_Mutation	SNP	C	C	T	rs56285019	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	50.0	95.0	0.0	0.543478	0	C|0.952;T|0.048	0.048	strong	.	PCDHA5	361	.	NM_018908	exon1	c.C58T	p.L20F	CTTCTCCTTGCCT	.	PASS	Atlas-SNP
ARMC5	79798	hgsc.bcm.edu	37	16	31477795	31477795	+	Missense_Mutation	SNP	G	G	C	rs115611533	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	26.0	35.0	0.0	0.52	0	G|0.992;C|0.008	0.008	strong	.	ARMC5	94	.	NM_001105247	exon6	c.G2393C	p.G798A	CGCCTGGTGCAGC	.	PASS	Atlas-SNP
TMPRSS9	360200	hgsc.bcm.edu	37	19	2389793	2389793	+	Missense_Mutation	SNP	A	A	G	rs8100709	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	41.0	61.0	0.0	0.539474	0	A|0.948;G|0.052	0.052	strong	.	TMPRSS9	79	.	NM_182973	exon1	c.A10G	p.T4A	GAGCCCACTGTGG	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73559453	73559453	+	Silent	SNP	C	C	T	rs139362844	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	49.0	77.0	0.0	0.526882	0	C|0.996;T|0.004	0.004	strong	.	LLGL2	155	.	NM_001015002	exon8	c.C735T	p.L245L	CCTGCTCGTCAGC	.	PASS	Atlas-SNP
NSUN5	55695	hgsc.bcm.edu	37	7	72717686	72717686	+	Silent	SNP	C	C	T	rs145622470	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	70.0	111.0	0.0	0.534351	0	C|0.993;T|0.007	0.007	strong	.	NSUN5	47	.	NM_148956	exon9	c.G1197A	p.P399P	GGCACCCGGGAAC	.	PASS	Atlas-SNP
PUS10	150962	hgsc.bcm.edu	37	2	61188643	61188643	+	Missense_Mutation	SNP	C	C	T	rs113622721	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	112.0	211.0	0.0	0.476596	0	C|0.985;T|0.015	0.015	strong	.	PUS10	49	.	NM_144709	exon10	c.G829A	p.A277T	GAACAGCGCATAC	.	PASS	Atlas-SNP
CRNN	49860	hgsc.bcm.edu	37	1	152382436	152382436	+	Missense_Mutation	SNP	C	C	G	rs6695830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	341.0	340.0	361.0	0.0	0.997067	0	C|0.939;G|0.061	0.061	strong	CRNN,NS,carcinoma,-2,1	CRNN	78	1	NM_016190	exon3	c.G1122C	p.Q374H	CTGTCCCTGTTCT	.	PASS	Atlas-SNP
RPP38	10557	hgsc.bcm.edu	37	10	15145917	15145917	+	Missense_Mutation	SNP	A	A	C	rs12249258	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	44.0	92.0	0.0	0.505747	0	A|0.946;C|0.054	0.054	strong	.	RPP38	26	.	NM_001265601	exon2	c.A604C	p.S202R	GTCCCCAGTTTAA	.	PASS	Atlas-SNP
BPTF	2186	hgsc.bcm.edu	37	17	65919092	65919092	+	Silent	SNP	G	G	A	rs59088743	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	59.0	107.0	0.0	0.427536	0	G|0.981;A|0.019	0.019	strong	.	BPTF	415	.	NM_004459	exon16	c.G6072A	p.R2024R	GATCAGGGCATTT	.	PASS	Atlas-SNP
GRM5	2915	hgsc.bcm.edu	37	11	88337922	88337922	+	Missense_Mutation	SNP	G	G	A	rs61741175	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	28.0	49.0	0.0	0.518519	0	G|0.972;A|0.028	0.028	strong	GRM5_ENST00000418177,right_upper_lobe,carcinoma,+1,2	GRM5	414	2	NM_000842	exon5	c.C1358T	p.T453M	AGGATCGTATCTC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124354954	124354954	+	Missense_Mutation	SNP	C	C	T	rs7977449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	34.0	99.0	0.0	0.43038	0	C|0.971;T|0.029	0.029	strong	.	DNAH10	888	.	NM_207437	exon43	c.C7207T	p.R2403W	AACAAACGGAATC	.	PASS	Atlas-SNP
OR4A16	81327	hgsc.bcm.edu	37	11	55110989	55110989	+	Missense_Mutation	SNP	C	C	G	rs116541488	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	289.0	128.0	307.0	0.0	0.442907	0	C|0.988;G|0.012	0.012	strong	.	OR4A16	120	.	NM_001005274	exon1	c.C313G	p.L105V	CACTTACTTGGTG	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140051009	140051009	+	Silent	SNP	G	G	A	rs146252353	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	406.0	202.0	407.0	0.0	0.497537	0	G|0.994;A|0.006	0.006	strong	.	DND1	15	.	NM_194249	exon4	c.C931T	p.L311L	CATCTAGGGTCAG	.	PASS	Atlas-SNP
BBS5	129880	hgsc.bcm.edu	37	2	170336102	170336102	+	Silent	SNP	C	C	G	rs10188609	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	33.0	104.0	0.0	0.407407	0	C|0.954;G|0.046	0.046	strong	.	BBS5	27	.	NM_152384	exon1	c.C39G	p.V13V	GGATGTCCGTTTC	.	PASS	Atlas-SNP
ZNF668	79759	hgsc.bcm.edu	37	16	31073244	31073244	+	Silent	SNP	C	C	A	rs34831291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	25.0	53.0	0.0	0.471698	0	C|0.990;A|0.010	0.010	strong	.	ZNF668	121	.	NM_001172669	exon4	c.G1074T	p.P358P	CTTGAACGGCCGG	.	PASS	Atlas-SNP
SERPINA1	5265	hgsc.bcm.edu	37	14	94844975	94844975	+	Silent	SNP	G	G	A	rs9630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	82.0	154.0	0.0	0.488095	0	G|0.989;A|0.011	0.011	strong	.	SERPINA1	51	.	NM_001127701	exon7	c.C1068T	p.A356A	ATGCACGGCCTGG	.	PASS	Atlas-SNP
PNMAL1	55228	hgsc.bcm.edu	37	19	46973693	46973693	+	Silent	SNP	C	C	T	rs73552938	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	64.0	61.0	1.0	0.984615	0.0163934	C|0.977;T|0.023	0.023	strong	PNMAL1_ENST00000438932,lower_third,carcinoma,-1,2	PNMAL1	87	2	NM_018215	exon2	c.G600A	p.P200P	AAGCCCCGGTTCT	.	scavenged	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140237826	140237826	+	Silent	SNP	G	G	C	rs180990865	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	234.0	108.0	235.0	0.0	0.461538	0	G|0.989;C|0.011	0.011	strong	.	PCDHA10	358	.	NM_031859	exon1	c.G2193C	p.G731G	ATGTGGGCCGGTG	.	PASS	Atlas-SNP
PODN	127435	hgsc.bcm.edu	37	1	53544271	53544271	+	Silent	SNP	G	G	C	rs62000444	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	61.0	97.0	0.0	0.508333	0	G|0.992;C|0.008	0.008	strong	.	PODN	86	.	NM_153703	exon8	c.G1233C	p.T411T	GCACACGGTGCAC	.	PASS	Atlas-SNP
SULT6B1	391365	hgsc.bcm.edu	37	2	37406645	37406645	+	Missense_Mutation	SNP	T	T	C	rs61737618	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	33.0	60.0	0.0	0.55	0	T|0.997;C|0.003	0.003	strong	.	SULT6B1	46	.	NM_001032377	exon4	c.A371G	p.Y124C	GAGCCATAGCTTG	.	PASS	Atlas-SNP
NAF1	92345	hgsc.bcm.edu	37	4	164087753	164087753	+	Missense_Mutation	SNP	G	G	A	rs12331663	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	49.0	94.0	0.0	0.544444	0	G|0.963;A|0.037	0.037	strong	.	NAF1	69	.	NM_138386	exon1	c.C127T	p.P43S	GTAGCGGCGGCTG	.	PASS	Atlas-SNP
PNMAL1	55228	hgsc.bcm.edu	37	19	46973315	46973315	+	Silent	SNP	G	G	A	rs61628326	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	54.0	94.0	0.0	0.556701	0	G|0.982;A|0.018	0.018	strong	.	PNMAL1	87	.	NM_018215	exon2	c.C978T	p.A326A	GCTCTCGGCTTCT	.	PASS	Atlas-SNP
PHF10	55274	hgsc.bcm.edu	37	6	170105725	170105725	+	Silent	SNP	T	T	C	rs4286788	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	63.0	166.0	0.0	0.45	0	T|0.995;C|0.005	0.005	strong	.	PHF10	76	.	NM_018288	exon10	c.A1209G	p.Q403Q	CTCACATTGGGAG	.	PASS	Atlas-SNP
LPA	4018	hgsc.bcm.edu	37	6	161026103	161026103	+	Missense_Mutation	SNP	G	G	A	rs189364869	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	30.0	49.0	0.0	0.410959	0	G|0.999;A|0.001	0.001	strong	.	LPA	237	.	NM_005577	exon19	c.C2920T	p.R974W	GGGTCCGACTATG	.	PASS	Atlas-SNP
MED12L	116931	hgsc.bcm.edu	37	3	150874033	150874033	+	Silent	SNP	T	T	C	rs61734152	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	27.0	66.0	0.0	0.36	0	T|0.983;C|0.017	0.017	strong	MED12L,NS,carcinoma,+2,1	MED12L	271	1	NM_053002	exon5	c.T642C	p.D214D	GGGCGATGGCCCT	.	PASS	Atlas-SNP
KCNT2	343450	hgsc.bcm.edu	37	1	196303117	196303117	+	Silent	SNP	C	C	T	rs116401401	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	72.0	122.0	0.0	0.489796	0	C|0.995;T|0.005	0.005	strong	.	KCNT2	243	.	NM_198503	exon17	c.G1857A	p.E619E	GCTTCCCTCTGTA	.	PASS	Atlas-SNP
CABYR	26256	hgsc.bcm.edu	37	18	21736486	21736486	+	Nonsense_Mutation	SNP	C	C	T	rs35554127	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	35.0	62.0	0.0	0.5	0	C|0.986;T|0.014	0.014	strong	.	CABYR	51	.	NM_012189	exon4	c.C1021T	p.R341X	TCACCACGAGTTA	.	PASS	Atlas-SNP
MOB3A	126308	hgsc.bcm.edu	37	19	2078290	2078290	+	Silent	SNP	G	G	A	rs34483500	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	86.0	152.0	0.0	0.521212	0	G|0.994;A|0.006	0.006	strong	MOBKL2A,colon,carcinoma,-2,1	.	.	1	NM_130807	exon3	c.C270T	p.V90V	CGACATGACGGGG	.	PASS	Atlas-SNP
MYRIP	25924	hgsc.bcm.edu	37	3	40223771	40223771	+	Missense_Mutation	SNP	G	G	A	rs59923220	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	62.0	124.0	0.0	0.442857	0	G|0.927;A|0.073	0.073	strong	.	MYRIP	98	.	NM_015460	exon9	c.G934A	p.A312T	GTGGAGGCTCCAT	.	PASS	Atlas-SNP
FMO2	2327	hgsc.bcm.edu	37	1	171176879	171176879	+	Silent	SNP	G	G	A	rs6671692	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	86.0	206.0	0.0	0.438776	0	G|0.953;A|0.047	0.047	strong	.	FMO2	66	.	NM_001460	exon8	c.G1206A	p.E402E	CTCAGAGAGAACT	.	PASS	Atlas-SNP
POMZP3	22932	hgsc.bcm.edu	37	7	76240877	76240877	+	Missense_Mutation	SNP	A	A	T	rs73365247	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	284.0	110.0	226.0	0.0	0.387324	0	A|0.957;T|0.043	0.043	strong	.	POMZP3	19	.	NM_012230	exon6	c.T469A	p.C157S	ATTGACAGATGTC	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	3991479	3991479	+	Silent	SNP	A	A	G	rs6961589	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	15.0	25.0	0.0	0.394737	0	A|0.926;G|0.074	0.074	strong	.	SDK1	361	.	NM_152744	exon7	c.A1077G	p.P359P	CGGGCCATACGTC	.	PASS	Atlas-SNP
SBSN	374897	hgsc.bcm.edu	37	19	36018435	36018435	+	Missense_Mutation	SNP	G	G	A	rs147913080	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	5.0	5.0	6.0	0.0	1	0	G|0.977;A|0.023	0.023	strong	.	SBSN	58	.	NM_001166034	exon1	c.C749T	p.A250V	TGCCCCGCAGCAT	.	PASS	Atlas-SNP
COL20A1	57642	hgsc.bcm.edu	37	20	61959758	61959758	+	Missense_Mutation	SNP	C	C	T	rs115749294	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	75.0	88.0	0.0	0.572519	0	C|0.995;T|0.005	0.005	strong	.	COL20A1	137	.	NM_020882	exon34	c.C3689T	p.P1230L	TGGAGCCGGGCAC	.	PASS	Atlas-SNP
DSG1	1828	hgsc.bcm.edu	37	18	28923906	28923906	+	Missense_Mutation	SNP	A	A	G	rs116081362	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	73.0	145.0	0.0	0.453416	0	A|0.967;G|0.033	0.033	strong	.	DSG1	176	.	NM_001942	exon13	c.A1839G	p.I613M	TGTCATACCACAA	.	PASS	Atlas-SNP
UNC13B	10497	hgsc.bcm.edu	37	9	35398900	35398900	+	Missense_Mutation	SNP	G	G	T	rs12339582	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	88.0	186.0	0.0	0.44	0	G|0.960;T|0.040	0.040	strong	.	UNC13B	153	.	NM_006377	exon32	c.G3696T	p.E1232D	TGATGAGTGTGTT	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141274456	141274456	+	Splice_Site	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	12.0	80.0	0.0	0.181818	0	.	.	none	.	LRP1B	1315	.	NM_018557	exon51	c.8149+2T>C	.	TGTCTCACCACAG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093362	1093362	+	Silent	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	8.0	117.0	0.0	0.0606061	0	.	.	none	.	MUC2	614	.	NM_002457	exon30	c.C5181G	p.T1727T	CACCACCACTACG	.	PASS	Atlas-SNP
C14orf80	283643	hgsc.bcm.edu	37	14	105958010	105958010	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	77.0	147.0	0.0	0.5	0	.	.	none	.	C14orf80	19	.	NM_001134876	exon2	c.G199T	p.G67C	CCTGCGGGCAACG	.	PASS	Atlas-SNP
HIST1H3B	8358	hgsc.bcm.edu	37	6	26031962	26031962	+	Silent	SNP	G	G	A	rs34966100	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	59.0	113.0	0.0	0.41844	0	G|0.966;A|0.034	0.034	strong	.	HIST1H3B	59	.	NM_003537	exon1	c.C327T	p.N109N	GCAAAGGTTTGTG	.	PASS	Atlas-SNP
YTHDF1	54915	hgsc.bcm.edu	37	20	61834169	61834169	+	Missense_Mutation	SNP	G	G	A	rs34379989	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	66.0	140.0	0.0	0.445946	0	G|0.991;A|0.009	0.009	strong	.	YTHDF1	66	.	NM_017798	exon4	c.C1123T	p.H375Y	AGCTGTGAGCAGC	.	PASS	Atlas-SNP
CDC14A	8556	hgsc.bcm.edu	37	1	100933576	100933576	+	Silent	SNP	T	T	C	rs17122597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	67.0	109.0	0.0	0.51938	0	T|0.931;C|0.069	0.069	strong	.	CDC14A	65	.	NM_033313	exon10	c.T903C	p.H301H	TACACATGCTGAA	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103385309	103385309	+	Missense_Mutation	SNP	A	A	G	rs80279368	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	141.0	208.0	0.0	0.54023	0	A|0.965;G|0.035	0.035	strong	.	.	.	.	NM_001146197	exon4	c.T17738C	p.V5913A	TCCAGAACACCTT	.	PASS	Atlas-SNP
WDR72	256764	hgsc.bcm.edu	37	15	53997415	53997415	+	Missense_Mutation	SNP	G	G	T	rs142505794		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	23.0	34.0	0.0	0.605263	0	G|1.000;T|0.000	0.000	weak	.	WDR72	177	.	NM_182758	exon11	c.C1118A	p.A373D	CAGGTGGCAGTTA	.	PASS	Atlas-SNP
LAMA4	3910	hgsc.bcm.edu	37	6	112513025	112513025	+	Silent	SNP	G	G	A	rs61742228	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	51.0	97.0	0.0	0.51	0	G|0.985;A|0.015	0.015	strong	.	LAMA4	227	.	NM_001105206	exon6	c.C531T	p.P177P	GAGTAAGGGGTTT	.	PASS	Atlas-SNP
LCE2B	26239	hgsc.bcm.edu	37	1	152659392	152659392	+	Missense_Mutation	SNP	C	C	T	rs61730791	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	240.0	124.0	237.0	0.0	0.516667	0	C|0.986;T|0.014	0.014	strong	.	LCE2B	40	.	NM_014357	exon2	c.C73T	p.P25S	AAATGTCCACCTA	.	PASS	Atlas-SNP
PROP1	5626	hgsc.bcm.edu	37	5	177421275	177421275	+	Silent	SNP	C	C	T	rs2233784	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	68.0	107.0	0.0	0.519084	0	C|0.969;T|0.031	0.031	strong	PROP1,NS,carcinoma,-2,1	PROP1	28	1	NM_006261	exon2	c.G174A	p.P58P	TCCTTGCGGGGAG	.	PASS	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	37	19	12807066	12807066	+	Silent	SNP	G	G	C	rs6511832	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	21.0	38.0	0.0	0.42	0	G|0.902;C|0.098	0.098	strong	.	FBXW9	30	.	NM_032301	exon1	c.C330G	p.L110L	GTCGCGGAGCGCG	.	PASS	Atlas-SNP
PPFIA1	8500	hgsc.bcm.edu	37	11	70200516	70200516	+	Missense_Mutation	SNP	C	C	T	rs139448605	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	26.0	51.0	0.0	0.412698	0	C|0.992;T|0.008	0.008	strong	.	PPFIA1	114	.	NM_177423	exon17	c.C2273T	p.A758V	AAGGGGCGCTGCA	.	PASS	Atlas-SNP
PSKH2	85481	hgsc.bcm.edu	37	8	87076651	87076651	+	Missense_Mutation	SNP	T	T	C	rs16879427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	70.0	110.0	0.0	0.492958	0	T|0.874;C|0.126	0.126	strong	PSKH2,right_upper_lobe,carcinoma,-1,1	PSKH2	79	1	NM_033126	exon2	c.A395G	p.Q132R	TAAACTTGATCCT	.	PASS	Atlas-SNP
WDR88	126248	hgsc.bcm.edu	37	19	33666345	33666345	+	Missense_Mutation	SNP	C	C	A	rs77589178	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	224.0	103.0	257.0	1.0	0.459821	0.00389105	C|0.975;A|0.025	0.025	strong	.	WDR88	50	.	NM_173479	exon11	c.C1286A	p.T429N	GTGACACCTCTTC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105418276	105418276	+	Missense_Mutation	SNP	G	G	A	rs35374867	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	303.0	140.0	285.0	0.0	0.462046	0	G|0.978;A|0.022	0.022	strong	.	AHNAK2	719	.	NM_138420	exon7	c.C3512T	p.P1171L	AACGATGGCATCT	.	PASS	Atlas-SNP
MLXIPL	51085	hgsc.bcm.edu	37	7	73020328	73020328	+	Missense_Mutation	SNP	G	G	T	rs34922362	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	33.0	73.0	0.0	0.434211	0	G|0.978;T|0.022	0.022	strong	.	MLXIPL	54	.	NM_032954	exon6	c.C732A	p.D244E	ATTGAGGTCCAGG	.	PASS	Atlas-SNP
SNX7	51375	hgsc.bcm.edu	37	1	99150590	99150590	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	95.0	223.0	0.0	0.516304	0	.	.	none	.	SNX7	76	.	NM_015976	exon2	c.A330G	p.I110M	TACAATAGAAACT	.	PASS	Atlas-SNP
CTRC	11330	hgsc.bcm.edu	37	1	15767036	15767036	+	Silent	SNP	C	C	A	rs497078	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	40.0	105.0	0.0	0.37037	0	A|0.000;C|0.887;T|0.113	0.000	strong	.	CTRC	28	.	NM_007272	exon3	c.C180A	p.G60G	GTGTGGCGGGACT	.	PASS	Atlas-SNP
FH	2271	hgsc.bcm.edu	37	1	241663825	241663825	+	Silent	SNP	G	G	A	rs2070080	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	68.0	149.0	0.0	0.478873	0	G|0.972;A|0.028	0.028	strong	FH,NS,carcinoma,0,1	FH	64	1	NM_000143	exon9	c.C1302T	p.C434C	CACCACGCAGTTT	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19166100	19166100	+	Missense_Mutation	SNP	C	C	T	rs9988418	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	83.0	134.0	0.0	0.446237	0	C|0.950;T|0.050	0.050	strong	.	TAS1R2	134	.	NM_152232	exon6	c.G2513A	p.R838K	TAGTCCCTCCTCA	.	PASS	Atlas-SNP
RFX8	731220	hgsc.bcm.edu	37	2	102031324	102031324	+	Missense_Mutation	SNP	T	T	G	rs6753088	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	41.0	83.0	0.0	0.43617	0	T|0.991;G|0.009	0.009	strong	.	RFX8	16	.	NM_001145664	exon7	c.A553C	p.M185L	TAGCCATGTTGGA	.	PASS	Atlas-SNP
COG5	10466	hgsc.bcm.edu	37	7	106938740	106938740	+	Missense_Mutation	SNP	C	C	T	rs35258567	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	58.0	104.0	0.0	0.464	0	C|0.999;T|0.001	0.001	strong	COG5,colon,carcinoma,-1,1	COG5	78	1	NM_006348	exon12	c.G1253A	p.R418H	TAAAGACGTAATA	.	PASS	Atlas-SNP
POT1	25913	hgsc.bcm.edu	37	7	124464037	124464037	+	Silent	SNP	T	T	G	rs17147565	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	102.0	200.0	0.0	0.525773	0	T|0.970;G|0.030	0.030	strong	POT1_ENST00000357628,NS,carcinoma,-2,2	POT1	186	2	NM_015450	exon19	c.A1884C	p.T628T	TGCAACTGTGGTG	.	PASS	Atlas-SNP
TGM3	7053	hgsc.bcm.edu	37	20	2291722	2291722	+	Missense_Mutation	SNP	A	A	C	rs6048066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	169.0	93.0	169.0	0.0	0.550296	0	A|0.871;C|0.129	0.129	strong	.	TGM3	105	.	NM_003245	exon4	c.A487C	p.I163L	GGCATCATCTTTG	.	PASS	Atlas-SNP
C3orf22	152065	hgsc.bcm.edu	37	3	126270923	126270923	+	Silent	SNP	G	G	C	rs34760151	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	50.0	83.0	0.0	0.471698	0	G|0.912;C|0.088	0.088	strong	.	C3orf22	17	.	NM_152533	exon3	c.C132G	p.P44P	CTCCCAGGGCTGC	.	PASS	Atlas-SNP
PSG6	5675	hgsc.bcm.edu	37	19	43420290	43420290	+	Silent	SNP	A	A	G	rs76022539	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	89.0	207.0	0.0	0.505682	0	A|0.961;G|0.039	0.039	strong	.	PSG6	89	.	NM_001031850	exon2	c.T414C	p.T138T	GGTGACAGTGAAA	.	PASS	Atlas-SNP
KCTD7	154881	hgsc.bcm.edu	37	7	66094184	66094184	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	8.0	5.0	2.0	0.0	0.625	0	.	.	none	KCTD7,brain,glioma,-2,1	KCTD7	26	1	NM_001167961	exon1	c.C133T	p.L45L	CCCCTGCTGCCAC	.	scavenged	Atlas-SNP
SLCO2A1	6578	hgsc.bcm.edu	37	3	133653566	133653566	+	Silent	SNP	G	G	A	rs72978391	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	32.0	49.0	0.0	0.432432	0	G|0.970;A|0.030	0.030	strong	.	SLCO2A1	72	.	NM_005630	exon14	c.C1923T	p.G641G	GATGAGGCCTGCC	.	PASS	Atlas-SNP
TAT	6898	hgsc.bcm.edu	37	16	71602665	71602665	+	Silent	SNP	C	C	T	rs16973331	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	63.0	118.0	0.0	0.470149	0	C|0.958;T|0.042	0.042	strong	.	TAT	80	.	NM_000353	exon11	c.G1173A	p.E391E	CGTGAACTCCACA	.	PASS	Atlas-SNP
SERPINB7	8710	hgsc.bcm.edu	37	18	61471593	61471593	+	Silent	SNP	A	A	G	rs11873045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	35.0	44.0	0.0	0.583333	0	A|0.943;G|0.057	0.057	strong	.	SERPINB7	66	.	NM_001261830	exon8	c.A867G	p.Q289Q	GAAACAATATTTG	.	PASS	Atlas-SNP
OR2J3	442186	hgsc.bcm.edu	37	6	29080386	29080386	+	Missense_Mutation	SNP	T	T	C	rs79293918	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	370.0	177.0	386.0	0.0	0.478378	0	T|0.981;C|0.019	0.019	strong	.	OR2J3	53	.	NM_001005216	exon1	c.T719C	p.V240A	AGAAAGTGTTTGG	.	PASS	Atlas-SNP
KREMEN2	79412	hgsc.bcm.edu	37	16	3016716	3016716	+	Missense_Mutation	SNP	C	C	G	rs111311295	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	60.0	120.0	0.0	0.483871	0	C|0.999;G|0.001	0.001	strong	.	KREMEN2	13	.	NM_024507	exon5	c.C560G	p.P187R	TGGCCCCCGCCAC	.	PASS	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3760056	3760056	+	Silent	SNP	G	G	A	rs61729800	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	42.0	115.0	0.0	0.42	0	G|0.973;A|0.027	0.027	strong	APBA3,colon,carcinoma,0,1	APBA3	28	1	NM_004886	exon2	c.C207T	p.G69G	CAGATCGCCTGGC	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	37	18	13040858	13040858	+	Silent	SNP	A	A	G	rs145309087	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	90.0	169.0	0.0	0.526316	0	A|0.987;G|0.013	0.013	strong	.	CEP192	340	.	NM_032142	exon14	c.A1839G	p.P613P	ATCACCAGAGAAG	.	PASS	Atlas-SNP
RNF17	56163	hgsc.bcm.edu	37	13	25374636	25374636	+	Silent	SNP	A	A	G	rs35957316	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	46.0	80.0	0.0	0.528736	0	A|0.952;G|0.048	0.048	strong	.	RNF17	259	.	NM_001184993	exon13	c.A1722G	p.Q574Q	AGCACAACCATGC	.	PASS	Atlas-SNP
FBL	2091	hgsc.bcm.edu	37	19	40329747	40329747	+	Silent	SNP	C	C	T	rs150137200	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	81.0	180.0	0.0	0.442623	0	C|0.996;T|0.004	0.004	strong	.	FBL	37	.	NM_001436	exon5	c.G477A	p.P159P	AGCCCCCGGTTTG	.	PASS	Atlas-SNP
CDX1	1044	hgsc.bcm.edu	37	5	149562398	149562398	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	71.0	124.0	0.0	0.44375	0	.	.	none	.	CDX1	11	.	NM_001804	exon2	c.G513T	p.K171N	GGAGAAGGAGTTT	.	PASS	Atlas-SNP
DIAPH2	1730	hgsc.bcm.edu	37	X	96354707	96354707	+	Silent	SNP	T	T	C	rs20387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	75.0	124.0	0.0	0.528169	0	T|0.993;C|0.007	0.007	strong	.	DIAPH2	148	.	NM_007309	exon20	c.T2262C	p.H754H	GAAACATCTTCCT	.	PASS	Atlas-SNP
C1orf177	163747	hgsc.bcm.edu	37	1	55277553	55277553	+	Silent	SNP	C	C	T	rs61691036	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	112.0	142.0	0.0	0.523364	0	C|0.979;T|0.021	0.021	strong	.	C1orf177	36	.	NM_001110533	exon5	c.C567T	p.S189S	TCATTCCGAGGGC	.	PASS	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237620034	237620034	+	Silent	SNP	G	G	A	rs78281932	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	54.0	105.0	0.0	0.504673	0	G|0.960;A|0.040	0.040	strong	.	RYR2	1273	.	NM_001035	exon16	c.G1611A	p.L537L	GTTGCTGGGTAAG	.	PASS	Atlas-SNP
SARS2	54938	hgsc.bcm.edu	37	19	39410465	39410465	+	Silent	SNP	G	G	A	rs35389151	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	80.0	124.0	0.0	0.522876	0	G|0.997;A|0.003	0.003	strong	.	SARS2	33	.	NM_001145901	exon8	c.C702T	p.R234R	AGCCCCGCGCAGG	.	PASS	Atlas-SNP
SGSM1	129049	hgsc.bcm.edu	37	22	25294155	25294155	+	Missense_Mutation	SNP	A	A	C	rs6004350	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	66.0	104.0	0.0	0.559322	0	A|0.872;C|0.128	0.128	strong	SGSM1_ENST00000400359,NS,carcinoma,-1,2	SGSM1	150	2	NM_001039948	exon20	c.A2404C	p.T802P	ACCCCCACGGTGC	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77921013	77921013	+	Silent	SNP	A	A	G	rs78142936	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	41.0	50.0	0.0	0.532468	0	A|0.935;G|0.065	0.065	strong	.	USP35	179	.	NM_020798	exon10	c.A2112G	p.G704G	GGAAGGAGAGAGG	.	PASS	Atlas-SNP
ADAM18	8749	hgsc.bcm.edu	37	8	39581395	39581395	+	Missense_Mutation	SNP	T	T	A	rs79109719	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	70.0	79.0	0.0	1	0	T|0.968;A|0.032	0.032	strong	.	ADAM18	169	.	NM_014237	exon19	c.T2146A	p.S716T	AGTAAATCATGTA	.	PASS	Atlas-SNP
DEGS2	123099	hgsc.bcm.edu	37	14	100615707	100615707	+	Silent	SNP	G	G	A	rs113575369	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	67.0	73.0	0.0	0.563025	0	G|0.991;A|0.009	0.009	strong	.	DEGS2	25	.	NM_206918	exon2	c.C423T	p.D141D	GTCCACGTCCAGC	.	PASS	Atlas-SNP
DSCR6	53820	hgsc.bcm.edu	37	21	38390419	38390419	+	Missense_Mutation	SNP	G	G	A	rs61735126	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	26.0	35.0	0.0	0.472727	0	G|0.989;A|0.011	0.011	strong	.	DSCR6	16	.	NM_018962	exon4	c.G485A	p.R162Q	GGCAGCGATCCTC	.	PASS	Atlas-SNP
PARP15	165631	hgsc.bcm.edu	37	3	122351055	122351055	+	Missense_Mutation	SNP	G	G	A	rs34383355	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	23.0	15.0	47.0	0.0	0.652174	0	G|0.981;A|0.019	0.019	strong	PARP15_ENST00000464300,NS,carcinoma,0,2	PARP15	115	2	NM_001113523	exon10	c.G1561A	p.A521T	TCCTACGCAATAG	.	PASS	Atlas-SNP
KIF21A	55605	hgsc.bcm.edu	37	12	39734066	39734066	+	Silent	SNP	T	T	G	rs150241656	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	269.0	136.0	270.0	0.0	0.505576	0	T|0.998;G|0.002	0.002	strong	.	KIF21A	238	.	NM_001173464	exon16	c.A2211C	p.A737A	TTGAGCTGCTTGA	.	PASS	Atlas-SNP
CCT8	10694	hgsc.bcm.edu	37	21	30433876	30433876	+	Missense_Mutation	SNP	C	C	T	rs8129954	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	67.0	0.0	0.460526	0	C|0.973;T|0.027	0.027	strong	.	CCT8	38	.	NM_006585	exon12	c.G1225A	p.V409I	CGGGTACAAGACG	.	PASS	Atlas-SNP
FBXL4	26235	hgsc.bcm.edu	37	6	99374436	99374436	+	Silent	SNP	T	T	C	rs17058965	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	78.0	152.0	0.0	0.496815	0	T|0.996;C|0.004	0.004	strong	.	FBXL4	54	.	NM_012160	exon3	c.A429G	p.L143L	GGTTTCTAGAACA	.	PASS	Atlas-SNP
LCE3C	353144	hgsc.bcm.edu	37	1	152573464	152573464	+	Missense_Mutation	SNP	G	G	A	rs148755167	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	79.0	62.0	0.0	0.490683	0	G|0.988;A|0.012	0.012	strong	.	LCE3C	3	.	NM_178434	exon1	c.G257A	p.R86H	CCTGCCGTGGCCA	.	PASS	Atlas-SNP
OR4X1	390113	hgsc.bcm.edu	37	11	48285424	48285424	+	Silent	SNP	A	A	G	rs713323	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	82.0	160.0	0.0	0.491018	0	A|0.982;G|0.018	0.018	strong	.	OR4X1	75	.	NM_001004726	exon1	c.A12G	p.T4T	TGCTACAAACAAT	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62455982	62455982	+	Silent	SNP	G	G	A	rs6681983	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	34.0	94.0	0.0	0.465753	0	G|0.985;A|0.015	0.015	strong	.	INADL	179	.	NM_176877	exon28	c.G3813A	p.P1271P	TAACCCGGAAGGA	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17083839	17083839	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	500.0	151.0	420.0	0.0	0.302	0	.	.	none	Q13209_HUMAN,NS,carcinoma,+1,1	.	.	1	NM_001271733	exon15	c.T1958A	p.L653Q	CCTTTCAGGACCC	.	PASS	Atlas-SNP
STRIP2	57464	hgsc.bcm.edu	37	7	129098602	129098602	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	45.0	141.0	0.0	0.401786	0	.	.	none	FAM40B,lymph_node,lymphoid_neoplasm,0,1	.	.	1	NM_020704	exon11	c.G1324A	p.G442R	TTCATCGGATTCA	.	PASS	Atlas-SNP
ANKRD53	79998	hgsc.bcm.edu	37	2	71212380	71212380	+	Silent	SNP	C	C	A	rs61732288	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	56.0	134.0	0.0	0.414815	0	C|0.968;A|0.032	0.032	strong	.	ANKRD53	55	.	NM_001115116	exon6	c.C1543A	p.R515R	GCTGTGCGATCTC	.	PASS	Atlas-SNP
TCF12	6938	hgsc.bcm.edu	37	15	57384061	57384061	+	Silent	SNP	A	A	G	rs34560099	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	33.0	90.0	0.0	0.362637	0	A|0.959;G|0.041	0.041	strong	.	TCF12	242	.	NM_207036	exon5	c.A297G	p.P99P	GTCCCCAACACCT	.	PASS	Atlas-SNP
PEX1	5189	hgsc.bcm.edu	37	7	92118654	92118654	+	Silent	SNP	G	G	A	rs34825053	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	61.0	122.0	0.0	0.435714	0	G|0.992;A|0.008	0.008	strong	.	PEX1	102	.	NM_000466	exon23	c.C3720T	p.H1240H	TCTTGTGTGACCA	.	PASS	Atlas-SNP
CBLC	23624	hgsc.bcm.edu	37	19	45284495	45284495	+	Missense_Mutation	SNP	C	C	T	rs114569424	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	48.0	91.0	0.0	0.494845	0	C|0.994;T|0.006	0.006	strong	.	CBLC	41	.	NM_001130852	exon3	c.C532T	p.L178F	GAGTCCCTCCTGG	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140604419	140604419	+	Missense_Mutation	SNP	G	G	A	rs61731253	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	108.0	161.0	0.0	0.54	0	G|0.979;A|0.021	0.021	strong	.	PCDHB14	132	.	NM_018934	exon1	c.G1342A	p.A448T	GACAACGCCCCCA	.	PASS	Atlas-SNP
ALG11	440138	hgsc.bcm.edu	37	13	52598668	52598668	+	Missense_Mutation	SNP	C	C	A	rs148434423	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	100.0	223.0	0.0	0.462963	0	C|0.999;A|0.001	0.001	strong	.	ALG11	39	.	NM_001004127	exon3	c.C802A	p.L268I	CTCTCACTATGGA	.	PASS	Atlas-SNP
DDX3X	1654	hgsc.bcm.edu	37	X	41204446	41204446	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	25.0	129.0	0.0	0.19084	0	.	.	none	.	DDX3X	138	.	NM_001193416	exon11	c.G1039C	p.D347H	GTGTTAGATGAAG	.	PASS	Atlas-SNP
ITLN1	55600	hgsc.bcm.edu	37	1	160853312	160853312	+	Silent	SNP	C	C	T	rs79969862	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	61.0	154.0	0.0	0.409396	0	C|0.984;T|0.016	0.016	strong	.	ITLN1	45	.	NM_017625	exon3	c.G63A	p.E21E	ATTAGCCTCATCT	.	PASS	Atlas-SNP
F10	2159	hgsc.bcm.edu	37	13	113798236	113798236	+	Missense_Mutation	SNP	G	G	A	rs3211783	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	29.0	47.0	0.0	0.491525	0	G|0.973;A|0.027	0.027	strong	.	F10	53	.	NM_000504	exon6	c.G574A	p.G192R	AGCAGCGGGGAGG	.	PASS	Atlas-SNP
PBK	55872	hgsc.bcm.edu	37	8	27668587	27668587	+	Missense_Mutation	SNP	C	C	G	rs17057901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	67.0	176.0	0.0	0.482014	0	C|0.978;G|0.022	0.022	strong	.	PBK	29	.	NM_018492	exon7	c.G660C	p.E220D	ACCATTCTCCTCC	.	PASS	Atlas-SNP
NTSR2	23620	hgsc.bcm.edu	37	2	11800180	11800180	+	Silent	SNP	G	G	A	rs35653499	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	55.0	93.0	0.0	0.52381	0	G|0.982;A|0.018	0.018	strong	.	NTSR2	36	.	NM_012344	exon3	c.C978T	p.D326D	CCACGCGTCATCA	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7887499	7887499	+	Missense_Mutation	SNP	T	T	G	rs35899625	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	207.0	116.0	144.0	0.0	0.560386	0	T|0.995;G|0.005	0.005	strong	.	PER3	95	.	NM_016831	exon17	c.T2486G	p.L829W	TGCCCTTGTCCGA	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	37	6	7576569	7576569	+	Silent	SNP	T	T	C	rs146407262	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	38.0	89.0	0.0	0.447059	0	T|0.991;C|0.009	0.009	strong	.	DSP	306	.	NM_004415	exon19	c.T2673C	p.Y891Y	GAATTATCGTGAT	.	PASS	Atlas-SNP
DHTKD1	55526	hgsc.bcm.edu	37	10	12160868	12160868	+	Silent	SNP	C	C	T	rs12769375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	35.0	83.0	0.0	0.448718	0	C|0.985;T|0.015	0.015	strong	.	DHTKD1	104	.	NM_018706	exon15	c.C2523T	p.F841F	CCCCTTCCCGTTG	.	PASS	Atlas-SNP
ZP4	57829	hgsc.bcm.edu	37	1	238053226	238053226	+	Missense_Mutation	SNP	G	G	A	rs34370253	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	84.0	210.0	1.0	0.488372	0.0047619	G|0.972;A|0.028	0.028	strong	ZP4,caecum,carcinoma,0,1	ZP4	161	1	NM_021186	exon3	c.C341T	p.A114V	TCAGCCGCGCCTG	.	PASS	Atlas-SNP
PSG8	440533	hgsc.bcm.edu	37	19	43268242	43268242	+	Missense_Mutation	SNP	C	C	T	rs76352186	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	233.0	98.0	247.0	1.0	0.420601	0.00404858	C|0.936;T|0.064	0.064	strong	.	PSG8	101	.	NM_001130167	exon2	c.G256A	p.G86S	TTTGACCGTCTAC	.	PASS	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	37	10	122649481	122649481	+	Missense_Mutation	SNP	C	C	T	rs150399543	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	26.0	65.0	0.0	0.448276	0	C|0.997;T|0.003	0.003	strong	WDR11,NS,carcinoma,-1,1	WDR11	95	1	NM_018117	exon18	c.C2303T	p.A768V	TAATAGCAATGTA	.	PASS	Atlas-SNP
BAZ2B	29994	hgsc.bcm.edu	37	2	160287443	160287443	+	Missense_Mutation	SNP	A	A	C	rs200904019	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	70.0	172.0	0.0	0.432099	0	A|0.998;C|0.002	0.002	strong	.	BAZ2B	196	.	NM_013450	exon10	c.T2125G	p.C709G	CAGAACATAAGGC	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79065509	79065509	+	Missense_Mutation	SNP	T	T	C	rs146076001		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	783.0	340.0	461.0	1.0	0.434227	0.0021692	T|1.000;C|0.000	0.000	weak	.	ADAMTS7	142	.	NM_014272	exon14	c.A2047G	p.M683V	CCTCCATAGCACC	.	PASS	Atlas-SNP
ACSS1	84532	hgsc.bcm.edu	37	20	25038484	25038484	+	Silent	SNP	G	G	A	rs66817095	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	66.0	141.0	0.0	0.488889	0	G|0.845;T|0.155	.	alt	.	ACSS1	46	.	NM_001252677	exon1	c.C255T	p.T85T	GTAGGGGGTGTCC	.	PASS	Atlas-SNP
ADCY2	108	hgsc.bcm.edu	37	5	7690872	7690872	+	Silent	SNP	G	G	A	rs10079813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	53.0	107.0	0.0	0.445378	0	G|0.976;A|0.024	0.024	strong	.	ADCY2	337	.	NM_020546	exon5	c.G789A	p.R263R	CCAGAGGCTGCAG	.	PASS	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	37	8	104897606	104897606	+	Missense_Mutation	SNP	C	C	G	rs146399863	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	45.0	75.0	0.0	0.535714	0	C|0.999;G|0.001	0.001	strong	.	RIMS2	1357	.	NM_001100117	exon4	c.C779G	p.A260G	AGTATGCTACTTC	.	PASS	Atlas-SNP
TANK	10010	hgsc.bcm.edu	37	2	162088034	162088034	+	Missense_Mutation	SNP	C	C	T	rs2229759	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	12.0	39.0	0.0	0.5	0	C|0.977;T|0.023	0.023	strong	TANK,NS,carcinoma,-1,1	TANK	35	1	NM_004180	exon7	c.C1073T	p.P358L	ATTCCCCGGGAAA	.	PASS	Atlas-SNP
XAB2	56949	hgsc.bcm.edu	37	19	7684502	7684502	+	Silent	SNP	G	G	A	rs4134869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	78.0	142.0	0.0	0.484472	0	G|0.944;A|0.056	0.056	strong	.	XAB2	69	.	NM_020196	exon19	c.C2538T	p.A846A	CACTGCGGCTGGC	.	PASS	Atlas-SNP
BMPER	168667	hgsc.bcm.edu	37	7	33946464	33946464	+	Silent	SNP	C	C	T	rs112068976	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	51.0	107.0	0.0	0.536842	0	C|0.999;T|0.001	0.001	strong	BMPER,NS,carcinoma,+1,1	BMPER	131	1	NM_133468	exon3	c.C168T	p.V56V	TGAAGTCCTCCAG	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40364397	40364397	+	Missense_Mutation	SNP	C	C	T	rs148917660	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	41.0	60.0	0.0	0.532468	0	C|0.997;T|0.003	0.003	strong	.	FCGBP	416	.	NM_003890	exon31	c.G14245A	p.G4749S	AGTCACCGCAGAG	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157959794	157959794	+	Missense_Mutation	SNP	T	T	C	rs73745196	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	35.0	87.0	0.0	0.546875	0	T|0.974;C|0.026	0.026	strong	.	PTPRN2	243	.	NM_130843	exon6	c.A739G	p.S247G	AGGCACTGAGGGC	.	PASS	Atlas-SNP
TCHH	7062	hgsc.bcm.edu	37	1	152082320	152082320	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	292.0	12.0	219.0	1.0	0.0410959	0.00456621	.	.	none	TCHH,NS,carcinoma,0,5	TCHH	275	5	NM_007113	exon3	c.A3373G	p.R1125G	CCTCTCTCAGCAG	.	scavenged	Atlas-SNP
TNFRSF13B	23495	hgsc.bcm.edu	37	17	16843708	16843708	+	Missense_Mutation	SNP	T	T	A	rs74811083	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	58.0	74.0	0.0	0.617021	0	T|0.985;A|0.015	0.015	strong	.	TNFRSF13B	34	.	NM_012452	exon4	c.A563T	p.K188M	CCCCTCTTCTTGA	.	PASS	Atlas-SNP
BPIFA3	128861	hgsc.bcm.edu	37	20	31812206	31812206	+	Missense_Mutation	SNP	A	A	G	rs112731808	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	94.0	168.0	0.0	0.494737	0	A|0.983;G|0.017	0.017	strong	.	.	.	.	NM_178466	exon3	c.A324G	p.I108M	CCAGATATCATTC	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39306004	39306004	+	Missense_Mutation	SNP	A	A	G	rs238829	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	346.0	153.0	307.0	0.0	0.442197	0	A|0.962;G|0.038	0.038	strong	.	KRTAP4-5	34	.	NM_033188	exon1	c.T16C	p.C6R	AGCCACAACAGGA	.	PASS	Atlas-SNP
OR1L1	26737	hgsc.bcm.edu	37	9	125424277	125424277	+	Missense_Mutation	SNP	A	A	G	rs70157	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	114.0	169.0	0.0	0.633333	0	A|0.860;G|0.140	0.140	strong	.	OR1L1	54	.	NM_001005236	exon1	c.A283G	p.S95G	TCTTACAGTGAGT	.	PASS	Atlas-SNP
LHX3	8022	hgsc.bcm.edu	37	9	139096782	139096782	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	12.0	39.0	0.0	0.333333	0	.	.	none	.	LHX3	23	.	NM_178138	exon1	c.G77A	p.R26Q	TTACCCCGAGTCC	.	PASS	Atlas-SNP
POM121L2	94026	hgsc.bcm.edu	37	6	27277716	27277716	+	Missense_Mutation	SNP	A	A	T	rs61736082	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	79.0	173.0	0.0	0.490683	0	A|0.952;T|0.048	0.048	strong	.	POM121L2	61	.	NM_033482	exon1	c.T2234A	p.I745N	TTGGAGATGCTGG	.	PASS	Atlas-SNP
ARSG	22901	hgsc.bcm.edu	37	17	66397521	66397521	+	Silent	SNP	C	C	T	rs62638719	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	105.0	124.0	0.0	0.606936	0	C|0.996;T|0.004	0.004	strong	ARSG,NS,carcinoma,+1,1	ARSG	55	1	NM_001267727	exon11	c.C1233T	p.S411S	CAACAGCGGGGCA	.	PASS	Atlas-SNP
NR5A1	2516	hgsc.bcm.edu	37	9	127262864	127262864	+	Silent	SNP	C	C	T	rs1110062	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	53.0	36.0	0.0	1	0	C|0.948;T|0.052	0.052	strong	.	NR5A1	32	.	NM_004959	exon4	c.G375A	p.P125P	CCCCATCGGGGGC	.	PASS	Atlas-SNP
SFXN2	118980	hgsc.bcm.edu	37	10	104486489	104486489	+	Silent	SNP	C	C	T	rs35153373	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	77.0	139.0	0.0	0.49359	0	C|0.980;T|0.020	0.020	strong	.	SFXN2	40	.	NM_178858	exon2	c.C96T	p.D32D	CACGGACCCCCGC	.	PASS	Atlas-SNP
IMMT	10989	hgsc.bcm.edu	37	2	86385812	86385812	+	Silent	SNP	T	T	C	rs2228352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	50.0	109.0	0.0	0.42735	0	T|0.968;C|0.032	0.032	strong	.	IMMT	65	.	NM_006839	exon10	c.A1065G	p.V355V	CTGAGATACAACC	.	PASS	Atlas-SNP
LAMC2	3918	hgsc.bcm.edu	37	1	183184650	183184650	+	Missense_Mutation	SNP	G	G	C	rs12065473	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	77.0	150.0	0.0	0.445087	0	G|0.963;C|0.037	0.037	strong	.	LAMC2	113	.	NM_005562	exon3	c.G331C	p.A111P	ACAGGAGCCAGAT	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17086976	17086976	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	491.0	53.0	396.0	0.0	0.107943	0	.	.	none	Q13209_HUMAN,NS,carcinoma,-2,2	.	.	2	NM_001271733	exon4	c.C348T	p.P116P	GAGCGTGGGCATG	.	PASS	Atlas-SNP
PADI4	23569	hgsc.bcm.edu	37	1	17668508	17668508	+	Silent	SNP	C	C	T	rs16825565	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	54.0	143.0	0.0	0.442623	0	C|0.984;T|0.016	0.016	strong	.	PADI4	70	.	NM_012387	exon7	c.C723T	p.P241P	GGTCCCCGGTGGA	.	PASS	Atlas-SNP
ADH1B	125	hgsc.bcm.edu	37	4	100237169	100237169	+	Silent	SNP	C	C	T	rs139645116	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	286.0	137.0	317.0	1.0	0.479021	0.00315457	C|0.998;T|0.002	0.002	strong	.	ADH1B	68	.	NM_000668	exon5	c.G453A	p.T151T	CACCACCGTGTAC	.	PASS	Atlas-SNP
LRP11	84918	hgsc.bcm.edu	37	6	150158486	150158486	+	Missense_Mutation	SNP	A	A	G	rs375299752		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	41.0	120.0	0.0	0.383178	0	.	.	weak	.	LRP11	27	.	NM_032832	exon4	c.T1027C	p.F343L	GGCAGAAGTCTTC	.	PASS	Atlas-SNP
BET3L	100128327	hgsc.bcm.edu	37	6	116818225	116818225	+	Silent	SNP	C	C	T	rs114678052	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	79.0	87.0	0.0	1	0	C|0.968;T|0.032	0.032	strong	.	BET3L	18	.	NM_001139444	exon5	c.G438A	p.A146A	ATCAGCCGCCAAA	.	PASS	Atlas-SNP
WDR59	79726	hgsc.bcm.edu	37	16	74943471	74943471	+	Missense_Mutation	SNP	T	T	C	rs61734551	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	21.0	43.0	0.0	0.477273	0	T|0.988;C|0.012	0.012	strong	.	WDR59	66	.	NM_030581	exon16	c.A1570G	p.T524A	AAGCCGTGGTCAC	.	PASS	Atlas-SNP
OR6P1	128366	hgsc.bcm.edu	37	1	158532605	158532605	+	Missense_Mutation	SNP	C	C	A	rs115786820	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	87.0	140.0	0.0	0.497143	0	C|0.987;A|0.013	0.013	strong	.	OR6P1	47	.	NM_001160325	exon1	c.G790T	p.A264S	ACATGGCCCGGGG	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15794425	15794425	+	Missense_Mutation	SNP	A	A	G	rs116788636	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	49.0	124.0	0.0	0.266304	0	A|0.990;G|0.010	0.010	strong	.	CYP4F12	89	.	NM_023944	exon7	c.A770G	p.H257R	GCTTCCACAGGGC	.	PASS	Atlas-SNP
FAM129C	199786	hgsc.bcm.edu	37	19	17638141	17638141	+	Missense_Mutation	SNP	G	G	A	rs73504235	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	221.0	221.0	238.0	0.0	1	0	G|0.990;A|0.010	0.010	strong	.	FAM129C	110	.	NM_001098524	exon2	c.G85A	p.D29N	GGAGACGACAGCA	.	PASS	Atlas-SNP
FOXC1	2296	hgsc.bcm.edu	37	6	1611085	1611085	+	Silent	SNP	C	C	T	rs2230096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	295.0	130.0	270.0	0.0	0.440678	0	C|0.970;T|0.030	0.030	strong	.	FOXC1	19	.	NM_001453	exon1	c.C405T	p.C135C	CGAGTGCTTCGTC	.	PASS	Atlas-SNP
ZNF107	51427	hgsc.bcm.edu	37	7	64168641	64168641	+	Silent	SNP	A	A	G	rs73363327	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	25.0	9.0	44.0	0.0	0.36	0	A|0.985;G|0.015	0.015	strong	.	ZNF107	107	.	NM_016220	exon7	c.A1959G	p.R653R	TAATAGACATAAG	.	PASS	Atlas-SNP
PPFIBP2	8495	hgsc.bcm.edu	37	11	7673029	7673029	+	Missense_Mutation	SNP	T	T	C	rs77873429	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	17.0	67.0	0.0	0.288136	0	T|0.914;C|0.086	0.086	strong	.	PPFIBP2	87	.	NM_003621	exon23	c.T2390C	p.M797T	AGAAAATGGCCTC	.	PASS	Atlas-SNP
VWA5A	4013	hgsc.bcm.edu	37	11	123989383	123989383	+	Missense_Mutation	SNP	G	G	A	rs35215239	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	28.0	91.0	0.0	0.358974	0	G|0.978;A|0.022	0.022	strong	VWA5A,larynx,carcinoma,0,1	VWA5A	102	1	NM_014622	exon5	c.G613A	p.E205K	CCTACCGAGTACC	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011526	46011526	+	Silent	SNP	T	T	A	rs371768583		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	300.0	34.0	245.0	2.0	0.113333	0.00816326	.	.	weak	KRTAP10-6,NS,carcinoma,0,2	KRTAP10-6	57	2	NM_198688	exon1	c.A840T	p.T280T	GCATGATGTGGAA	.	scavenged	Atlas-SNP
GLCE	26035	hgsc.bcm.edu	37	15	69561181	69561181	+	Silent	SNP	T	T	C	rs56045514	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	35.0	60.0	0.0	0.564516	0	T|0.951;C|0.049	0.049	strong	.	GLCE	48	.	NM_015554	exon5	c.T1452C	p.H484H	GCAGCATGGAGTT	.	PASS	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103124265	103124265	+	Missense_Mutation	SNP	A	A	G	rs150638029	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	50.0	91.0	0.0	0.543478	0	A|1.000;G|0.000	0.000	strong	.	RELN	593	.	NM_173054	exon62	c.T10016C	p.M3339T	TGCGACATGCTCC	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	37	15	85448796	85448796	+	Silent	SNP	A	A	T	rs8187755	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	74.0	182.0	1.0	0.373737	0.00549451	A|0.973;T|0.027	0.027	strong	SLC28A1_ENST00000537624,NS,carcinoma,+1,2	SLC28A1	118	2	NM_004213	exon8	c.A630T	p.G210G	TTGGGGACTTGGA	.	scavenged	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	37	15	85478573	85478573	+	Silent	SNP	C	C	A	rs8187779	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	77.0	174.0	1.0	0.542253	0.00574713	C|0.995;A|0.005	0.005	strong	SLC28A1,colon,carcinoma,-1,1	SLC28A1	118	1	NM_004213	exon15	c.C1405A	p.R469R	ATCCTGCGGCCTG	.	scavenged	Atlas-SNP
SCO1	6341	hgsc.bcm.edu	37	17	10600653	10600653	+	Missense_Mutation	SNP	G	G	A	rs1802083	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	21.0	29.0	0.0	0.488372	0	G|0.948;A|0.052	0.052	strong	.	SCO1	24	.	NM_004589	exon1	c.C172T	p.P58S	AGCCAGGGCGCCC	.	PASS	Atlas-SNP
LCE1C	353133	hgsc.bcm.edu	37	1	152777877	152777877	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	409.0	29.0	279.0	0.0	0.0709046	0	.	.	none	.	LCE1C	40	.	NM_178351	exon2	c.C78T	p.T26T	CTTTGGGGTGGGG	.	PASS	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	37	16	3613690	3613690	+	Silent	SNP	G	G	A	rs144685315	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	46.0	91.0	0.0	0.494624	0	G|0.999;A|0.001	0.001	strong	.	NLRC3	103	.	NM_178844	exon5	c.C1248T	p.Y416Y	TTGCTCGTAAAAC	.	PASS	Atlas-SNP
PLA2G4C	8605	hgsc.bcm.edu	37	19	48602933	48602933	+	Missense_Mutation	SNP	T	T	C	rs2307282	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	38.0	113.0	0.0	0.452381	0	T|0.956;C|0.044	0.044	strong	PLA2G4C,middle_lobe,carcinoma,+1,1	PLA2G4C	76	1	NM_001159322	exon5	c.A472G	p.R158G	CTTCTCTGGTTTG	.	PASS	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	37	2	32673884	32673884	+	Silent	SNP	A	A	G	rs150651833	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	57.0	155.0	0.0	0.419118	0	A|0.998;G|0.002	0.002	strong	.	BIRC6	838	.	NM_016252	exon22	c.A4506G	p.P1502P	CTCACCATTTGAT	.	PASS	Atlas-SNP
PTGES	9536	hgsc.bcm.edu	37	9	132510960	132510960	+	Silent	SNP	G	G	A	rs3205181	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	48.0	49.0	0.0	0.676056	0	G|0.969;A|0.031	0.031	strong	.	PTGES	7	.	NM_004878	exon2	c.C183T	p.S61S	GGGGTCGCTCCTG	.	PASS	Atlas-SNP
TOM1	10043	hgsc.bcm.edu	37	22	35713931	35713931	+	Silent	SNP	C	C	T	rs57755951	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	94.0	181.0	0.0	0.477157	0	C|0.982;T|0.018	0.018	strong	.	TOM1	43	.	NM_001135732	exon2	c.C114T	p.D38D	CTGCGACATCATC	.	PASS	Atlas-SNP
PDGFRL	5157	hgsc.bcm.edu	37	8	17434813	17434813	+	Missense_Mutation	SNP	G	G	A	rs114432448	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	68.0	152.0	0.0	0.485714	0	G|0.987;A|0.013	0.013	strong	.	PDGFRL	27	.	NM_006207	exon2	c.G52A	p.D18N	CTGGAGGATGGTG	.	PASS	Atlas-SNP
HKDC1	80201	hgsc.bcm.edu	37	10	70980243	70980243	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	37.0	54.0	0.0	0.528571	0	.	.	none	.	HKDC1	98	.	NM_025130	exon1	c.C52A	p.Q18K	GAGGACCAGATCA	.	PASS	Atlas-SNP
PODNL1	79883	hgsc.bcm.edu	37	19	14043843	14043843	+	Missense_Mutation	SNP	C	C	T	rs80103045	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	4.0	4.0	4.0	0.0	1	0	C|0.980;T|0.020	0.020	strong	.	PODNL1	27	.	NM_024825	exon8	c.G1214A	p.R405H	AACCGGCGGAAGG	.	PASS	Atlas-SNP
SLC5A5	6528	hgsc.bcm.edu	37	19	17988794	17988794	+	Silent	SNP	C	C	T	rs35209536	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	41.0	65.0	0.0	0.488095	0	C|0.982;T|0.018	0.018	strong	.	SLC5A5	67	.	NM_000453	exon7	c.C861T	p.V287V	CCAGGTCGGCCTG	.	PASS	Atlas-SNP
SMG6	23293	hgsc.bcm.edu	37	17	2203462	2203462	+	Silent	SNP	T	T	C	rs140746531	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	49.0	73.0	0.0	0.505155	0	T|1.000;C|0.000	0.000	strong	.	SMG6	97	.	NM_017575	exon2	c.A585G	p.P195P	CCTGTCTGGTTTA	.	PASS	Atlas-SNP
POU5F1B	5462	hgsc.bcm.edu	37	8	128428592	128428592	+	Missense_Mutation	SNP	G	G	A	rs140000439	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	81.0	155.0	0.0	0.503106	0	G|0.985;A|0.015	0.015	strong	.	POU5F1B	32	.	NM_001159542	exon1	c.G481A	p.G161R	ACCCTGGGATATA	.	PASS	Atlas-SNP
SYCP2	10388	hgsc.bcm.edu	37	20	58441612	58441612	+	Silent	SNP	C	C	T	rs58905758	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	29.0	63.0	0.0	0.617021	0	C|0.983;T|0.017	0.017	strong	.	SYCP2	204	.	NM_014258	exon39	c.G4158A	p.T1386T	AGACTGCGTAGTA	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057952	46057952	+	Silent	SNP	C	C	A	rs74701761	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	473.0	113.0	294.0	0.0	0.238901	0	C|0.982;A|0.018	0.018	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.C618A	p.V206V	GCCCGTCCCCTCC	.	PASS	Atlas-SNP
NKX2-5	1482	hgsc.bcm.edu	37	5	172662014	172662014	+	Missense_Mutation	SNP	G	G	A	rs28936670	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	77.0	181.0	0.0	0.490446	0	G|0.993;A|0.007	0.007	strong	.	NKX2-5	42	.	NM_004387	exon1	c.C73T	p.R25C	GGCTGCGCTGCTG	.	PASS	Atlas-SNP
ATAD3A	55210	hgsc.bcm.edu	37	1	1458915	1458915	+	Missense_Mutation	SNP	C	C	T	rs113107431	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	102.0	131.0	0.0	0.563536	0	C|0.972;T|0.028	0.028	strong	.	ATAD3A	35	.	NM_018188	exon9	c.C1075T	p.P359S	AGTCGACCCCAGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509113	195509113	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	313.0	60.0	177.0	0.0	0.191693	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C9338T	p.A3113V	GTGGATGCTGAGG	.	PASS	Atlas-SNP
PRDM16	63976	hgsc.bcm.edu	37	1	3322139	3322139	+	Silent	SNP	C	C	T	rs61745281	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	36.0	56.0	0.0	0.545455	0	C|0.984;T|0.016	0.016	strong	.	PRDM16	147	.	NM_022114	exon8	c.C1113T	p.C371C	CGACTGCGGGAAG	.	PASS	Atlas-SNP
SPATA9	83890	hgsc.bcm.edu	37	5	95011166	95011166	+	Missense_Mutation	SNP	G	G	A	rs140676515	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	63.0	120.0	1.0	0.459854	0.00833333	G|0.998;A|0.002	0.002	strong	SPATA9,NS,carcinoma,+1,1	SPATA9	17	1	NM_031952	exon3	c.C328T	p.R110C	GCAGACGACCAGA	.	scavenged	Atlas-SNP
OR8K5	219453	hgsc.bcm.edu	37	11	55927591	55927591	+	Missense_Mutation	SNP	A	A	G	rs2512938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	68.0	126.0	0.0	0.492754	0	A|0.974;G|0.026	0.026	strong	.	OR8K5	82	.	NM_001004058	exon1	c.T203C	p.F68S	TCAACAAAAGCCA	.	PASS	Atlas-SNP
GSTO2	119391	hgsc.bcm.edu	37	10	106058940	106058940	+	Silent	SNP	C	C	T	rs157078	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	61.0	126.0	0.0	0.469231	0	C|0.952;T|0.048	0.048	strong	.	GSTO2	23	.	NM_183239	exon7	c.C630T	p.D210D	GTGGGACCCCACA	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240982200	240982200	+	Missense_Mutation	SNP	C	C	T	rs114958540	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	10.0	147.0	2.0	0.0588235	0.0136054	C|0.980;T|0.019	0.019	strong	PRR21,NS,carcinoma,+1,2	PRR21	53	2	NM_001080835	exon1	c.G200A	p.C67Y	AAGGGACATGGGT	.	scavenged	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15794470	15794470	+	Missense_Mutation	SNP	G	G	A	rs150943202	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	36.0	101.0	0.0	0.232258	0	G|0.989;A|0.011	0.011	strong	CYP4F12,NS,haematopoietic_neoplasm,+1,1	CYP4F12	89	1	NM_023944	exon7	c.G815A	p.R272Q	TCATCCGGGAGCG	.	PASS	Atlas-SNP
ENTPD5	957	hgsc.bcm.edu	37	14	74454675	74454675	+	Missense_Mutation	SNP	C	C	G	rs60372237	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	47.0	104.0	0.0	0.494737	0	C|0.997;G|0.003	0.003	strong	.	ENTPD5	26	.	NM_001249	exon4	c.G131C	p.S44T	CTGGCGCTGACAT	.	PASS	Atlas-SNP
DLG1	1739	hgsc.bcm.edu	37	3	196842831	196842831	+	Silent	SNP	A	A	G	rs79212676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	88.0	170.0	0.0	0.451282	0	A|0.990;G|0.010	0.010	strong	.	DLG1	120	.	NM_001098424	exon14	c.T1509C	p.S503S	CTCTCCACTTAGA	.	PASS	Atlas-SNP
C1orf95	375057	hgsc.bcm.edu	37	1	226785102	226785102	+	Splice_Site	SNP	A	A	G	rs73098850	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	101.0	171.0	0.0	0.492683	0	A|0.961;G|0.039	0.039	strong	.	C1orf95	16	.	NM_001003665	exon3	c.383-2A>G	.	CCCTGTATTTTCC	.	PASS	Atlas-SNP
AGPAT1	10554	hgsc.bcm.edu	37	6	32139186	32139186	+	Missense_Mutation	SNP	G	G	A	rs11964847	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	65.0	136.0	0.0	0.488722	0	G|0.995;A|0.005	0.005	strong	AGPAT1,NS,carcinoma,+1,1	AGPAT1	22	1	NM_006411	exon2	c.C88T	p.P30S	CACTGGGGCTGCA	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79929004	79929004	+	Missense_Mutation	SNP	C	C	T	rs140993797	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	62.0	77.0	0.0	0.659574	0	C|1.000;T|0.000	0.000	strong	.	VPS13A	735	.	NM_001018038	exon36	c.C4211T	p.T1404I	ATCTCACCATGGT	.	PASS	Atlas-SNP
XDH	7498	hgsc.bcm.edu	37	2	31598339	31598339	+	Silent	SNP	G	G	C	rs45612839	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	55.0	130.0	0.0	0.466102	0	G|0.936;C|0.064	0.064	strong	.	XDH	191	.	NM_000379	exon15	c.C1509G	p.G503G	CACCATGCCACCA	.	PASS	Atlas-SNP
PTGFRN	5738	hgsc.bcm.edu	37	1	117527444	117527444	+	Silent	SNP	C	C	T	rs17036676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	94.0	149.0	0.0	0.487047	0	C|0.994;T|0.006	0.006	strong	PTGFRN,NS,chondrosarcoma,+1,1	PTGFRN	91	1	NM_020440	exon8	c.C2310T	p.R770R	GGAGCGCGTGAGT	.	PASS	Atlas-SNP
TCOF1	6949	hgsc.bcm.edu	37	5	149755845	149755845	+	Silent	SNP	A	A	G	rs34796297	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	23.0	42.0	0.0	0.425926	0	A|0.984;G|0.016	0.016	strong	.	TCOF1	154	.	NM_001135243	exon13	c.A2094G	p.E698E	TGAGGAATCAGAT	.	PASS	Atlas-SNP
LCE3D	84648	hgsc.bcm.edu	37	1	152552311	152552311	+	Silent	SNP	G	G	A	rs149516289	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	263.0	137.0	271.0	0.0	0.520913	0	G|0.992;A|0.008	0.008	strong	.	LCE3D	28	.	NM_032563	exon2	c.C102T	p.S34S	GCCAGAGGAAGCT	.	PASS	Atlas-SNP
MSMP	692094	hgsc.bcm.edu	37	9	35754052	35754052	+	Missense_Mutation	SNP	C	C	T	rs189235807	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	63.0	161.0	0.0	0.453237	0	C|1.000;T|0.000	0.000	strong	.	MSMP	15	.	NM_001044264	exon1	c.G75A	p.M25I	TAGAGACATCACC	.	PASS	Atlas-SNP
KCNAB1	7881	hgsc.bcm.edu	37	3	155838488	155838488	+	Missense_Mutation	SNP	G	G	C	rs67167156	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	61.0	110.0	0.0	0.616162	0	G|0.981;C|0.019	0.019	strong	.	KCNAB1	176	.	NM_172160	exon1	c.G88C	p.G30R	GTAGCAGGGAAAG	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139391636	139391636	+	Silent	SNP	G	G	A	rs2229974	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	77.0	121.0	0.0	0.578947	0	G|0.341;A|0.659	0.659	strong	.	NOTCH1	1980	.	NM_017617	exon34	c.C6555T	p.D2185D	CTTGCCGTCCTGG	.	PASS	Atlas-SNP
HECW2	57520	hgsc.bcm.edu	37	2	197087061	197087061	+	Silent	SNP	T	T	C	rs16847486	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	55.0	79.0	0.0	0.591398	0	T|0.965;C|0.035	0.035	strong	.	HECW2	239	.	NM_020760	exon24	c.A4020G	p.L1340L	GTCACATAGACTA	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38964275	38964275	+	Missense_Mutation	SNP	A	A	G	rs34694816	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	10.0	11.0	0.0	0.416667	0	A|0.949;G|0.051	0.051	strong	.	RYR1	708	.	NM_001042723	exon28	c.A4024G	p.S1342G	GGCTGGAGCGAGG	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26422993	26422993	+	Silent	SNP	C	C	T	rs7290069	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	19.0	45.0	0.0	0.463415	0	C|0.968;T|0.032	0.032	strong	MYO18B,NS,carcinoma,+2,1	MYO18B	322	1	NM_032608	exon43	c.C7053T	p.C2351C	TTCCTGCGAGTCC	.	PASS	Atlas-SNP
S100A2	6273	hgsc.bcm.edu	37	1	153534027	153534027	+	Missense_Mutation	SNP	C	C	T	rs1047325	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	250.0	248.0	253.0	0.0	0.992	0	C|0.841;T|0.159	0.159	strong	.	S100A2	14	.	NM_005978	exon3	c.G182A	p.S61N	TCCAGGCTGCCCA	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50716068	50716068	+	Silent	SNP	C	C	T	rs11547732	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	95.0	153.0	0.0	0.505319	0	T|0.048;G|0.000;C|0.952;A|0.000	0.048	strong	.	PLXNB2	172	.	NM_012401	exon33	c.G5148A	p.A1716A	GGTCTGCGCGATG	.	PASS	Atlas-SNP
EPPIN-WFDC6	100526773	hgsc.bcm.edu	37	20	44174306	44174306	+	Silent	SNP	G	G	A	rs374858005		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	278.0	132.0	256.0	1.0	0.47482	0.00390625	.	.	weak	.	.	.	.	NM_001198986	exon2	c.C195T	p.C65C	TTTTCCGCAGCTG	.	PASS	Atlas-SNP
AP3D1	8943	hgsc.bcm.edu	37	19	2116616	2116616	+	Silent	SNP	T	T	C	rs73512353	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	27.0	67.0	0.0	0.457627	0	T|0.992;C|0.008	0.008	strong	.	AP3D1	81	.	NM_001261826	exon17	c.A1989G	p.E663E	CAGCTCTTCCTCG	.	PASS	Atlas-SNP
EEF1D	1936	hgsc.bcm.edu	37	8	144671489	144671489	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	25.0	59.0	0.0	0.390625	0	.	.	none	.	EEF1D	48	.	NM_001130053	exon3	c.C763G	p.P255A	CTGGGGGATGGCC	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45214661	45214661	+	Silent	SNP	G	G	A	rs111322439		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	23.0	5.0	27.0	0.0	0.217391	0	G|0.500;A|0.500	0.500	weak	CDC27_ENST00000531206,rectum,carcinoma,0,4	CDC27	337	4	NM_001114091	exon14	c.C1788T	p.F596F	TCTCTGGAAGAAT	.	scavenged	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238289842	238289842	+	Missense_Mutation	SNP	G	G	A	rs34741387	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	33.0	50.0	0.0	0.568965	0	G|0.991;A|0.009	0.009	strong	.	COL6A3	608	.	NM_004369	exon5	c.C1613T	p.T538M	GAACTCGTGAATA	.	PASS	Atlas-SNP
MRM1	79922	hgsc.bcm.edu	37	17	34958531	34958531	+	Missense_Mutation	SNP	C	C	T	rs60978234	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	8.0	21.0	0.0	0.380952	0	C|0.993;T|0.007	0.007	strong	MRM1,NS,haematopoietic_neoplasm,-2,1	MRM1	19	1	NM_024864	exon1	c.C292T	p.P98S	GACATTCCAGTTC	.	PASS	Atlas-SNP
ZSCAN18	65982	hgsc.bcm.edu	37	19	58597611	58597611	+	Missense_Mutation	SNP	G	G	C	rs147947490	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	48.0	90.0	0.0	0.45283	0	G|0.993;C|0.007	0.007	strong	.	ZSCAN18	104	.	NM_001145542	exon6	c.C936G	p.D312E	GGCAGCGTCAGGC	.	PASS	Atlas-SNP
GEN1	348654	hgsc.bcm.edu	37	2	17962117	17962117	+	Silent	SNP	T	T	A	rs61762986	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	57.0	109.0	0.0	0.491379	0	T|0.987;A|0.013	0.013	strong	.	GEN1	79	.	NM_182625	exon14	c.T1638A	p.S546S	CATGTCTTCTCTA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506462	195506462	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	39.0	113.0	0.0	0.458824	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,+2,2	MUC4	1505	2	NM_018406	exon2	c.C11989G	p.H3997D	TGGCGTGACCTGT	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4116697	4116697	+	Silent	SNP	G	G	A	rs61735695	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	56.0	134.0	0.0	0.434109	0	G|0.990;A|0.010	0.010	strong	SDK1,NS,carcinoma,+1,2	SDK1	361	2	NM_152744	exon21	c.G3078A	p.T1026T	CAGCACGACGCAC	.	PASS	Atlas-SNP
DAAM1	23002	hgsc.bcm.edu	37	14	59821936	59821936	+	Silent	SNP	C	C	T	rs61755340	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	280.0	126.0	275.0	0.0	0.45	0	C|0.993;T|0.007	0.007	strong	.	DAAM1	95	.	NM_014992	exon20	c.C2440T	p.L814L	CAGTTGCTGGAGG	.	PASS	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	37	5	180043439	180043439	+	Silent	SNP	G	G	A	rs56127961	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	94.0	154.0	0.0	0.487047	0	G|0.982;A|0.018	0.018	strong	.	FLT4	356	.	NM_182925	exon23	c.C3147T	p.D1049D	CACCACGTCGCTT	.	PASS	Atlas-SNP
ADAM12	8038	hgsc.bcm.edu	37	10	127824167	127824167	+	Silent	SNP	C	C	T	rs12098586	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	61.0	143.0	0.0	0.488	0	C|0.960;T|0.040	0.040	strong	.	ADAM12	388	.	NM_021641	exon5	c.G411A	p.T137T	AGAACACGTGCTG	.	PASS	Atlas-SNP
SIK2	23235	hgsc.bcm.edu	37	11	111594520	111594520	+	Silent	SNP	G	G	A	rs75997369	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	36.0	82.0	0.0	0.631579	0	G|0.997;A|0.003	0.003	strong	.	SIK2	89	.	NM_015191	exon15	c.G2448A	p.T816T	GCCCACGCAGCTA	.	PASS	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	37	2	71838661	71838661	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	31.0	79.0	0.0	0.469697	0	.	.	none	DYSF_ENST00000410020,NS,carcinoma,0,2	DYSF	536	2	NM_001130982	exon39	c.G4168A	p.V1390M	AGCCTCGTGGTAG	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	37	16	24802204	24802204	+	Silent	SNP	C	C	T	rs113288384	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	26.0	49.0	0.0	0.5	0	C|0.999;T|0.001	0.001	strong	.	TNRC6A	171	.	NM_014494	exon6	c.C2241T	p.D747D	GACTGACAATGGG	.	PASS	Atlas-SNP
ZNF474	133923	hgsc.bcm.edu	37	5	121487954	121487954	+	Missense_Mutation	SNP	G	G	A	rs116158782	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	56.0	131.0	0.0	0.4375	0	G|0.988;A|0.012	0.012	strong	.	ZNF474	43	.	NM_207317	exon2	c.G269A	p.R90H	CGGCCCGCAGGCC	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54721272	54721272	+	Missense_Mutation	SNP	C	C	T	rs114189491	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	418.0	208.0	602.0	0.0	0.497608	0	C|0.961;T|0.039	0.039	strong	.	LILRB3	67	.	NM_001081450	exon12	c.G1668A	p.M556I	AGAGGCCATTTCT	.	PASS	Atlas-SNP
ASPSCR1	79058	hgsc.bcm.edu	37	17	79943475	79943475	+	Silent	SNP	A	A	G	rs4796860	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	82.0	177.0	0.0	0.460674	0	A|0.983;G|0.017	0.017	strong	.	ASPSCR1	27	.	NM_001251888	exon4	c.A366G	p.P122P	TTTTCCACAGATC	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46760037	46760037	+	Missense_Mutation	SNP	G	G	A	rs6008777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	85.0	122.0	0.0	0.534591	0	G|0.971;A|0.029	0.029	strong	CELSR1,colon,carcinoma,+1,1	CELSR1	242	1	NM_014246	exon34	c.C8891T	p.S2964L	GTGCGCGAGGATG	.	PASS	Atlas-SNP
CLCA4	22802	hgsc.bcm.edu	37	1	87012929	87012929	+	Missense_Mutation	SNP	C	C	T	rs2231580	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	50.0	95.0	0.0	0.531915	0	C|0.971;T|0.029	0.029	strong	.	CLCA4	131	.	NM_012128	exon1	c.C127T	p.P43S	AGTGTGCCAGAAG	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124409630	124409630	+	Missense_Mutation	SNP	G	G	T	rs74845458	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	282.0	136.0	258.0	0.0	0.482269	0	G|0.958;T|0.042	0.042	strong	DNAH10_same_name,NS,carcinoma,0,2	DNAH10	888	2	NM_207437	exon67	c.G11446T	p.V3816F	TTTCCCGTCCCCT	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23929189	23929189	+	Missense_Mutation	SNP	C	C	G	rs190617851	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	44.0	86.0	0.0	0.473118	0	C|1.000;G|0.000	0.000	strong	.	SACS	871	.	NM_014363	exon8	c.G1562C	p.S521T	TCAGAGCTCTTTT	.	PASS	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91744348	91744348	+	Missense_Mutation	SNP	C	C	T	rs114849211	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	57.0	77.0	0.0	0.553398	0	C|0.994;T|0.006	0.006	strong	KIAA1509,caecum,carcinoma,-1,6	CCDC88C	192	6	NM_001080414	exon29	c.G4976A	p.R1659Q	CAGGGCCGCACTC	.	PASS	Atlas-SNP
WNT4	54361	hgsc.bcm.edu	37	1	22446768	22446768	+	Silent	SNP	G	G	A	rs34228276	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	103.0	179.0	0.0	0.504902	0	G|0.968;A|0.032	0.032	strong	.	WNT4	33	.	NM_030761	exon5	c.C831T	p.P277P	GAAGTCGGGGCTA	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88504483	88504483	+	Silent	SNP	C	C	G	rs375672779		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	50.0	77.0	0.0	0.617284	0	.	.	weak	.	ZNF469	121	.	NM_001127464	exon2	c.C10521G	p.T3507T	CGTGACCCACCCG	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10464465	10464465	+	Silent	SNP	G	G	A	rs112520779	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	43.0	52.0	0.0	0.661538	0	A|0.002;G|0.998;T|0.000	0.002	strong	RP1L1,NS,carcinoma,-2,1	RP1L1	453	1	NM_178857	exon4	c.C7143T	p.L2381L	GGGGGCGAGACTT	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11959	11959	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	8.0	8.0	0.0	0.888889	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.A1200G	p.M400M	CAACATACTAGTC	.	PASS	Atlas-SNP
ROBO1	6091	hgsc.bcm.edu	37	3	79174619	79174619	+	Silent	SNP	C	C	T	rs139237706	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	94.0	192.0	0.0	0.482051	0	C|0.998;T|0.002	0.002	strong	.	ROBO1	833	.	NM_002941	exon3	c.G159A	p.S53S	GCCCAGCGAATTG	.	PASS	Atlas-SNP
TGM6	343641	hgsc.bcm.edu	37	20	2411118	2411118	+	Missense_Mutation	SNP	T	T	A	rs142406714	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	41.0	57.0	0.0	0.585714	0	T|1.000;A|0.000	0.000	weak	.	TGM6	126	.	NM_198994	exon11	c.T1705A	p.Y569N	ATATCTTACTCTA	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19500830	19500830	+	Missense_Mutation	SNP	T	T	G	rs143098074	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	34.0	49.0	0.0	0.5	0	T|0.999;G|0.001	0.001	strong	.	UBR4	415	.	NM_020765	exon22	c.A2965C	p.K989Q	CATTCTTGTTTTC	.	PASS	Atlas-SNP
EIF2AK2	5610	hgsc.bcm.edu	37	2	37353464	37353464	+	Silent	SNP	A	A	G	rs2307478	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	79.0	196.0	0.0	0.519737	0	A|0.985;G|0.015	0.015	strong	.	EIF2AK2	54	.	NM_001135651	exon11	c.T876C	p.T292T	AACGTAAGTCTTT	.	PASS	Atlas-SNP
FTSJD2	23070	hgsc.bcm.edu	37	6	37426429	37426429	+	Silent	SNP	T	T	C	rs35608753	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	67.0	99.0	0.0	0.429487	0	T|0.986;C|0.014	0.014	strong	.	FTSJD2	64	.	NM_015050	exon9	c.T819C	p.F273F	GTACTTTGCTGAT	.	PASS	Atlas-SNP
ANKRD40	91369	hgsc.bcm.edu	37	17	48774319	48774319	+	Silent	SNP	G	G	A	rs3815378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	44.0	123.0	0.0	0.382609	0	G|0.963;A|0.037	0.037	strong	.	ANKRD40	35	.	NM_052855	exon4	c.C942T	p.P314P	AGTATTGGGTAAC	.	PASS	Atlas-SNP
FUCA1	2517	hgsc.bcm.edu	37	1	24189740	24189740	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	36.0	63.0	0.0	0.486486	0	.	.	none	.	FUCA1	24	.	NM_000147	exon3	c.C546T	p.Y182Y	TGAGTGGTATAGT	.	PASS	Atlas-SNP
PCDHB11	56125	hgsc.bcm.edu	37	5	140580958	140580958	+	Silent	SNP	C	C	A	rs74949746	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	433.0	213.0	284.0	0.0	0.491917	0	C|0.991;A|0.009	0.009	strong	PCDHB11,right_upper_lobe,carcinoma,+2,2	PCDHB11	162	2	NM_018931	exon1	c.C1611A	p.G537G	CCGCGGCTCCCCG	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7231280	7231280	+	Missense_Mutation	SNP	T	T	C	rs115093903	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	36.0	85.0	0.0	0.486486	0	T|0.989;C|0.011	0.011	strong	.	RREB1	242	.	NM_001003700	exon10	c.T2948C	p.L983S	TAACTTTGGGGCC	.	PASS	Atlas-SNP
ARMC12	221481	hgsc.bcm.edu	37	6	35705059	35705059	+	Silent	SNP	G	G	A	rs56183341	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	56.0	116.0	0.0	0.482759	0	G|0.992;A|0.008	0.008	strong	.	.	.	.	NM_145028	exon1	c.G174A	p.P58P	GTGTCCGGGCCCT	.	PASS	Atlas-SNP
GRIN3B	116444	hgsc.bcm.edu	37	19	1008704	1008704	+	Missense_Mutation	SNP	G	G	A	rs61744375	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	26.0	21.0	0.0	0.684211	0	G|0.965;A|0.035	0.035	strong	.	GRIN3B	46	.	NM_138690	exon7	c.G2554A	p.E852K	CTGGGCGAGCACG	.	PASS	Atlas-SNP
C2CD4D	100191040	hgsc.bcm.edu	37	1	151810486	151810486	+	Missense_Mutation	SNP	G	G	A	rs188475396	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	53.0	97.0	0.0	0.464912	0	G|0.994;A|0.006	0.006	strong	.	C2CD4D	3	.	NM_001136003	exon2	c.C980T	p.T327M	AGGGGCGTCTCGC	.	PASS	Atlas-SNP
RBM15	64783	hgsc.bcm.edu	37	1	110884493	110884493	+	Silent	SNP	T	T	C	rs61745292	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	60.0	120.0	0.0	0.428571	0	T|0.974;C|0.026	0.026	strong	.	RBM15	93	.	NM_022768	exon1	c.T2466C	p.T822T	TTCAACTGGAGGC	.	PASS	Atlas-SNP
C20orf26	26074	hgsc.bcm.edu	37	20	20340872	20340872	+	Missense_Mutation	SNP	A	A	G	rs75487354	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	29.0	63.0	0.0	0.467742	0	A|0.984;G|0.016	0.016	strong	.	C20orf26	188	.	NM_015585	exon27	c.A3532G	p.I1178V	CCTTCCATAGAGC	.	PASS	Atlas-SNP
ABCC5	10057	hgsc.bcm.edu	37	3	183696387	183696387	+	Silent	SNP	G	G	A	rs1053386	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	49.0	46.0	0.0	1	0	G|0.913;A|0.087	0.087	strong	.	ABCC5	142	.	NM_005688	exon9	c.C1200T	p.S400S	AGTGATGCTCTGG	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40399508	40399508	+	Missense_Mutation	SNP	C	C	T	rs6508919	bycluster;by2hit2allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	28.0	141.0	0.0	0.202899	0	.	.	weak	FCGBP,NS,carcinoma,0,1	FCGBP	416	1	NM_003890	exon13	c.G6187A	p.G2063S	GGCAGCCGTGCTG	.	scavenged	Atlas-SNP
PTGFRN	5738	hgsc.bcm.edu	37	1	117484581	117484581	+	Silent	SNP	C	C	T	rs77895792	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	199.0	100.0	205.0	0.0	0.502513	0	C|0.995;T|0.005	0.005	strong	.	PTGFRN	91	.	NM_020440	exon2	c.C294T	p.A98A	GACTGCCAACGAC	.	PASS	Atlas-SNP
SLC12A9	56996	hgsc.bcm.edu	37	7	100456506	100456506	+	Silent	SNP	C	C	T	rs78261122	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	90.0	148.0	0.0	0.459184	0	C|0.994;T|0.006	0.006	strong	.	SLC12A9	81	.	NM_001267812	exon6	c.C807T	p.S269S	TGCCAGCGTCTTT	.	PASS	Atlas-SNP
ECE2	9718	hgsc.bcm.edu	37	3	184005719	184005719	+	Missense_Mutation	SNP	G	G	A	rs35875049	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	30.0	65.0	1.0	0.46875	0.0153846	G|0.967;A|0.033	0.033	strong	ECE2_ENST00000402825,colon,carcinoma,0,3	ECE2	303	3	NM_014693	exon11	c.G1712A	p.R571Q	TTGACCGGCAAAG	.	scavenged	Atlas-SNP
ANKRD13B	124930	hgsc.bcm.edu	37	17	27939427	27939427	+	Silent	SNP	G	G	C	rs147156385	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	104.0	249.0	1.0	0.488263	0.00401606	G|0.998;C|0.002	0.002	strong	ANKRD13B,NS,carcinoma,0,1	ANKRD13B	39	1	NM_152345	exon12	c.G1266C	p.P422P	AATCCCGATCTTC	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11887	11887	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	12.0	6.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.G1128A	p.L376L	CCTACTGGGAGAA	.	PASS	Atlas-SNP
PCDHA7	56141	hgsc.bcm.edu	37	5	140216125	140216125	+	Silent	SNP	G	G	A	rs61730621	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	338.0	183.0	302.0	1.0	0.54142	0.00331126	G|0.982;A|0.018	0.018	strong	.	PCDHA7	367	.	NM_031852	exon1	c.G2157A	p.T719T	GTACACGGCGTTG	.	PASS	Atlas-SNP
NOD2	64127	hgsc.bcm.edu	37	16	50746191	50746191	+	Missense_Mutation	SNP	G	G	A	rs5743279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	67.0	102.0	0.0	0.536	0	G|0.989;A|0.011	0.011	strong	NOD2,colon,carcinoma,+1,2	NOD2	118	2	NM_022162	exon4	c.G2369A	p.R790Q	ACCTCCGGCGGCC	.	PASS	Atlas-SNP
SLC37A3	84255	hgsc.bcm.edu	37	7	140048445	140048445	+	Silent	SNP	G	G	A	rs73472776	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	29.0	57.0	0.0	0.517857	0	G|0.961;A|0.039	0.039	strong	.	SLC37A3	80	.	NM_207113	exon10	c.C1005T	p.Y335Y	AACGTCGTACCAA	.	PASS	Atlas-SNP
TBC1D24	57465	hgsc.bcm.edu	37	16	2546356	2546356	+	Silent	SNP	T	T	C	rs13339237	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	105.0	116.0	1.0	1	0.00862069	T|0.941;C|0.059	0.059	strong	.	TBC1D24	35	.	NM_001199107	exon2	c.T207C	p.P69P	CACGCCTGACGCC	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133759546	133759546	+	Silent	SNP	G	G	A	rs34717358	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	63.0	52.0	0.0	0.7875	0	G|0.971;A|0.029	0.029	strong	.	ABL1	1632	.	NM_007313	exon11	c.G1926A	p.E642E	CCGGGAGATGGAC	.	PASS	Atlas-SNP
CCDC107	203260	hgsc.bcm.edu	37	9	35661088	35661088	+	Silent	SNP	G	G	A	rs10441686	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	64.0	133.0	0.0	0.477612	0	G|0.925;A|0.075	0.075	strong	.	CCDC107	12	.	NM_174923	exon5	c.G756A	p.R252R	GAGAAGGTGCAGC	.	PASS	Atlas-SNP
GPR179	440435	hgsc.bcm.edu	37	17	36487060	36487060	+	Missense_Mutation	SNP	C	C	T	rs78470373	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	26.0	47.0	0.0	0.565217	0	C|0.995;T|0.005	0.005	strong	.	GPR179	170	.	NM_001004334	exon11	c.G2392A	p.A798T	GAGAGGCCTTCTT	.	PASS	Atlas-SNP
CLDND2	125875	hgsc.bcm.edu	37	19	51871157	51871157	+	Missense_Mutation	SNP	G	G	A	rs74538792	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	41.0	61.0	0.0	0.5125	0	G|0.968;A|0.032	0.032	strong	.	CLDND2	11	.	NM_152353	exon2	c.C293T	p.A98V	AGGAAGGCGCTCG	.	PASS	Atlas-SNP
SPRTN	83932	hgsc.bcm.edu	37	1	231487133	231487133	+	Silent	SNP	G	G	A	rs73116379	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	48.0	95.0	0.0	0.461538	0	G|0.983;A|0.017	0.017	strong	.	.	.	.	NM_032018	exon4	c.G534A	p.P178P	GCCACCGTATTAC	.	PASS	Atlas-SNP
DICER1	23405	hgsc.bcm.edu	37	14	95572111	95572111	+	Silent	SNP	A	A	C	rs12018992	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	47.0	127.0	0.0	0.408696	0	A|0.977;C|0.023	0.023	strong	.	DICER1	181	.	NM_030621	exon20	c.T2997G	p.L999L	TGTCAAAAGATTA	.	PASS	Atlas-SNP
C1orf106	55765	hgsc.bcm.edu	37	1	200860731	200860731	+	Silent	SNP	G	G	A	rs141245080	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	106.0	182.0	0.0	0.56383	0	A|0.008;C|0.001;G|0.991	0.008	strong	.	C1orf106	59	.	NM_018265	exon1	c.G105A	p.R35R	GGCTCGGGGGGAG	.	PASS	Atlas-SNP
PCDHGA2	56113	hgsc.bcm.edu	37	5	140719294	140719294	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	26.0	64.0	0.0	0.541667	0	.	.	none	.	PCDHGA2	205	.	NM_018915	exon1	c.G756A	p.P252P	CATTCCGGAGAAT	.	PASS	Atlas-SNP
PREPL	9581	hgsc.bcm.edu	37	2	44550528	44550528	+	Missense_Mutation	SNP	T	T	C	rs75128515	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	68.0	89.0	0.0	0.5	0	T|0.987;C|0.013	0.013	strong	.	PREPL	69	.	NM_001171603	exon12	c.A1769G	p.N590S	ATGGTGTTGAGAA	.	PASS	Atlas-SNP
CYP4B1	1580	hgsc.bcm.edu	37	1	47283814	47283814	+	Silent	SNP	T	T	C	rs74072926	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	95.0	202.0	0.0	0.508021	0	T|0.995;C|0.005	0.005	strong	CYP4B1,bladder,carcinoma,+1,2	CYP4B1	81	2	NM_001099772	exon11	c.T1284C	p.S428S	TGACTCTCTGCGC	.	PASS	Atlas-SNP
RTL1	388015	hgsc.bcm.edu	37	14	101347090	101347090	+	Missense_Mutation	SNP	C	C	T	rs73349352	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	86.0	153.0	0.0	0.49711	0	C|0.966;T|0.034	0.034	strong	.	RTL1	120	.	NM_001134888	exon1	c.G4036A	p.E1346K	GCTCTTCTAGCCT	.	PASS	Atlas-SNP
PCDH11X	27328	hgsc.bcm.edu	37	X	91090533	91090533	+	Silent	SNP	C	C	T	rs56704613	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	479.0	477.0	517.0	0.0	0.995825	0	C|0.922;T|0.078	0.078	strong	.	PCDH11X	714	.	NM_001168363	exon1	c.C30T	p.F10F	CATTTTCGCGGTC	.	PASS	Atlas-SNP
CD1E	913	hgsc.bcm.edu	37	1	158326645	158326645	+	Missense_Mutation	SNP	G	G	A	rs61734680	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	48.0	97.0	0.0	0.484848	0	G|0.978;A|0.022	0.022	strong	.	CD1E	129	.	NM_030893	exon6	c.G1126A	p.V376I	AACAGAGTATTGA	.	PASS	Atlas-SNP
NPY2R	4887	hgsc.bcm.edu	37	4	156135250	156135250	+	Silent	SNP	C	C	T	rs2342674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	272.0	133.0	262.0	0.0	0.488971	0	C|0.967;T|0.033	0.033	strong	.	NPY2R	87	.	NM_000910	exon2	c.C159T	p.L53L	TGTTCTCATATTG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548534	32548534	+	Missense_Mutation	SNP	C	C	T	rs71547382	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	439.0	28.0	191.0	0.0	0.0637813	0	C|1.000;|0.000	.	weak	.	HLA-DRB1	41	.	NM_002124	exon4	c.G752A	p.R251K	TGATTCCTGAAGT	.	PASS	Atlas-SNP
SLC35G3	146861	hgsc.bcm.edu	37	17	33520904	33520904	+	Silent	SNP	G	G	A	rs61753879	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	104.0	195.0	0.0	0.492891	0	G|0.977;A|0.023	0.023	strong	.	.	.	.	NM_152462	exon1	c.C423T	p.C141C	GGCGGAGCAGACG	.	PASS	Atlas-SNP
OR4F6	390648	hgsc.bcm.edu	37	15	102346030	102346030	+	Silent	SNP	G	G	A	rs401632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	279.0	135.0	267.0	1.0	0.483871	0.00374532	G|0.944;A|0.056	0.056	strong	.	OR4F6	45	.	NM_001005326	exon1	c.G108A	p.V36V	CTATGTGTCAAGC	.	PASS	Atlas-SNP
SPDYA	245711	hgsc.bcm.edu	37	2	29063342	29063342	+	Missense_Mutation	SNP	T	T	C	rs6747208	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	56.0	110.0	0.0	0.513761	0	T|0.993;C|0.007	0.007	strong	.	SPDYA	41	.	NM_001008779	exon5	c.T857C	p.I286T	GTATGATTTAGTA	.	PASS	Atlas-SNP
GPRC6A	222545	hgsc.bcm.edu	37	6	117130561	117130561	+	Silent	SNP	T	T	G	rs76688215	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	63.0	113.0	0.0	0.466667	0	T|0.984;G|0.016	0.016	strong	.	GPRC6A	152	.	NM_148963	exon2	c.A414C	p.P138P	AACTCTTGGCATG	.	PASS	Atlas-SNP
MYO10	4651	hgsc.bcm.edu	37	5	16673800	16673800	+	Silent	SNP	G	G	A	rs3188408	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	65.0	125.0	0.0	0.481481	0	G|0.980;A|0.020	0.020	strong	.	MYO10	198	.	NM_012334	exon36	c.C5163T	p.T1721T	CCCAGCGGTGGTG	.	PASS	Atlas-SNP
FAM9A	171482	hgsc.bcm.edu	37	X	8764370	8764370	+	Missense_Mutation	SNP	C	C	T	rs148031370	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	65.0	148.0	0.0	0.464286	0	C|0.996;T|0.004	0.004	strong	.	FAM9A	57	.	NM_174951	exon6	c.G427A	p.A143T	AAGCTGCTTTATC	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61830256	61830256	+	Silent	SNP	T	T	C	rs61732400	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	62.0	114.0	0.0	0.516667	0	T|0.970;C|0.030	0.030	strong	.	ANK3	703	.	NM_020987	exon37	c.A10383G	p.Q3461Q	TTTACTTTGGCTA	.	PASS	Atlas-SNP
TOX3	27324	hgsc.bcm.edu	37	16	52484317	52484317	+	Missense_Mutation	SNP	C	C	T	rs114182621	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	70.0	118.0	0.0	0.5	0	C|0.992;T|0.008	0.008	strong	.	TOX3	121	.	NM_001080430	exon4	c.G550A	p.A184T	ACTGGGCGCTGAG	.	PASS	Atlas-SNP
ZNF800	168850	hgsc.bcm.edu	37	7	127026184	127026184	+	Silent	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	42.0	72.0	0.0	0.506024	0	.	.	none	.	ZNF800	78	.	NM_176814	exon3	c.T87G	p.P29P	CAAAGGAGGATCT	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4512534	4512534	+	Missense_Mutation	SNP	C	C	T	rs61730732	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	227.0	100.0	182.0	0.0	0.440529	0	C|0.991;T|0.009	0.009	strong	.	PLIN4	191	.	NM_001080400	exon3	c.G1396A	p.A466T	CTTTGGCCACATT	.	PASS	Atlas-SNP
KRTAP5-9	3846	hgsc.bcm.edu	37	11	71259818	71259818	+	Missense_Mutation	SNP	G	G	A	rs146869772	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	324.0	145.0	293.0	0.0	0.447531	0	G|0.999;A|0.001	0.001	strong	KRTAP5-9,caecum,carcinoma,0,1	KRTAP5-9	19	1	NM_005553	exon1	c.G115A	p.V39I	GCACCCGTCTACT	.	PASS	Atlas-SNP
FAM149A	25854	hgsc.bcm.edu	37	4	187088170	187088170	+	Missense_Mutation	SNP	G	G	A	rs141044925	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	51.0	119.0	0.0	0.395349	0	G|0.995;A|0.005	0.005	strong	.	FAM149A	52	.	NM_001006655	exon11	c.G1213A	p.G405S	CCTGACGGTACAG	.	PASS	Atlas-SNP
TEKT2	27285	hgsc.bcm.edu	37	1	36551495	36551495	+	Missense_Mutation	SNP	T	T	C	rs419653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	65.0	143.0	0.0	0.40625	0	T|0.990;C|0.010	0.010	strong	.	TEKT2	32	.	NM_014466	exon4	c.T341C	p.I114T	TGGCCATTGAGTG	.	PASS	Atlas-SNP
GATA4	2626	hgsc.bcm.edu	37	8	11614559	11614559	+	Silent	SNP	A	A	G	rs112435835	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	132.0	301.0	0.0	0.509652	0	A|0.993;G|0.007	0.007	strong	.	GATA4	29	.	NM_002052	exon6	c.A1113G	p.S371S	CCTGTCATCTCAC	.	PASS	Atlas-SNP
DLC1	10395	hgsc.bcm.edu	37	8	13357331	13357331	+	Missense_Mutation	SNP	C	C	T	rs35173269	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	34.0	63.0	0.0	0.523077	0	C|0.981;T|0.019	0.019	strong	.	DLC1	411	.	NM_182643	exon2	c.G250A	p.D84N	CCACATCCTTTGA	.	PASS	Atlas-SNP
IFNA6	3443	hgsc.bcm.edu	37	9	21350487	21350487	+	Silent	SNP	G	G	A	rs61736258	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	361.0	179.0	371.0	0.0	0.495845	0	G|0.971;A|0.029	0.029	strong	.	IFNA6	27	.	NM_021002	exon1	c.C400T	p.L134L	TCATCAGGGGAGT	.	PASS	Atlas-SNP
MIA2	117153	hgsc.bcm.edu	37	14	39717002	39717002	+	Silent	SNP	A	A	G	rs17109049	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	46.0	41.0	0.0	1	0	A|0.921;G|0.079	0.079	strong	.	MIA2	82	.	NM_054024	exon4	c.A1224G	p.A408A	TGGGGCAGATGAA	.	PASS	Atlas-SNP
EHHADH	1962	hgsc.bcm.edu	37	3	184922267	184922267	+	Missense_Mutation	SNP	T	T	C	rs115754857	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	21.0	61.0	0.0	0.375	0	T|0.986;C|0.014	0.014	strong	.	EHHADH	73	.	NM_001966	exon6	c.A847G	p.T283A	AGGGAGTTGACCA	.	PASS	Atlas-SNP
URGCP-MRPS24	0	hgsc.bcm.edu	37	7	43908661	43908661	+	Missense_Mutation	SNP	G	G	T	rs17854882	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	73.0	83.0	0.0	0.483444	0	G|0.971;T|0.029	0.029	strong	.	.	.	.	NM_001204871	exon6	c.C257A	p.P86Q	GTACTCGGGCCGC	.	PASS	Atlas-SNP
CCDC102B	79839	hgsc.bcm.edu	37	18	66678182	66678182	+	Missense_Mutation	SNP	C	C	A	rs17080065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	50.0	97.0	0.0	0.568182	0	C|0.972;A|0.028	0.028	strong	.	CCDC102B	92	.	NM_001093729	exon9	c.C1275A	p.N425K	ACTGAACCTTCAA	.	PASS	Atlas-SNP
CXCR7	57007	hgsc.bcm.edu	37	2	237489796	237489796	+	Missense_Mutation	SNP	G	G	A	rs35095494	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	90.0	136.0	0.0	0.523256	0	G|0.984;A|0.016	0.016	strong	.	CXCR7	72	.	NM_020311	exon2	c.G688A	p.V230I	ATCGCTGTCTTCT	.	PASS	Atlas-SNP
GPR148	344561	hgsc.bcm.edu	37	2	131487691	131487691	+	Missense_Mutation	SNP	C	C	T	rs143265147	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	58.0	78.0	0.0	0.508772	0	C|0.996;T|0.004	0.004	strong	GPR148,NS,carcinoma,0,1	GPR148	54	1	NM_207364	exon1	c.C967T	p.R323C	CTGCTCCGCTACC	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24251659	24251659	+	Missense_Mutation	SNP	T	T	C	rs7007084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	32.0	76.0	0.0	0.492308	0	T|0.967;C|0.033	0.033	strong	.	ADAMDEC1	69	.	NM_014479	exon4	c.T362C	p.M121T	AGAACATGGTAGG	.	PASS	Atlas-SNP
CCT8L2	150160	hgsc.bcm.edu	37	22	17072347	17072347	+	Nonsense_Mutation	SNP	C	C	T	rs139948519	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	29.0	69.0	0.0	0.54717	0	C|0.982;T|0.018	0.018	strong	.	CCT8L2	150	.	NM_014406	exon1	c.G1094A	p.W365X	CATTCCCATTCAA	.	PASS	Atlas-SNP
TTC24	164118	hgsc.bcm.edu	37	1	156555577	156555577	+	Missense_Mutation	SNP	C	C	T	rs147693801	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	65.0	123.0	0.0	0.419355	0	C|0.994;T|0.006	0.006	strong	TTC24,right_upper_lobe,carcinoma,-1,1	TTC24	46	1	NM_001105669	exon9	c.C1529T	p.T510M	AGCACACGCCCTG	.	PASS	Atlas-SNP
U2SURP	23350	hgsc.bcm.edu	37	3	142747230	142747230	+	Silent	SNP	G	G	A	rs80238215	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	85.0	232.0	0.0	0.461957	0	G|0.991;A|0.009	0.009	strong	.	U2SURP	66	.	NM_001080415	exon15	c.G1428A	p.K476K	GTGGAAGCTTTAT	.	PASS	Atlas-SNP
HTR3E	285242	hgsc.bcm.edu	37	3	183824398	183824398	+	Missense_Mutation	SNP	G	G	A	rs13324468	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	283.0	146.0	328.0	0.0	0.515901	0	G|0.941;A|0.059	0.059	strong	.	HTR3E	65	.	NM_001256614	exon7	c.G1366A	p.A456T	AGCCACGCGATGG	.	PASS	Atlas-SNP
CBL	867	hgsc.bcm.edu	37	11	119170480	119170480	+	Missense_Mutation	SNP	G	G	A	rs17122769	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	30.0	72.0	0.0	0.434783	0	G|0.993;A|0.007	0.007	strong	.	CBL	408	.	NM_005188	exon16	c.G2710A	p.V904I	GCCCATGTAGCTA	.	PASS	Atlas-SNP
ZYG11A	440590	hgsc.bcm.edu	37	1	53326421	53326421	+	Missense_Mutation	SNP	A	A	G	rs61744306	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	246.0	103.0	255.0	0.0	0.418699	0	A|0.983;G|0.017	0.017	strong	.	ZYG11A	46	.	NM_001004339	exon4	c.A1027G	p.M343V	GCCAGTATGAGTC	.	PASS	Atlas-SNP
EIF3K	27335	hgsc.bcm.edu	37	19	39125677	39125677	+	Missense_Mutation	SNP	G	G	A	rs138580388	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	46.0	70.0	0.0	0.433962	0	G|0.998;A|0.002	0.002	strong	.	EIF3K	22	.	NM_013234	exon7	c.G544A	p.D182N	AGTGCCGACGAGT	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102106459	102106459	+	Silent	SNP	G	G	A	rs146433593	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	56.0	96.0	0.0	0.518519	0	G|0.995;A|0.005	0.005	strong	.	LRWD1	41	.	NM_152892	exon2	c.G276A	p.K92K	CCCCAAGCTCGAG	.	PASS	Atlas-SNP
ZNF611	81856	hgsc.bcm.edu	37	19	53219140	53219140	+	Missense_Mutation	SNP	C	C	T	rs146379839	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	13.0	54.0	0.0	0.351351	0	C|0.999;T|0.001	0.001	strong	.	ZNF611	72	.	NM_030972	exon5	c.G8A	p.R3H	TCCTCACGTAACA	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	842972	842972	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	50.0	63.0	0.0	0.490196	0	.	.	none	.	CHTF18	52	.	NM_022092	exon13	c.C1579G	p.L527V	GTCTCCCTGCGGC	.	PASS	Atlas-SNP
ZC3H18	124245	hgsc.bcm.edu	37	16	88643806	88643806	+	Missense_Mutation	SNP	C	C	G	rs114866066	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	31.0	18.0	43.0	0.0	0.580645	0	C|0.999;G|0.001	0.001	strong	.	ZC3H18	90	.	NM_144604	exon2	c.C275G	p.P92R	GGGGCCCGACCAG	.	PASS	Atlas-SNP
ETV7	51513	hgsc.bcm.edu	37	6	36339176	36339176	+	Missense_Mutation	SNP	C	C	T	rs34306145	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	20.0	58.0	0.0	0.408163	0	C|0.987;T|0.013	0.013	strong	.	ETV7	31	.	NM_001207035	exon5	c.G595A	p.G199S	TGCAGCCGAGCTC	.	PASS	Atlas-SNP
ZNF658	26149	hgsc.bcm.edu	37	9	40774091	40774091	+	Missense_Mutation	SNP	C	C	T	rs79262629	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	543.0	183.0	532.0	2.0	0.337017	0.0037594	C|0.990;T|0.010	0.010	strong	ZNF658,lower_third,carcinoma,-1,1	ZNF658	100	1	NM_033160	exon5	c.G1184A	p.R395Q	GCTTTCCGGTAAA	.	scavenged	Atlas-SNP
MTA1	9112	hgsc.bcm.edu	37	14	105931109	105931109	+	Silent	SNP	C	C	T	rs36015555	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	39.0	42.0	0.0	0.65	0	C|0.947;T|0.053	0.053	strong	.	MTA1	61	.	NM_004689	exon15	c.C1443T	p.I481I	GCGGATCGCCCGG	.	PASS	Atlas-SNP
TRIP11	9321	hgsc.bcm.edu	37	14	92474136	92474136	+	Missense_Mutation	SNP	C	C	T	rs372171033		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	35.0	127.0	0.0	0.421687	0	.	.	weak	.	TRIP11	184	.	NM_004239	exon10	c.G1375A	p.A459T	TTGTAGCTGTACT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284457	152284457	+	Missense_Mutation	SNP	T	T	A	rs3120652	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	538.0	214.0	446.0	0.0	0.39777	0	T|0.942;A|0.058	0.058	strong	.	FLG	900	.	NM_002016	exon3	c.A2905T	p.N969Y	GATGGTTTCTGGA	.	PASS	Atlas-SNP
SPG7	6687	hgsc.bcm.edu	37	16	89623301	89623301	+	Missense_Mutation	SNP	A	A	G	rs35749032	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	45.0	91.0	0.0	0.483871	0	A|0.982;G|0.018	0.018	strong	.	SPG7	75	.	NM_003119	exon17	c.A2188G	p.N730D	CTGGCAAACGCCC	.	PASS	Atlas-SNP
RPAP1	26015	hgsc.bcm.edu	37	15	41815063	41815063	+	Missense_Mutation	SNP	C	C	T	rs61748721	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	29.0	44.0	0.0	0.568627	0	C|0.958;T|0.042	0.042	strong	.	RPAP1	111	.	NM_015540	exon19	c.G2642A	p.R881H	CTGAGACGGGGGC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81208473	81208473	+	Missense_Mutation	SNP	G	G	T	rs115666278	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	43.0	84.0	0.0	0.477778	0	G|0.963;T|0.037	0.037	strong	.	PKD1L2	361	.	NM_001076780	exon16	c.C2630A	p.A877D	GACACGGCAGCCT	.	PASS	Atlas-SNP
NLRP6	171389	hgsc.bcm.edu	37	11	284299	284299	+	Silent	SNP	A	A	G	rs7108261	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	42.0	67.0	1.0	0.446809	0.0149254	A|0.837;G|0.163	0.163	strong	NALP6,NS,carcinoma,+1,1	NLRP6	4	1	NM_138329	exon6	c.A2271G	p.A757A	CCCCGCACTGACG	.	scavenged	Atlas-SNP
COPG1	22820	hgsc.bcm.edu	37	3	128984409	128984409	+	Silent	SNP	G	G	A	rs78889622	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	63.0	126.0	0.0	0.45	0	G|0.973;A|0.027	0.027	strong	.	.	.	.	NM_016128	exon14	c.G1242A	p.K414K	GTATAAGCGCGCT	.	PASS	Atlas-SNP
MIS18BP1	55320	hgsc.bcm.edu	37	14	45693648	45693648	+	Silent	SNP	G	G	A	rs35223850	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	42.0	115.0	0.0	0.494118	0	G|0.954;A|0.046	0.046	strong	.	MIS18BP1	92	.	NM_018353	exon11	c.C2142T	p.C714C	TTCATCGCAATCT	.	PASS	Atlas-SNP
KIAA1731	85459	hgsc.bcm.edu	37	11	93460264	93460264	+	Missense_Mutation	SNP	C	C	G	rs61740994	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	83.0	185.0	0.0	0.51875	0	C|0.989;G|0.011	0.011	strong	.	KIAA1731	173	.	NM_033395	exon24	c.C6622G	p.Q2208E	AAAAATCAGAACT	.	PASS	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	37	1	223984072	223984072	+	Silent	SNP	G	G	A	rs141654811	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	112.0	283.0	0.0	0.453441	0	G|1.000;A|0.000	0.000	strong	.	TP53BP2	144	.	NM_001031685	exon13	c.C2169T	p.D723D	TTCTAGGTCAGCA	.	PASS	Atlas-SNP
LRPPRC	10128	hgsc.bcm.edu	37	2	44175293	44175293	+	Silent	SNP	G	G	A	rs35881858	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	19.0	32.0	0.0	0.358491	0	G|0.983;A|0.017	0.017	strong	.	LRPPRC	105	.	NM_133259	exon18	c.C1888T	p.L630L	TTTCCAGGAGATT	.	PASS	Atlas-SNP
TJP1	7082	hgsc.bcm.edu	37	15	30012209	30012209	+	Silent	SNP	A	A	C	rs376115263	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	41.0	80.0	0.0	0.476744	0	.	.	weak	.	TJP1	140	.	NM_003257	exon20	c.T2775G	p.A925A	AGATGAAGCTTCT	.	PASS	Atlas-SNP
FUT7	2529	hgsc.bcm.edu	37	9	139925459	139925459	+	Silent	SNP	G	G	A	rs11145973	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	71.0	76.0	0.0	0.72449	0	G|0.993;A|0.007	0.007	strong	.	FUT7	24	.	NM_004479	exon2	c.C732T	p.N244N	CAGTGCGTTGCGC	.	PASS	Atlas-SNP
CLEC2L	154790	hgsc.bcm.edu	37	7	139225215	139225215	+	Silent	SNP	T	T	C	rs112553913	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	67.0	139.0	0.0	0.531746	0	T|0.972;C|0.028	0.028	strong	.	CLEC2L	14	.	NM_001080511	exon3	c.T414C	p.I138I	TGTGATTCAGAGC	.	PASS	Atlas-SNP
CYTH2	9266	hgsc.bcm.edu	37	19	48977189	48977189	+	Silent	SNP	C	C	T	rs28582663	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	74.0	89.0	0.0	1	0	C|0.982;T|0.018	0.018	strong	.	CYTH2	33	.	NM_017457	exon6	c.C462T	p.P154P	CCTACCCGGAGAG	.	PASS	Atlas-SNP
ADORA3	140	hgsc.bcm.edu	37	1	112045709	112045709	+	Missense_Mutation	SNP	G	G	C	rs77883500	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	291.0	135.0	262.0	0.0	0.463918	0	G|0.985;C|0.015	0.015	strong	.	ADORA3	104	.	NM_020683	exon1	c.C268G	p.L90V	TAAGCAGTAGGCA	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	15139	15139	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	17.0	17.0	15.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.T393C	p.Y131Y	AGGCTATGTCCTC	.	PASS	Atlas-SNP
CBLC	23624	hgsc.bcm.edu	37	19	45281375	45281375	+	Missense_Mutation	SNP	C	C	T	rs115775900	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	10.0	8.0	6.0	0.0	0.8	0	C|0.983;T|0.017	0.017	strong	.	CBLC	41	.	NM_001130852	exon1	c.C187T	p.R63W	TCTCGGCGGGCGG	.	PASS	Atlas-SNP
ETNK2	55224	hgsc.bcm.edu	37	1	204109238	204109238	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	53.0	100.0	0.0	0.477477	0	.	.	none	ETNK2_ENST00000367202,NS,carcinoma,0,2	ETNK2	48	2	NM_018208	exon5	c.C793T	p.R265W	TGAACCGCACGTG	.	PASS	Atlas-SNP
COL1A2	1278	hgsc.bcm.edu	37	7	94028386	94028386	+	Missense_Mutation	SNP	G	G	A	rs139528613	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	44.0	81.0	0.0	0.578947	0	G|0.996;A|0.004	0.004	strong	.	COL1A2	240	.	NM_000089	exon4	c.G122A	p.R41H	GACCACGTGGAGA	.	PASS	Atlas-SNP
RETSAT	54884	hgsc.bcm.edu	37	2	85570440	85570440	+	Silent	SNP	G	G	A	rs150706527	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	328.0	73.0	299.0	0.0	0.222561	0	G|0.996;A|0.004	0.004	strong	RETSAT,NS,carcinoma,-2,1	RETSAT	56	1	NM_017750	exon11	c.C1758T	p.A586A	CAGGATGGCGCTG	.	PASS	Atlas-SNP
DHX9	1660	hgsc.bcm.edu	37	1	182827297	182827297	+	Silent	SNP	G	G	A	rs73063095	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	76.0	178.0	0.0	0.439306	0	G|0.986;A|0.014	0.014	strong	.	DHX9	114	.	NM_001357	exon8	c.G732A	p.L244L	TGCCCTGTCACTT	.	PASS	Atlas-SNP
GALNT9	50614	hgsc.bcm.edu	37	12	132681664	132681664	+	Silent	SNP	G	G	A	rs111344752	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	64.0	134.0	0.0	0.496124	0	G|0.990;A|0.010	0.010	strong	.	GALNT9	74	.	NM_001122636	exon11	c.C1800T	p.H600H	CCGTGCGTGTTTG	.	PASS	Atlas-SNP
EPB41	2035	hgsc.bcm.edu	37	1	29391505	29391505	+	Silent	SNP	G	G	A	rs79677225	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	25.0	79.0	0.0	0.403226	0	G|0.991;A|0.009	0.009	strong	.	EPB41	118	.	NM_001166005	exon16	c.G2019A	p.K673K	AGACAAGAGTCAA	.	PASS	Atlas-SNP
PPP6R3	55291	hgsc.bcm.edu	37	11	68341661	68341661	+	Silent	SNP	C	C	A	rs114505709	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	23.0	54.0	0.0	0.338235	0	C|0.991;A|0.009	0.009	strong	.	PPP6R3	159	.	NM_001164162	exon13	c.C1428A	p.P476P	GGGCCCCAACAGT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284382	152284382	+	Missense_Mutation	SNP	C	C	T	rs149595328	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	674.0	50.0	581.0	0.0	0.074184	0	C|0.995;T|0.005	0.005	strong	FLG,NS,carcinoma,+1,2	FLG	900	2	NM_002016	exon3	c.G2980A	p.G994S	CGTGACCGGCTCT	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64604634	64604634	+	Silent	SNP	T	T	C	rs8007874	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	51.0	107.0	0.0	0.536842	0	T|0.941;C|0.059	0.059	strong	.	SYNE2	577	.	NM_182914	exon79	c.T14776C	p.L4926L	CAGTGGTTGTCCC	.	PASS	Atlas-SNP
TMPRSS9	360200	hgsc.bcm.edu	37	19	2389813	2389813	+	Silent	SNP	C	C	T	rs8100380	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	45.0	81.0	0.0	0.523256	0	C|0.948;T|0.052	0.052	strong	.	TMPRSS9	79	.	NM_182973	exon1	c.C30T	p.L10L	ACACCTCGTGCCC	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141329059	141329059	+	Missense_Mutation	SNP	T	T	G	rs61737141	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	52.0	93.0	0.0	0.553191	0	T|0.989;G|0.011	0.011	strong	.	PCDH12	133	.	NM_016580	exon3	c.A3068C	p.E1023A	AGGTCCTCTTCAG	.	PASS	Atlas-SNP
ZNF257	113835	hgsc.bcm.edu	37	19	22256358	22256358	+	Missense_Mutation	SNP	A	A	G	rs73930397	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	27.0	57.0	0.0	0.473684	0	A|0.967;G|0.033	0.033	strong	.	ZNF257	156	.	NM_033468	exon3	c.A218G	p.K73R	TAGCCAAACCCCC	.	PASS	Atlas-SNP
IMPA2	3613	hgsc.bcm.edu	37	18	12009913	12009913	+	Missense_Mutation	SNP	G	G	A	rs16976948	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	55.0	98.0	0.0	0.495495	0	G|0.979;A|0.021	0.021	strong	.	IMPA2	27	.	NM_014214	exon3	c.G262A	p.A88T	TCTGGGGCCAAGT	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324410	39324410	+	Silent	SNP	G	G	A	rs73985507	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	211.0	148.0	0.0	1	0	G|0.944;A|0.056	0.056	strong	.	KRTAP4-3	40	.	NM_033187	exon1	c.C15T	p.C5C	GCCACAGCAGGAG	.	PASS	Atlas-SNP
CCL4L1	9560	hgsc.bcm.edu	37	17	34641448	34641448	+	Splice_Site	SNP	A	A	G	rs4796195	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	334.0	28.0	871.0	0.0	0.0838323	0	G|1.000;|0.000	1.000	weak	CCL4L2,NS,carcinoma,0,1	.	.	1	NM_001001435	exon3	c.192-2A>G	.	TTCTACAGATTCC	.	scavenged	Atlas-SNP
ALOX5AP	241	hgsc.bcm.edu	37	13	31309719	31309719	+	Missense_Mutation	SNP	C	C	T	rs17245407	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	75.0	77.0	0.0	0.590551	0	C|0.968;T|0.032	0.032	strong	.	ALOX5AP	12	.	NM_001204406	exon2	c.C148T	p.L50F	GCAGTCCTCTCTG	.	PASS	Atlas-SNP
ACAD8	27034	hgsc.bcm.edu	37	11	134131033	134131033	+	Silent	SNP	C	C	T	rs36115758	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	57.0	132.0	0.0	0.483051	0	C|0.993;T|0.007	0.007	strong	.	ACAD8	33	.	NM_014384	exon7	c.C801T	p.L267L	CTTCCTCATTGCC	.	PASS	Atlas-SNP
RTN4RL1	146760	hgsc.bcm.edu	37	17	1840079	1840079	+	Missense_Mutation	SNP	C	C	T	rs143202933	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	71.0	129.0	0.0	0.449367	0	C|0.997;T|0.003	0.003	strong	.	RTN4RL1	21	.	NM_178568	exon2	c.G1037A	p.R346Q	CCGGGCCGGGGGC	.	PASS	Atlas-SNP
SLC4A4	8671	hgsc.bcm.edu	37	4	72338467	72338467	+	Silent	SNP	C	C	T	rs35169468	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	52.0	117.0	0.0	0.419355	0	C|0.988;T|0.012	0.012	strong	.	SLC4A4	269	.	NM_001098484	exon14	c.C1683T	p.S561S	GTGGTCCGCCTTC	.	PASS	Atlas-SNP
LUZP1	7798	hgsc.bcm.edu	37	1	23419806	23419806	+	Missense_Mutation	SNP	A	A	C	rs12091554	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	169.0	79.0	216.0	0.0	0.467456	0	A|0.952;C|0.048	0.048	strong	.	LUZP1	83	.	NM_033631	exon4	c.T949G	p.S317A	TTTTGGACTTCAT	.	PASS	Atlas-SNP
DYX1C1	161582	hgsc.bcm.edu	37	15	55790414	55790414	+	Missense_Mutation	SNP	G	G	T	rs16976354	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	53.0	110.0	0.0	0.401515	0	G|0.928;T|0.072	0.072	strong	.	DYX1C1	54	.	NM_001033560	exon2	c.C114A	p.N38K	CAGATAGTTTTCC	.	PASS	Atlas-SNP
NPR3	4883	hgsc.bcm.edu	37	5	32712119	32712119	+	Silent	SNP	T	T	C	rs6859964	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	61.0	99.0	0.0	0.491935	0	T|0.956;C|0.044	0.044	strong	.	NPR3	65	.	NM_000908	exon1	c.T237C	p.A79A	GTATGCTCTGCGC	.	PASS	Atlas-SNP
WDR96	80217	hgsc.bcm.edu	37	10	105906077	105906077	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	85.0	127.0	0.0	0.508982	0	.	.	none	WDR96,NS,carcinoma,+1,1	WDR96	183	1	NM_025145	exon30	c.A3799G	p.R1267G	CTTCTCTAGATTT	.	PASS	Atlas-SNP
CCNI	10983	hgsc.bcm.edu	37	4	77976374	77976374	+	Missense_Mutation	SNP	C	C	T	rs4252903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	102.0	171.0	0.0	0.463636	0	C|0.992;T|0.008	0.008	strong	.	CCNI	22	.	NM_006835	exon6	c.G619A	p.V207I	GACTAACCATGGC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179416659	179416659	+	Missense_Mutation	SNP	C	C	T	rs11887722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	56.0	84.0	0.0	0.513761	0	C|0.949;T|0.051	0.051	strong	.	TTN	18412	.	NM_001267550	exon335	c.G90968A	p.R30323K	GGAATCCTGAACT	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17083797	17083797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	339.0	162.0	221.0	0.0	0.477876	0	.	.	none	.	.	.	.	NM_001271733	exon15	c.G2000A	p.R667H	GGCCAGCGCGACC	.	PASS	Atlas-SNP
TENM1	10178	hgsc.bcm.edu	37	X	123838882	123838882	+	Silent	SNP	C	C	T	rs138596900	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	40.0	131.0	0.0	0.3125	0	C|0.979;T|0.021	0.021	strong	.	.	.	.	NM_001163278	exon5	c.G996A	p.L332L	TAGTAACAAGGCC	.	PASS	Atlas-SNP
PGAM2	5224	hgsc.bcm.edu	37	7	44104913	44104913	+	Silent	SNP	G	G	A	rs111656877	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	57.0	109.0	0.0	0.471074	0	G|0.984;A|0.016	0.016	strong	.	PGAM2	20	.	NM_000290	exon1	c.C216T	p.D72D	CGTGCCGTCCAGG	.	PASS	Atlas-SNP
RAP1GAP2	23108	hgsc.bcm.edu	37	17	2911352	2911352	+	Silent	SNP	C	C	T	rs36016465	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	72.0	74.0	0.0	0.5625	0	C|0.988;T|0.012	0.012	strong	.	RAP1GAP2	90	.	NM_015085	exon17	c.C1407T	p.H469H	GCTCCACGCCCAC	.	PASS	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43152366	43152366	+	Silent	SNP	C	C	A	rs41274928	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	95.0	156.0	0.0	0.516304	0	C|0.948;A|0.052	0.052	strong	.	CUL9	248	.	NM_015089	exon2	c.C318A	p.G106G	AGGAGGCCTGGAT	.	PASS	Atlas-SNP
HMGXB3	22993	hgsc.bcm.edu	37	5	149404213	149404213	+	Missense_Mutation	SNP	G	G	T	rs115942845	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	34.0	57.0	0.0	0.566667	0	G|0.995;T|0.005	0.005	strong	.	HMGXB3	31	.	NM_014983	exon7	c.G1430T	p.S477I	CCTCCAGTCCACT	.	PASS	Atlas-SNP
NLRP7	199713	hgsc.bcm.edu	37	19	55451083	55451083	+	Silent	SNP	A	A	G	rs1654636	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	18.0	199.0	0.0	0.191489	0	A|0.949;G|0.051	0.051	strong	NLRP7_ENST00000328092,NS,carcinoma,-2,2	NLRP7	411	2	NM_001127255	exon4	c.T1104C	p.I368I	GCACACAATCCAG	.	scavenged	Atlas-SNP
KRTAP13-2	337959	hgsc.bcm.edu	37	21	31744456	31744456	+	Missense_Mutation	SNP	G	G	A	rs16986753	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	116.0	273.0	0.0	0.469636	0	G|0.989;A|0.011	0.011	strong	.	KRTAP13-2	29	.	NM_181621	exon1	c.C76T	p.R26C	AGCCACGTGAGGA	.	PASS	Atlas-SNP
OC90	729330	hgsc.bcm.edu	37	8	133053909	133053909	+	Silent	SNP	G	G	C	rs115883855	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	70.0	121.0	0.0	0.503597	0	G|0.989;C|0.011	0.011	strong	OC90_ENST00000262283,caecum,carcinoma,0,2	OC90	163	2	NM_001080399	exon5	c.C207G	p.V69V	GGTGAAGACAGCC	.	PASS	Atlas-SNP
TAF2	6873	hgsc.bcm.edu	37	8	120793332	120793332	+	Silent	SNP	T	T	C	rs28619538	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	36.0	75.0	0.0	0.580645	0	T|0.977;C|0.023	0.023	strong	.	TAF2	204	.	NM_003184	exon17	c.A2214G	p.T738T	GTTGTTTGTTTTC	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32093079	32093079	+	Silent	SNP	A	A	G	rs16889443	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	100.0	144.0	0.0	0.515464	0	A|0.932;G|0.068	0.068	strong	.	PDZD2	306	.	NM_178140	exon20	c.A7794G	p.G2598G	AGTGGGATCGAAA	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746722	143746722	+	Silent	SNP	G	G	A	rs60195180	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	43.0	99.0	0.0	0.401869	0	G|0.992;A|0.008	0.008	strong	.	.	.	.	NM_003724	exon2	c.C756T	p.V252V	ATAGGCGACGGGC	.	PASS	Atlas-SNP
ADRBK1	156	hgsc.bcm.edu	37	11	67052322	67052322	+	Silent	SNP	C	C	T	rs115867067	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	25.0	52.0	0.0	0.328947	0	C|0.987;T|0.013	0.013	strong	.	ADRBK1	51	.	NM_001619	exon19	c.C1659T	p.Y553Y	AGACTACGCCCTG	.	PASS	Atlas-SNP
JARID2	3720	hgsc.bcm.edu	37	6	15517415	15517415	+	Silent	SNP	C	C	T	rs11970076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	74.0	78.0	0.0	0.544118	0	C|0.983;T|0.017	0.017	strong	.	JARID2	135	.	NM_004973	exon17	c.C3474T	p.V1158V	AAACGTCGTGTTC	.	PASS	Atlas-SNP
ZNF582	147948	hgsc.bcm.edu	37	19	56901457	56901457	+	Missense_Mutation	SNP	C	C	T	rs61743722	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	44.0	83.0	0.0	0.473118	0	C|0.972;T|0.028	0.028	strong	.	ZNF582	56	.	NM_144690	exon4	c.G145A	p.V49I	TGGAAACGGCAAG	.	PASS	Atlas-SNP
TTC8	123016	hgsc.bcm.edu	37	14	89343670	89343670	+	Silent	SNP	G	G	C	rs142073418	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	54.0	119.0	0.0	0.45	0	G|0.997;C|0.003	0.003	strong	TTC8,NS,carcinoma,+2,1	TTC8	42	1	NM_144596	exon15	c.G1464C	p.A488A	TGCTGCGCAGAAG	.	PASS	Atlas-SNP
POLM	27434	hgsc.bcm.edu	37	7	44116207	44116207	+	Missense_Mutation	SNP	C	C	A	rs28382653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	42.0	69.0	0.0	0.451613	0	C|0.983;A|0.017	0.017	strong	.	POLM	50	.	NM_013284	exon6	c.G736T	p.V246F	CACCGACCCCGAA	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46009620	46009620	+	Silent	SNP	C	C	T	rs34147726	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	59.0	149.0	0.0	0.42446	0	C|0.907;T|0.093	0.093	strong	.	FYCO1	115	.	NM_024513	exon8	c.G1206A	p.E402E	CCCTAGCTCCTGC	.	PASS	Atlas-SNP
KIAA1804	0	hgsc.bcm.edu	37	1	233489682	233489682	+	Silent	SNP	G	G	A	rs56268427	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	212.0	107.0	200.0	0.0	0.504717	0	G|0.951;A|0.049	0.049	strong	.	KIAA1804	129	.	NM_032435	exon3	c.G1116A	p.P372P	TGAGCCGTTTGCC	.	PASS	Atlas-SNP
ZSWIM1	90204	hgsc.bcm.edu	37	20	44512013	44512013	+	Missense_Mutation	SNP	C	C	G	rs115926000	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	106.0	172.0	0.0	0.522168	0	C|0.998;G|0.002	0.002	strong	.	ZSWIM1	35	.	NM_080603	exon2	c.C782G	p.T261S	AGGTCACCACCCA	.	PASS	Atlas-SNP
NEIL2	252969	hgsc.bcm.edu	37	8	11643731	11643731	+	Silent	SNP	G	G	A	rs113110839	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	126.0	199.0	0.0	0.53617	0	G|0.996;A|0.004	0.004	strong	.	NEIL2	14	.	NM_001135746	exon5	c.G948A	p.P316P	GTGCCCGCAGTGC	.	PASS	Atlas-SNP
OR10Z1	128368	hgsc.bcm.edu	37	1	158576394	158576394	+	Missense_Mutation	SNP	C	C	A	rs116792162	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	368.0	182.0	316.0	0.0	0.494565	0	C|0.992;A|0.008	0.008	strong	OR10Z1,right_upper_lobe,carcinoma,-1,1	OR10Z1	99	1	NM_001004478	exon1	c.C166A	p.H56N	CATCTGCACACCC	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133887676	133887676	+	Missense_Mutation	SNP	T	T	C	rs35356262	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	37.0	99.0	0.0	0.45679	0	T|0.999;C|0.001	0.001	strong	.	NCKAP5	322	.	NM_207481	exon6	c.A215G	p.K72R	ATCAGCTTCTCAT	.	PASS	Atlas-SNP
MAGEA8	4107	hgsc.bcm.edu	37	X	149013963	149013963	+	Missense_Mutation	SNP	C	C	T	rs12010332	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	293.0	293.0	284.0	0.0	1	0	C|0.947;T|0.053	0.053	strong	.	MAGEA8	40	.	NM_005364	exon3	c.C917T	p.S306F	ACCCATCCCTGCA	.	PASS	Atlas-SNP
ZNF500	26048	hgsc.bcm.edu	37	16	4810583	4810583	+	Missense_Mutation	SNP	C	C	T	rs151148153	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	45.0	103.0	0.0	0.416667	0	C|0.995;T|0.005	0.005	strong	.	ZNF500	45	.	NM_021646	exon5	c.G670A	p.V224M	AGTTCACGGGCAC	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	37	17	5085758	5085758	+	Silent	SNP	G	G	A	rs144567321	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	16.0	138.0	0.0	0.173913	0	G|0.994;A|0.006	0.006	strong	ZNF594,colon,carcinoma,-2,3	ZNF594	89	3	NM_032530	exon2	c.C1794T	p.C598C	TTCTTTGCATTCA	.	PASS	Atlas-SNP
COMMD8	54951	hgsc.bcm.edu	37	4	47462210	47462210	+	Missense_Mutation	SNP	A	A	C	rs114141818	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	108.0	119.0	0.0	1	0	A|0.985;C|0.015	0.015	strong	.	COMMD8	15	.	NM_017845	exon2	c.T173G	p.I58S	TTGGCAATATCTT	.	PASS	Atlas-SNP
FJX1	24147	hgsc.bcm.edu	37	11	35641428	35641428	+	Missense_Mutation	SNP	G	G	A	rs12286850	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	27.0	57.0	0.0	0.574468	0	G|0.908;A|0.092	0.092	strong	.	FJX1	32	.	NM_014344	exon1	c.G1244A	p.R415H	TACAGCGCCGCCT	.	PASS	Atlas-SNP
SP110	3431	hgsc.bcm.edu	37	2	231065630	231065630	+	Missense_Mutation	SNP	G	G	A	rs59573011	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	86.0	167.0	0.0	0.438776	0	G|0.980;A|0.020	0.020	strong	.	SP110	105	.	NM_001185015	exon11	c.C1118T	p.T373M	CTAGGCGTCTTCT	.	PASS	Atlas-SNP
LHFP	10186	hgsc.bcm.edu	37	13	40175311	40175311	+	Silent	SNP	G	G	A	rs34616166	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	70.0	89.0	0.0	0.569106	0	G|0.941;A|0.059	0.059	strong	.	LHFP	31	.	NM_005780	exon2	c.C43T	p.L15L	AAGACAGCAAAGC	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229787055	229787055	+	Missense_Mutation	SNP	G	G	A	rs41310553	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	63.0	121.0	0.0	0.547826	0	G|0.986;A|0.014	0.014	strong	.	URB2	152	.	NM_014777	exon8	c.G4223A	p.R1408Q	AAGGGCGGCAGAA	.	PASS	Atlas-SNP
PCDHA13	56136	hgsc.bcm.edu	37	5	140264091	140264091	+	Silent	SNP	G	G	C	rs10076265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	83.0	153.0	0.0	0.522013	0	G|0.982;C|0.018	0.018	strong	PCDHA13,colon,carcinoma,+2,1	PCDHA13	213	1	NM_031865	exon1	c.G2238C	p.G746G	GGCAGGGAGTTGG	.	PASS	Atlas-SNP
ZNF578	147660	hgsc.bcm.edu	37	19	53014492	53014492	+	Silent	SNP	T	T	A	rs145508251	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	68.0	106.0	0.0	0.444444	0	T|0.993;A|0.007	0.007	strong	.	.	.	.	NM_001099694	exon6	c.T858A	p.P286P	GAAACCTTACAAG	.	PASS	Atlas-SNP
PCDHGA4	56111	hgsc.bcm.edu	37	5	140736328	140736328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	73.0	129.0	0.0	0.514085	0	.	.	none	.	PCDHGA4	150	.	NM_018917	exon1	c.G1561A	p.D521N	TCCTTCGACTATG	.	PASS	Atlas-SNP
SAMD4B	55095	hgsc.bcm.edu	37	19	39873877	39873877	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	76.0	169.0	0.0	0.475	0	.	.	none	SAMD4B,NS,carcinoma,0,2	SAMD4B	48	2	NM_018028	exon15	c.A2002G	p.I668V	CTGGAGATCAATC	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13650	13650	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	9.0	8.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.C1314T	p.P438P	CTTCCCCACCCTT	.	PASS	Atlas-SNP
GAD1	2571	hgsc.bcm.edu	37	2	171713564	171713564	+	Silent	SNP	C	C	T	rs769392	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	27.0	65.0	0.0	0.369863	0	C|0.959;T|0.041	0.041	strong	.	GAD1	79	.	NM_000817	exon15	c.C1450T	p.L484L	AAATGCCTGGAAC	.	PASS	Atlas-SNP
ERO1LB	56605	hgsc.bcm.edu	37	1	236381833	236381833	+	Silent	SNP	A	A	G	rs11811758	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	121.0	244.0	0.0	0.560185	0	A|0.961;G|0.039	0.039	strong	.	ERO1LB	48	.	NM_019891	exon16	c.T1387C	p.L463L	GTTGTAATAAGAC	.	PASS	Atlas-SNP
GXYLT2	727936	hgsc.bcm.edu	37	3	72971414	72971414	+	Silent	SNP	A	A	G	rs61741329	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	60.0	148.0	0.0	0.458015	0	A|0.976;G|0.024	0.024	strong	.	GXYLT2	43	.	NM_001080393	exon3	c.A528G	p.T176T	CATCACATTTTCT	.	PASS	Atlas-SNP
TTC39B	158219	hgsc.bcm.edu	37	9	15191209	15191209	+	Silent	SNP	A	A	G	rs74818741	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	49.0	110.0	0.0	0.5	0	A|0.969;G|0.031	0.031	strong	.	TTC39B	83	.	NM_001168340	exon10	c.T975C	p.F325F	TCCAATAAATTCT	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56667213	56667213	+	Silent	SNP	T	T	C	rs34828128	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	68.0	179.0	0.0	0.435897	0	T|0.987;C|0.013	0.013	strong	.	FAM208A	113	.	NM_001112736	exon18	c.A3606G	p.Q1202Q	AGCTGGTTGAGCA	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201058428	201058428	+	Silent	SNP	G	G	A	rs61734621	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	125.0	220.0	1.0	0.478927	0.00454545	G|0.984;A|0.016	0.016	strong	.	CACNA1S	249	.	NM_000069	exon6	c.C858T	p.Y286Y	GCACTGGTACACG	.	PASS	Atlas-SNP
SNAPC2	6618	hgsc.bcm.edu	37	19	7987428	7987428	+	Missense_Mutation	SNP	C	C	T	rs116635738	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	34.0	55.0	0.0	0.5	0	C|0.991;T|0.009	0.009	strong	SNAPC2,colon,carcinoma,0,1	SNAPC2	20	1	NM_003083	exon5	c.C784T	p.R262C	TACCTACGCCTGA	.	PASS	Atlas-SNP
CFI	3426	hgsc.bcm.edu	37	4	110681527	110681527	+	Missense_Mutation	SNP	C	C	T	rs112534524	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	49.0	157.0	0.0	0.365672	0	C|0.998;G|0.000;T|0.002	0.002	strong	.	CFI	59	.	NM_000204	exon6	c.G782A	p.G261D	CCTTTGCCTTGGC	.	PASS	Atlas-SNP
TMPRSS11F	389208	hgsc.bcm.edu	37	4	68938185	68938185	+	Missense_Mutation	SNP	C	C	T	rs1438391	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	28.0	54.0	0.0	0.482759	0	C|0.960;T|0.040	0.040	strong	.	TMPRSS11F	79	.	NM_207407	exon5	c.G370A	p.D124N	GAATATCCACACC	.	PASS	Atlas-SNP
RASA3	22821	hgsc.bcm.edu	37	13	114773022	114773022	+	Missense_Mutation	SNP	C	C	T	rs74116414	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	20.0	47.0	0.0	0.416667	0	C|0.976;T|0.024	0.024	strong	.	RASA3	83	.	NM_007368	exon18	c.G1729A	p.V577M	TAAGCACGATGGG	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	37	6	7585795	7585795	+	Missense_Mutation	SNP	C	C	A	rs34884895	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	49.0	90.0	0.0	0.544444	0	C|0.991;A|0.009	0.009	strong	.	DSP	306	.	NM_004415	exon24	c.C8300A	p.T2767N	AAGACACCAGCAG	.	PASS	Atlas-SNP
AKT1	207	hgsc.bcm.edu	37	14	105238783	105238783	+	Silent	SNP	G	G	A	rs11555434	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	60.0	103.0	0.0	0.461538	0	G|0.992;A|0.008	0.008	strong	.	AKT1	379	.	NM_005163	exon12	c.C1179T	p.G393G	GCCCCCGCCAAGC	.	PASS	Atlas-SNP
PDCD2	5134	hgsc.bcm.edu	37	6	170892759	170892759	+	Silent	SNP	T	T	A	rs73258640	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	43.0	90.0	0.0	0.452632	0	T|0.985;A|0.015	0.015	strong	.	PDCD2	13	.	NM_002598	exon2	c.A360T	p.T120T	TTCTCCTGTTTCT	.	PASS	Atlas-SNP
CAMSAP3	57662	hgsc.bcm.edu	37	19	7682862	7682862	+	Silent	SNP	C	C	G	rs4134883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	42.0	126.0	0.0	0.4375	0	C|0.969;G|0.031	0.031	strong	.	CAMSAP3	131	.	NM_001080429	exon19	c.C3750G	p.V1250V	GAGCGTCGATGCC	.	PASS	Atlas-SNP
MMP11	4320	hgsc.bcm.edu	37	22	24124471	24124471	+	Silent	SNP	C	C	A	rs28382569	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	46.0	87.0	0.0	0.547619	0	A|0.014;C|0.986	0.014	strong	.	MMP11	53	.	NM_005940	exon7	c.C1134A	p.T378T	CCTCACCGAGCTG	.	PASS	Atlas-SNP
SRP68	6730	hgsc.bcm.edu	37	17	74036544	74036544	+	Missense_Mutation	SNP	C	C	T	rs75353721	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	246.0	127.0	225.0	2.0	0.51626	0.00888889	C|0.993;T|0.007	0.007	strong	SRP68,colon,carcinoma,+2,1	SRP68	61	1	NM_014230	exon15	c.G1612A	p.A538T	GATGAGCGTCGTT	.	scavenged	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6138575	6138575	+	Missense_Mutation	SNP	C	C	T	rs141087261	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	74.0	90.0	0.0	0.564885	0	C|0.992;T|0.008	0.008	strong	.	VWF	338	.	NM_000552	exon22	c.G2900A	p.G967D	GCTTTGCCCAGCA	.	PASS	Atlas-SNP
HSD17B4	3295	hgsc.bcm.edu	37	5	118877660	118877660	+	Missense_Mutation	SNP	A	A	G	rs28943594	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	87.0	222.0	0.0	0.505814	0	A|0.967;G|0.033	0.033	strong	.	HSD17B4	63	.	NM_001199291	exon25	c.A2257G	p.M753V	CTTCAGATGATTC	.	PASS	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	37	8	27925220	27925220	+	Silent	SNP	A	A	G	rs114951850	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	130.0	212.0	0.0	0.526316	0	A|0.985;G|0.015	0.015	strong	.	.	.	.	NM_001010906	exon6	c.T522C	p.H174H	CGTCCTATGCAGG	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95923644	95923644	+	Missense_Mutation	SNP	C	C	T	rs74082143	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	38.0	77.0	0.0	0.44186	0	C|0.989;T|0.011	0.011	strong	.	SYNE3	130	.	NM_152592	exon4	c.G659A	p.R220Q	TGCTCCCGGGCCA	.	PASS	Atlas-SNP
PIP4K2A	5305	hgsc.bcm.edu	37	10	22830842	22830842	+	Silent	SNP	C	C	T	rs61731109	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	41.0	109.0	0.0	0.418367	0	C|0.976;T|0.024	0.024	strong	.	PIP4K2A	59	.	NM_005028	exon8	c.G927A	p.P309P	TCCCACCGGGTGG	.	PASS	Atlas-SNP
MDC1	9656	hgsc.bcm.edu	37	6	30668374	30668374	+	Silent	SNP	G	G	A	rs9468812	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	50.0	107.0	0.0	0.490196	0	G|0.958;A|0.042	0.042	strong	.	MDC1	218	.	NM_014641	exon15	c.C6138T	p.F2046F	ATGAGGGAAGTCC	.	PASS	Atlas-SNP
SMPDL3B	27293	hgsc.bcm.edu	37	1	28285123	28285123	+	Missense_Mutation	SNP	G	G	A	rs34560878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	86.0	146.0	0.0	0.49711	0	G|0.986;A|0.014	0.014	strong	.	SMPDL3B	54	.	NM_014474	exon8	c.G1142A	p.R381H	TGGACCGCATCGC	.	PASS	Atlas-SNP
BPIFB1	92747	hgsc.bcm.edu	37	20	31877770	31877770	+	Missense_Mutation	SNP	C	C	T	rs114635109	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	63.0	115.0	0.0	0.5625	0	C|0.988;T|0.012	0.012	strong	.	.	.	.	NM_033197	exon4	c.C337T	p.P113S	AAGATCCCCCTGG	.	PASS	Atlas-SNP
NOS2	4843	hgsc.bcm.edu	37	17	26107840	26107840	+	Silent	SNP	G	G	A	rs34719207	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	70.0	123.0	0.0	0.546875	0	G|0.996;A|0.004	0.004	strong	.	NOS2	113	.	NM_000625	exon9	c.C957T	p.F319F	GATTTCGAAGAGC	.	PASS	Atlas-SNP
DCDC2B	149069	hgsc.bcm.edu	37	1	32677370	32677370	+	Silent	SNP	C	C	T	rs182464428	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	36.0	85.0	0.0	0.473684	0	C|0.998;T|0.002	0.002	strong	.	DCDC2B	24	.	NM_001099434	exon3	c.C327T	p.P109P	TCCTCCCGTGACT	.	PASS	Atlas-SNP
CBL	867	hgsc.bcm.edu	37	11	119170362	119170362	+	Silent	SNP	C	C	T	rs1893177	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	47.0	113.0	0.0	0.594937	0	C|0.948;T|0.052	0.052	strong	.	CBL	408	.	NM_005188	exon16	c.C2592T	p.L864L	GAACCTCATGAGT	.	PASS	Atlas-SNP
GGT5	2687	hgsc.bcm.edu	37	22	24622124	24622124	+	Silent	SNP	G	G	A	rs73879043	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	54.0	122.0	0.0	0.534653	0	G|0.981;A|0.019	0.019	strong	.	GGT5	61	.	NM_001099781	exon8	c.C1149T	p.G383G	CCCGTGGCCCCAG	.	PASS	Atlas-SNP
ESPL1	9700	hgsc.bcm.edu	37	12	53680135	53680135	+	Silent	SNP	C	C	T	rs61741367	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	32.0	48.0	0.0	0.438356	0	C|0.957;T|0.043	0.043	strong	.	ESPL1	158	.	NM_012291	exon18	c.C3615T	p.S1205S	AGCTTCCCTGAAT	.	PASS	Atlas-SNP
VTI1B	10490	hgsc.bcm.edu	37	14	68141105	68141105	+	Silent	SNP	C	C	T	rs2234510	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	32.0	24.0	0.0	0.507937	0	C|0.973;T|0.027	0.027	strong	.	VTI1B	15	.	NM_006370	exon1	c.G102A	p.G34G	CGCCGTCCCCAGC	.	PASS	Atlas-SNP
ZBED4	9889	hgsc.bcm.edu	37	22	50278588	50278588	+	Silent	SNP	C	C	T	rs61731526	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	19.0	42.0	0.0	0.345455	0	C|0.996;T|0.004	0.004	strong	.	ZBED4	102	.	NM_014838	exon2	c.C1278T	p.S426S	GGCGTCCTCTCCT	.	PASS	Atlas-SNP
ZNF264	9422	hgsc.bcm.edu	37	19	57723182	57723182	+	Silent	SNP	C	C	T	rs61730346	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	47.0	65.0	0.0	0.580247	0	C|0.990;T|0.010	0.010	strong	.	ZNF264	65	.	NM_003417	exon4	c.C717T	p.T239T	GAAAACCTTTATT	.	PASS	Atlas-SNP
PIAS4	51588	hgsc.bcm.edu	37	19	4012971	4012971	+	Silent	SNP	C	C	T	rs61729790	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	163.0	198.0	0.0	1	0	C|0.910;T|0.090	0.090	strong	.	PIAS4	40	.	NM_015897	exon2	c.C78T	p.F26F	GGGTTTCGTGGGC	.	PASS	Atlas-SNP
MXD3	83463	hgsc.bcm.edu	37	5	176734945	176734945	+	Missense_Mutation	SNP	C	C	A	rs35691394	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	22.0	23.0	0.0	0.564103	0	C|0.997;A|0.003	0.003	strong	.	MXD3	13	.	NM_001142935	exon5	c.G342T	p.Q114H	GGCCCGCTGCTCC	.	PASS	Atlas-SNP
CDHR2	54825	hgsc.bcm.edu	37	5	176011968	176011968	+	Missense_Mutation	SNP	G	G	A	rs114527399	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	80.0	0.0	0.468354	0	G|0.996;A|0.004	0.004	strong	.	CDHR2	152	.	NM_017675	exon19	c.G2686A	p.A896T	GTGCGGGCCTGTG	.	PASS	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	37	7	133682285	133682285	+	Silent	SNP	C	C	T	rs34608222	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	56.0	106.0	0.0	0.478632	0	C|0.986;T|0.014	0.014	strong	.	EXOC4	118	.	NM_021807	exon15	c.C2247T	p.L749L	GGATCTCCCCCCA	.	PASS	Atlas-SNP
SPAG7	9552	hgsc.bcm.edu	37	17	4863540	4863540	+	Missense_Mutation	SNP	T	T	C	rs73343382	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	95.0	197.0	0.0	0.519126	0	T|0.978;C|0.022	0.022	strong	.	SPAG7	22	.	NM_004890	exon4	c.A316G	p.I106V	TGAAGATCATGAC	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47924233	47924233	+	Silent	SNP	G	G	A	rs79566365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	36.0	87.0	0.0	0.391304	0	G|0.951;A|0.049	0.049	strong	.	PKD1L1	328	.	NM_138295	exon19	c.C3228T	p.D1076D	TTGAATGTCACTG	.	PASS	Atlas-SNP
ASB16	92591	hgsc.bcm.edu	37	17	42248205	42248205	+	Silent	SNP	C	C	T	rs56265171	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	103.0	180.0	0.0	0.542105	0	C|0.967;T|0.033	0.033	strong	.	ASB16	34	.	NM_080863	exon1	c.C48T	p.L16L	CTCTCTCCGCCTG	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14824088	14824088	+	Missense_Mutation	SNP	T	T	C	rs7864984	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	44.0	91.0	0.0	0.478261	0	T|0.978;C|0.022	0.022	strong	.	FREM1	261	.	NM_144966	exon13	c.A2104G	p.M702V	CCACCATAAATAA	.	PASS	Atlas-SNP
NLN	57486	hgsc.bcm.edu	37	5	65054587	65054587	+	Missense_Mutation	SNP	G	G	A	rs34339013	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	70.0	127.0	0.0	0.542636	0	G|0.973;A|0.027	0.027	strong	.	NLN	51	.	NM_020726	exon2	c.G235A	p.G79S	ATGCTCGGTATTG	.	PASS	Atlas-SNP
UACA	55075	hgsc.bcm.edu	37	15	70957106	70957106	+	Silent	SNP	A	A	G	rs78551559	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	101.0	203.0	0.0	0.497537	0	A|0.983;G|0.017	0.017	strong	.	UACA	235	.	NM_018003	exon17	c.T4008C	p.N1336N	AAGGCCATTGAGT	.	PASS	Atlas-SNP
C19orf21	126353	hgsc.bcm.edu	37	19	757483	757483	+	Silent	SNP	G	G	A	rs35484463	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	42.0	95.0	0.0	0.442105	0	G|0.982;A|0.018	0.018	strong	.	C19orf21	56	.	NM_173481	exon2	c.G537A	p.T179T	GTCCACGCCCCTG	.	PASS	Atlas-SNP
SIGLEC9	27180	hgsc.bcm.edu	37	19	51630485	51630485	+	Missense_Mutation	SNP	C	C	A	rs273688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	58.0	121.0	0.0	0.552381	0	C|0.895;A|0.105	0.105	strong	SIGLEC9,NS,carcinoma,+1,1	SIGLEC9	85	1	NM_001198558	exon4	c.C947A	p.A316D	ATGCAGCTGAATT	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27801739	27801739	+	Missense_Mutation	SNP	T	T	C	rs13416968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	104.0	156.0	0.0	0.474886	0	T|0.986;C|0.014	0.014	strong	.	C2orf16	357	.	NM_032266	exon1	c.T2300C	p.I767T	TGGATATAAAAAA	.	PASS	Atlas-SNP
EVL	51466	hgsc.bcm.edu	37	14	100563868	100563868	+	Silent	SNP	G	G	A	rs35006525	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	51.0	77.0	0.0	0.548387	0	G|0.986;A|0.014	0.014	strong	.	EVL	42	.	NM_016337	exon3	c.G231A	p.T77T	GGCCACGCCAACC	.	PASS	Atlas-SNP
CAMK2N2	94032	hgsc.bcm.edu	37	3	183978936	183978936	+	Silent	SNP	G	G	A	rs75699255	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	31.0	42.0	0.0	0.62	0	G|0.962;A|0.038	0.038	strong	.	CAMK2N2	2	.	NM_033259	exon1	c.C138T	p.P46P	CAGCTTGGGGGGT	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	10793	10793	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	9.0	6.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.C34T	p.L12L	ATATTACTACCAC	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23651650	23651650	+	Missense_Mutation	SNP	A	A	G	rs71316760		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	294.0	108.0	330.0	0.0	0.367347	0	A|0.500;G|0.500	0.500	weak	BCR,NS,carcinoma,0,1	BCR	74	1	NM_004327	exon17	c.A3052G	p.T1018A	CAGCGCACCGTCA	.	scavenged	Atlas-SNP
ARAP1	116985	hgsc.bcm.edu	37	11	72403832	72403832	+	Splice_Site	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	29.0	48.0	0.0	0.453125	0	.	.	none	.	ARAP1	168	.	NM_015242	exon29	c.3220-2A>G	.	TGGCTCTGTTTGA	.	PASS	Atlas-SNP
GOLGA8B	440270	hgsc.bcm.edu	37	15	34825091	34825091	+	Missense_Mutation	SNP	T	T	A	rs200439797		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1873.0	467.0	1385.0	0.0	0.249333	0	T|0.998;A|0.002	0.002	weak	GOLGA8B_ENST00000267731,right_upper_lobe,carcinoma,+1,2	GOLGA8B	7	2	NM_001023567	exon3	c.A241T	p.R81W	TGGACCTCGAGTT	.	scavenged	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	37	15	101606084	101606084	+	Silent	SNP	G	G	A	rs116529941	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	75.0	111.0	0.0	0.551471	0	G|0.997;A|0.003	0.003	strong	.	LRRK1	310	.	NM_024652	exon32	c.G5442A	p.A1814A	CATCGCGGACGTG	.	PASS	Atlas-SNP
ACSS2	55902	hgsc.bcm.edu	37	20	33513983	33513983	+	Missense_Mutation	SNP	G	G	C	rs45486997	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	95.0	185.0	0.0	0.521978	0	G|0.968;C|0.032	0.032	strong	.	ACSS2	75	.	NM_001076552	exon17	c.G1841C	p.G614A	TGGTGGGCCACCC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187557863	187557863	+	Missense_Mutation	SNP	G	G	A	rs60068521	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	300.0	155.0	306.0	0.0	0.516667	0	G|0.999;A|0.001	0.001	strong	.	FAT1	500	.	NM_005245	exon5	c.C3848T	p.P1283L	GCATTGGGGCCCT	.	PASS	Atlas-SNP
ADAM7	8756	hgsc.bcm.edu	37	8	24349482	24349482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	57.0	130.0	0.0	0.587629	0	.	.	none	ADAM7,colon,carcinoma,-2,1	ADAM7	165	1	NM_003817	exon14	c.G1423A	p.G475S	TGCACTGGCCACT	.	PASS	Atlas-SNP
MUT	4594	hgsc.bcm.edu	37	6	49409599	49409599	+	Missense_Mutation	SNP	G	G	A	rs140727018	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	256.0	134.0	237.0	0.0	0.523438	0	G|0.999;A|0.001	0.001	strong	.	MUT	70	.	NM_000255	exon10	c.C1762T	p.R588C	CCTGGCGATATGC	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248458718	248458718	+	Missense_Mutation	SNP	T	T	C	rs79635253	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	530.0	345.0	491.0	1.0	0.650943	0.00203666	T|0.961;C|0.039	0.039	strong	.	OR2T12	113	.	NM_001004692	exon1	c.A163G	p.R55G	TGGGCCTGTGGAG	.	PASS	Atlas-SNP
FAM151A	338094	hgsc.bcm.edu	37	1	55075334	55075334	+	Silent	SNP	G	G	A	rs201640566	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	29.0	66.0	0.0	0.5	0	G|1.000;A|0.000	0.000	strong	.	FAM151A	58	.	NM_176782	exon8	c.C1365T	p.P455P	ATGGCCGGGGACC	.	PASS	Atlas-SNP
OR2T27	403239	hgsc.bcm.edu	37	1	248813421	248813421	+	Silent	SNP	G	G	A	rs200410497	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	69.0	163.0	0.0	0.448052	0	G|0.969;A|0.031	0.031	strong	.	OR2T27	52	.	NM_001001824	exon1	c.C765T	p.A255A	GTACATGGCAGCC	.	PASS	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	37	6	33393583	33393583	+	Silent	SNP	C	C	T	rs73402305	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	77.0	183.0	0.0	0.458333	0	C|0.937;T|0.063	0.063	strong	SYNGAP1_ENST00000293748,NS,carcinoma,+2,2	SYNGAP1	202	2	NM_006772	exon3	c.C198T	p.P66P	ACACCCCCTACTG	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15358939	15358939	+	Missense_Mutation	SNP	A	A	C	rs114448506	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	238.0	127.0	221.0	0.0	0.533613	0	A|0.997;C|0.003	0.003	strong	.	NBAS	246	.	NM_015909	exon48	c.T6390G	p.F2130L	AGTTCTAAAGAAC	.	PASS	Atlas-SNP
IFNAR1	3454	hgsc.bcm.edu	37	21	34713317	34713317	+	Silent	SNP	T	T	C	rs9981753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	42.0	140.0	0.0	0.42	0	T|0.986;C|0.014	0.014	strong	.	IFNAR1	44	.	NM_000629	exon3	c.T213C	p.D71D	GATGGATAATTGG	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31294773	31294773	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	38.0	74.0	0.0	0.431818	0	.	.	none	.	TRPM1	183	.	NM_001252020	exon27	c.G4181A	p.G1394D	TCTGGACCTAATT	.	PASS	Atlas-SNP
MCMBP	79892	hgsc.bcm.edu	37	10	121602830	121602830	+	Silent	SNP	G	G	A	rs34297798	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	111.0	190.0	0.0	0.518692	0	G|0.990;A|0.010	0.010	strong	.	MCMBP	49	.	NM_024834	exon9	c.C936T	p.A312A	CTTCTGGGCTAAG	.	PASS	Atlas-SNP
SHPRH	257218	hgsc.bcm.edu	37	6	146276280	146276280	+	Missense_Mutation	SNP	C	C	T	rs182151362	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	52.0	86.0	0.0	0.452174	0	C|0.998;T|0.002	0.002	strong	.	SHPRH	169	.	NM_173082	exon2	c.G179A	p.S60N	TTTAGACTATCAC	.	PASS	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91739873	91739873	+	Missense_Mutation	SNP	A	A	G	rs7145583	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	72.0	183.0	0.0	0.48	0	A|0.997;G|0.003	0.003	strong	.	CCDC88C	192	.	NM_001080414	exon30	c.T5183C	p.F1728S	GCCACAAAGTTGG	.	PASS	Atlas-SNP
NPHP4	261734	hgsc.bcm.edu	37	1	5965824	5965824	+	Missense_Mutation	SNP	G	G	C	rs12093500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	64.0	101.0	0.0	0.484848	0	G|0.980;C|0.020	0.020	strong	.	NPHP4	119	.	NM_015102	exon14	c.C1631G	p.A544G	ATACCGGCCTCCA	.	PASS	Atlas-SNP
OR5I1	10798	hgsc.bcm.edu	37	11	55703523	55703523	+	Silent	SNP	G	G	A	rs11231594	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	44.0	86.0	0.0	0.458333	0	G|0.974;A|0.026	0.026	strong	.	OR5I1	110	.	NM_006637	exon1	c.C354T	p.A118A	CATGGCGGCCAGG	.	PASS	Atlas-SNP
SCO1	6341	hgsc.bcm.edu	37	17	10595250	10595250	+	Silent	SNP	T	T	C	rs2271228	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	59.0	124.0	1.0	0.412587	0.00806452	T|0.961;C|0.039	0.039	strong	SCO1,NS,carcinoma,-1,1	SCO1	24	1	NM_004589	exon4	c.A594G	p.P198P	GAAAAGTGGAGTT	.	scavenged	Atlas-SNP
CCNB1	891	hgsc.bcm.edu	37	5	68471232	68471232	+	Silent	SNP	C	C	T	rs2069439	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	47.0	137.0	0.0	0.376	0	C|0.998;T|0.002	0.002	strong	CCNB1,NS,carcinoma,+1,1	CCNB1	36	1	NM_031966	exon7	c.C951T	p.V317V	TGATGTCGAGCAA	.	PASS	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29429733	29429733	+	Missense_Mutation	SNP	G	G	A	rs61732185	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	303.0	143.0	257.0	0.0	0.471947	0	G|0.964;A|0.036	0.036	strong	.	OR2H1	38	.	NM_030883	exon3	c.G187A	p.D63N	CTCTCTGACCTCT	.	PASS	Atlas-SNP
DUSP13	51207	hgsc.bcm.edu	37	10	76854463	76854463	+	Missense_Mutation	SNP	G	G	C	rs16931996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	35.0	81.0	0.0	0.625	0	G|0.956;C|0.044	0.044	strong	.	DUSP13	82	.	NM_001007273	exon6	c.C847G	p.R283G	CCAGTCGGTTGTC	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305774	39305774	+	Missense_Mutation	SNP	C	C	G	rs137947981	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	50.0	136.0	0.0	0.581395	0	.	.	weak	KRTAP4-5,NS,carcinoma,0,1	KRTAP4-5	34	1	NM_033188	exon1	c.G246C	p.Q82H	GGTGGTCTGGCAG	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	49984879	49984879	+	Missense_Mutation	SNP	C	C	T	rs76547526	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	31.0	62.0	0.0	0.5	0	C|0.988;T|0.012	0.012	strong	.	WDFY4	205	.	NM_020945	exon16	c.C2948T	p.P983L	AGGCCCCGCAGCC	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26272270	26272270	+	Missense_Mutation	SNP	A	A	G	rs695633	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	102.0	99.0	0.0	0.990291	0	A|0.967;G|0.033	0.033	strong	.	MYO18B	322	.	NM_032608	exon24	c.A4195G	p.I1399V	GCCACCATTGGAA	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664333	123664333	+	Missense_Mutation	SNP	G	G	C	rs7665271	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	43.0	78.0	0.0	0.409524	0	G|0.959;C|0.041	0.041	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1286C	p.S429T	TAAACAGTAAGCG	.	PASS	Atlas-SNP
DYRK2	8445	hgsc.bcm.edu	37	12	68052166	68052166	+	Silent	SNP	C	C	T	rs56178357	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	85.0	163.0	0.0	0.5	0	C|0.909;T|0.091	0.091	strong	.	DYRK2	63	.	NM_006482	exon3	c.C1479T	p.S493S	GGAGAGCAGAGAG	.	PASS	Atlas-SNP
OR1J2	26740	hgsc.bcm.edu	37	9	125274015	125274015	+	Missense_Mutation	SNP	C	C	T	rs150890302	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	36.0	117.0	0.0	0.375	0	C|0.998;T|0.002	0.002	strong	.	OR1J2	64	.	NM_054107	exon1	c.C935T	p.S312F	TTTTCTCTTGGTG	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169116304	169116304	+	Silent	SNP	T	T	A	rs189140579	bycluster;by1000genomes;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	70.0	132.0	0.0	0.451613	0	T|1.000;C|0.000	.	alt	DOCK2,caecum,carcinoma,+2,1	DOCK2	389	1	NM_004946	exon9	c.T810A	p.I270I	GGAGATTGAGATG	.	PASS	Atlas-SNP
USP49	25862	hgsc.bcm.edu	37	6	41774340	41774340	+	Missense_Mutation	SNP	G	G	T	rs111948785	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	37.0	33.0	0.0	1	0	A|0.000;G|0.986;T|0.014	0.014	strong	.	USP49	58	.	NM_018561	exon4	c.C382A	p.L128M	GCGGCAGGACCAC	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17113083	17113083	+	Missense_Mutation	SNP	G	G	A	rs10426545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	52.0	148.0	1.0	0.40625	0.00675676	G|0.982;A|0.018	0.018	strong	CPAMD8,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	CPAMD8	192	1	NM_015692	exon9	c.C892T	p.R298W	TGGCCCGCACAGT	.	scavenged	Atlas-SNP
RPL6	6128	hgsc.bcm.edu	37	12	112843105	112843105	+	Missense_Mutation	SNP	T	T	C	rs141161168	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	34.0	90.0	0.0	0.425	0	T|1.000;C|0.000	0.000	strong	.	RPL6	20	.	NM_001024662	exon7	c.A790G	p.I264V	GAGGAATAGCTTT	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4448324	4448324	+	Silent	SNP	C	C	T	rs9910964	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	31.0	62.0	0.0	0.5	0	C|0.916;T|0.084	0.084	strong	.	MYBBP1A	69	.	NM_014520	exon17	c.G2307A	p.A769A	CACCAGCGCCTTC	.	PASS	Atlas-SNP
GLTSCR1	29998	hgsc.bcm.edu	37	19	48182859	48182859	+	Silent	SNP	G	G	A	rs60219834	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	8.0	4.0	0.0	0.666667	0	G|0.943;A|0.057	0.057	strong	.	GLTSCR1	79	.	NM_015711	exon6	c.G432A	p.T144T	CCCGACGGGCGCT	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73676315	73676315	+	Silent	SNP	A	A	G	rs76266696	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	264.0	128.0	260.0	0.0	0.484848	0	A|0.994;G|0.006	0.006	strong	.	ALMS1	384	.	NM_015120	exon8	c.A2658G	p.V886V	GAAAGTATCAATT	.	PASS	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	37	19	31039357	31039357	+	Missense_Mutation	SNP	C	C	A	rs61741995	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	30.0	18.0	27.0	0.0	0.6	0	C|0.982;A|0.018	0.018	strong	.	ZNF536	424	.	NM_014717	exon4	c.C2831A	p.P944H	CTGACCCCCCTTC	.	PASS	Atlas-SNP
KIAA1967	57805	hgsc.bcm.edu	37	8	22476717	22476717	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	51.0	92.0	0.0	0.476636	0	.	.	none	.	KIAA1967	72	.	NM_021174	exon20	c.C2576T	p.A859V	TGGCGGCAGAGAT	.	PASS	Atlas-SNP
ALKBH7	84266	hgsc.bcm.edu	37	19	6374229	6374229	+	Silent	SNP	C	C	A	rs116186903	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	43.0	57.0	0.0	0.641791	0	C|0.994;A|0.006	0.006	strong	.	ALKBH7	18	.	NM_032306	exon2	c.C220A	p.R74R	GGCTTCCGAGAGA	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	37	3	119449165	119449165	+	Missense_Mutation	SNP	C	C	G	rs9819218	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	63.0	108.0	0.0	0.496063	0	C|0.982;G|0.018	0.018	strong	.	.	.	.	NM_033364	exon8	c.C959G	p.S320C	GGTGGTCTAAACT	.	PASS	Atlas-SNP
NBPF7	343505	hgsc.bcm.edu	37	1	120378657	120378657	+	Silent	SNP	G	G	A	rs6684816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	96.0	164.0	0.0	0.475248	0	A|0.016;G|0.984	0.016	strong	.	NBPF7	46	.	NM_001047980	exon7	c.C1089T	p.S363S	GGAATTGGAGTGT	.	PASS	Atlas-SNP
OR1E2	8388	hgsc.bcm.edu	37	17	3336697	3336697	+	Missense_Mutation	SNP	G	G	A	rs77501388	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	230.0	98.0	221.0	0.0	0.426087	0	G|0.987;A|0.013	0.013	strong	OR1E2,right_upper_lobe,carcinoma,+1,1	OR1E2	25	1	NM_003554	exon1	c.C439T	p.P147S	GCATGGGGCTCAT	.	PASS	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51173823	51173823	+	Silent	SNP	G	G	A	rs61740811	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	114.0	221.0	0.0	0.5	0	G|0.957;A|0.043	0.043	strong	.	SALL1	301	.	NM_002968	exon2	c.C2310T	p.I770I	CTGGCAGATGGGG	.	PASS	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	37	15	73617723	73617723	+	Silent	SNP	G	G	T	rs141966309	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	94.0	217.0	0.0	0.479592	0	G|0.998;T|0.002	0.002	strong	.	HCN4	150	.	NM_005477	exon5	c.C1653A	p.I551I	GTCGTGGATGCGC	.	PASS	Atlas-SNP
ABTB2	25841	hgsc.bcm.edu	37	11	34176262	34176262	+	Missense_Mutation	SNP	T	T	C	rs2473928	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	69.0	106.0	0.0	0.565574	0	T|0.973;C|0.027	0.027	strong	.	ABTB2	101	.	NM_145804	exon15	c.A2752G	p.T918A	TGTCAGTGGTGGG	.	PASS	Atlas-SNP
IL1RL1	9173	hgsc.bcm.edu	37	2	102957136	102957136	+	Missense_Mutation	SNP	C	C	T	rs114797672	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	268.0	128.0	301.0	0.0	0.477612	0	C|0.992;T|0.008	0.008	strong	.	IL1RL1	114	.	NM_016232	exon5	c.C458T	p.A153V	GTCAGGCTCTTCA	.	PASS	Atlas-SNP
STRN3	29966	hgsc.bcm.edu	37	14	31364948	31364948	+	Missense_Mutation	SNP	A	A	G	rs114922597	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	54.0	112.0	0.0	0.402985	0	A|0.990;G|0.010	0.010	strong	.	STRN3	117	.	NM_001083893	exon17	c.T2144C	p.M715T	TGGATCATTTTAC	.	PASS	Atlas-SNP
VNN1	8876	hgsc.bcm.edu	37	6	133004281	133004281	+	Missense_Mutation	SNP	A	A	G	rs61729583	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	36.0	71.0	0.0	0.413793	0	A|0.971;G|0.029	0.029	strong	.	VNN1	69	.	NM_004666	exon7	c.T1540C	p.X514Q	TATTCTACCAACT	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56369095	56369095	+	Silent	SNP	C	C	T	rs147356242	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	29.0	41.0	0.0	0.527273	0	C|0.994;T|0.006	0.006	strong	.	NLRP4	331	.	NM_134444	exon3	c.C336T	p.S112S	ATGGTCCAGCAAG	.	PASS	Atlas-SNP
GIMAP6	474344	hgsc.bcm.edu	37	7	150324976	150324976	+	Missense_Mutation	SNP	T	T	C	rs11977216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	290.0	128.0	324.0	0.0	0.441379	0	T|0.964;C|0.036	0.036	strong	.	GIMAP6	60	.	NM_001244072	exon3	c.A920G	p.Q307R	GTATATTGGTAAG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017945	1017945	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1212.0	49.0	1032.0	0.0	0.040429	0	.	.	none	.	MUC6	408	.	NM_005961	exon31	c.T4856C	p.F1619S	GTGGAGAAAGGTG	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105417503	105417503	+	Missense_Mutation	SNP	G	G	T	rs146582718	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	411.0	406.0	389.0	0.0	0.987835	0	G|0.962;T|0.038	0.038	strong	.	AHNAK2	719	.	NM_138420	exon7	c.C4285A	p.P1429T	TTTCAGGGCCCTT	.	PASS	Atlas-SNP
SLC7A9	11136	hgsc.bcm.edu	37	19	33333179	33333179	+	Silent	SNP	C	C	T	rs111630604	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	72.0	0.0	0.460526	0	C|0.987;T|0.013	0.013	strong	SLC7A9,NS,carcinoma,-1,3	SLC7A9	78	3	NM_001243036	exon11	c.G1119A	p.S373S	GACTAACGAGTTT	.	PASS	Atlas-SNP
TMEM223	79064	hgsc.bcm.edu	37	11	62559301	62559301	+	Missense_Mutation	SNP	C	C	T	rs2956139	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	58.0	125.0	0.0	0.453125	0	C|0.973;T|0.027	0.027	strong	.	TMEM223	22	.	NM_001080501	exon1	c.G166A	p.G56S	AGACGCCCTGGCC	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207782889	207782889	+	Missense_Mutation	SNP	A	A	G	rs17047661	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	77.0	131.0	0.0	0.506579	0	A|0.769;G|0.231	0.231	strong	.	CR1	354	.	NM_000651	exon37	c.A6151G	p.R2051G	GCAATTAGAGTAC	.	PASS	Atlas-SNP
CAPN3	825	hgsc.bcm.edu	37	15	42680058	42680058	+	Silent	SNP	T	T	C	rs17593	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	163.0	159.0	1.0	1	0.00628931	T|0.944;C|0.056	0.056	strong	.	CAPN3	172	.	NM_000070	exon4	c.T606C	p.S202S	CTGGAGTGCTCTG	.	PASS	Atlas-SNP
ZC4H2	55906	hgsc.bcm.edu	37	X	64139051	64139051	+	Silent	SNP	T	T	C	rs6524946	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	62.0	154.0	0.0	0.48062	0	T|0.894;C|0.106	0.106	strong	.	ZC4H2	64	.	NM_018684	exon4	c.A432G	p.T144T	AGGTTCTGTCTGC	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	37	8	2088697	2088697	+	Missense_Mutation	SNP	G	G	C	rs34735757	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	68.0	0.0	0.460526	0	G|0.986;C|0.014	0.014	strong	.	MYOM2	251	.	NM_003970	exon33	c.G3852C	p.E1284D	TGAAGAGATGGCT	.	PASS	Atlas-SNP
ND1	10625	hgsc.bcm.edu	37	MT	3594	3594	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	9.0	5.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361390	exon1	c.C288T	p.V96V	CCTGGTCAACCTC	.	PASS	Atlas-SNP
SLC38A8	146167	hgsc.bcm.edu	37	16	84056442	84056442	+	Missense_Mutation	SNP	G	G	C	rs11861325	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	71.0	0.0	0.468354	0	G|0.961;C|0.039	0.039	strong	.	SLC38A8	60	.	NM_001080442	exon6	c.C743G	p.S248C	CAGTGGGAGAGGC	.	PASS	Atlas-SNP
ZFP42	132625	hgsc.bcm.edu	37	4	188924450	188924450	+	Silent	SNP	A	A	G	rs61731386	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	37.0	59.0	0.0	0.616667	0	A|0.972;G|0.028	0.028	strong	.	ZFP42	87	.	NM_174900	exon4	c.A489G	p.S163S	CCTATCAGATCCT	.	PASS	Atlas-SNP
WNK4	65266	hgsc.bcm.edu	37	17	40946913	40946913	+	Missense_Mutation	SNP	C	C	T	rs56226218	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	279.0	145.0	235.0	1.0	0.519713	0.00425532	C|0.974;T|0.026	0.026	strong	.	WNK4	182	.	NM_032387	exon14	c.C2474T	p.P825L	TTTCCCCAGGTCC	.	PASS	Atlas-SNP
HADHB	3032	hgsc.bcm.edu	37	2	26505745	26505745	+	Silent	SNP	G	G	A	rs7572240	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	26.0	71.0	0.0	0.490566	0	G|0.982;A|0.018	0.018	strong	.	HADHB	50	.	NM_000183	exon11	c.G966A	p.A322A	CATGGCGGAGGAA	.	PASS	Atlas-SNP
GOLM1	51280	hgsc.bcm.edu	37	9	88650332	88650332	+	Missense_Mutation	SNP	C	C	G	rs61741197	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	71.0	93.0	0.0	0.682692	0	C|0.947;G|0.053	0.053	strong	.	GOLM1	36	.	NM_016548	exon8	c.G966C	p.Q322H	GACAAGCTGGTCT	.	PASS	Atlas-SNP
HDAC4	9759	hgsc.bcm.edu	37	2	240003873	240003873	+	Silent	SNP	G	G	A	rs10168964	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	326.0	324.0	243.0	0.0	0.993865	0	G|0.924;A|0.076	0.076	strong	.	HDAC4	127	.	NM_006037	exon21	c.C2562T	p.D854D	GCTGGGGTCGCTG	.	PASS	Atlas-SNP
KRTAP1-4	728255	hgsc.bcm.edu	37	17	39186254	39186254	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	68.0	135.0	0.0	0.49635	0	.	.	none	.	KRTAP1-4	4	.	NM_001257305	exon1	c.A77C	p.Q26P	CTTGGCTGGCAGC	.	PASS	Atlas-SNP
OR52H1	390067	hgsc.bcm.edu	37	11	5566460	5566460	+	Silent	SNP	G	G	A	rs115541630	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	58.0	104.0	0.0	0.495726	0	G|0.983;A|0.017	0.017	strong	OR52H1,NS,carcinoma,0,1	OR52H1	46	1	NM_001005289	exon1	c.C294T	p.R98R	GATTTCGCGAGCC	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140604641	140604641	+	Missense_Mutation	SNP	G	G	C	rs142548755	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	281.0	137.0	246.0	0.0	0.487544	0	G|0.994;C|0.006	0.006	strong	.	PCDHB14	132	.	NM_018934	exon1	c.G1564C	p.E522Q	GACTACGAGGCCC	.	PASS	Atlas-SNP
ACPL2	92370	hgsc.bcm.edu	37	3	141006162	141006162	+	Silent	SNP	G	G	A	rs34601454	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	41.0	115.0	0.0	0.42268	0	G|0.969;A|0.031	0.031	strong	.	ACPL2	50	.	NM_152282	exon7	c.G372A	p.P124P	GAAACCGTATCAC	.	PASS	Atlas-SNP
PARVB	29780	hgsc.bcm.edu	37	22	44495953	44495953	+	Missense_Mutation	SNP	A	A	G	rs56194750	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	48.0	78.0	0.0	0.494845	0	A|0.997;G|0.003	0.003	strong	.	PARVB	44	.	NM_001003828	exon4	c.A322G	p.M108V	CGCACGATGATTG	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	21042391	21042391	+	Silent	SNP	G	G	A	rs114086288	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	55.0	114.0	0.0	0.533981	0	G|0.989;A|0.011	0.011	strong	.	DNAH3	1142	.	NM_017539	exon37	c.C5415T	p.N1805N	AACAGTGTTCATA	.	PASS	Atlas-SNP
APOBEC3A	200315	hgsc.bcm.edu	37	22	39357634	39357634	+	Silent	SNP	A	A	G	rs62230498		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	45.0	51.0	0.0	1	0	A|0.167;G|0.833	0.833	weak	.	APOBEC3A	20	.	NM_145699	exon3	c.A417G	p.A139A	GGAGGCACTGCAA	.	PASS	Atlas-SNP
C2orf53	339779	hgsc.bcm.edu	37	2	27361049	27361049	+	Missense_Mutation	SNP	G	G	C	rs61739485	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	50.0	144.0	0.0	0.347222	0	G|0.972;C|0.028	0.028	strong	.	C2orf53	45	.	NM_178553	exon3	c.C149G	p.P50R	GAGAACGGTGGTT	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88793156	88793156	+	Silent	SNP	G	G	A	rs376432833		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	22.0	51.0	0.0	0.392857	0	.	.	weak	.	PIEZO1	79	.	NM_001142864	exon25	c.C3666T	p.N1222N	GGTGACGTTGTAC	.	PASS	Atlas-SNP
KCNH1	3756	hgsc.bcm.edu	37	1	210857145	210857145	+	Silent	SNP	C	C	T	rs112047226	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	32.0	56.0	0.0	0.432432	0	C|0.987;T|0.013	0.013	strong	KCNH1,colon,carcinoma,-1,1	KCNH1	199	1	NM_172362	exon11	c.G2448A	p.A816A	CCCTGGCGCCTGT	.	PASS	Atlas-SNP
CFH	3075	hgsc.bcm.edu	37	1	196706659	196706659	+	Missense_Mutation	SNP	C	C	A	rs114743644	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	46.0	103.0	0.0	0.5	0	C|0.999;A|0.001	0.001	strong	.	CFH	251	.	NM_000186	exon17	c.C2651A	p.S884Y	ATTCATCCAGGTC	.	PASS	Atlas-SNP
ZNF80	7634	hgsc.bcm.edu	37	3	113955890	113955890	+	Missense_Mutation	SNP	C	C	T	rs112412956	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	78.0	131.0	0.0	0.509804	0	C|0.987;T|0.013	0.013	strong	.	ZNF80	75	.	NM_007136	exon1	c.G32A	p.G11D	CCATCACCTGTCC	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113275878	113275878	+	Silent	SNP	C	C	T	rs16883323	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	36.0	65.0	0.0	0.514286	0	C|0.969;T|0.031	0.031	strong	CSMD3_ENST00000343508,caecum,carcinoma,0,4	CSMD3	2325	4	NM_198123	exon61	c.G9852A	p.P3284P	GCACTGCGGTACT	.	PASS	Atlas-SNP
KIF9	64147	hgsc.bcm.edu	37	3	47286320	47286320	+	Missense_Mutation	SNP	T	T	C	rs115610071	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	84.0	216.0	0.0	0.48	0	T|0.992;C|0.008	0.008	strong	.	KIF9	59	.	NM_182902	exon15	c.A1475G	p.K492R	GCTTTCTTCCCAG	.	PASS	Atlas-SNP
THAP4	51078	hgsc.bcm.edu	37	2	242572693	242572693	+	Silent	SNP	C	C	T	rs147500721	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	44.0	69.0	0.0	0.578947	0	C|0.985;T|0.015	0.015	strong	.	THAP4	27	.	NM_015963	exon2	c.G879A	p.P293P	CTTCTGCGGTGTC	.	PASS	Atlas-SNP
SPPL2A	84888	hgsc.bcm.edu	37	15	51023216	51023216	+	Silent	SNP	G	G	C	rs76947817	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	104.0	220.0	0.0	0.485981	0	G|0.977;C|0.023	0.023	strong	.	SPPL2A	26	.	NM_032802	exon10	c.C1035G	p.G345G	GAGAAGGCCTAGA	.	PASS	Atlas-SNP
SENP6	26054	hgsc.bcm.edu	37	6	76373002	76373002	+	Silent	SNP	G	G	A	rs16886792	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	57.0	88.0	0.0	0.5	0	G|0.985;A|0.015	0.015	strong	.	SENP6	189	.	NM_015571	exon9	c.G762A	p.T254T	AAGAACGTCAATT	.	PASS	Atlas-SNP
ARL6IP4	51329	hgsc.bcm.edu	37	12	123466304	123466304	+	Missense_Mutation	SNP	A	A	G	rs74758272	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	36.0	72.0	0.0	0.48	0	A|0.880;G|0.120	0.120	strong	.	ARL6IP4	14	.	NM_018694	exon3	c.A716G	p.K239R	AGAAGAAGAAGAG	.	PASS	Atlas-SNP
PREPL	9581	hgsc.bcm.edu	37	2	44571008	44571008	+	Silent	SNP	A	A	T	rs72875319	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	50.0	116.0	0.0	0.438596	0	A|0.966;T|0.034	0.034	strong	.	PREPL	69	.	NM_001171603	exon5	c.T492A	p.A164A	ATCTGGAGCAACT	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76132805	76132805	+	Silent	SNP	C	C	G	rs73703182	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	95.0	183.0	0.0	0.549133	0	C|0.977;G|0.023	0.023	strong	.	DTX2	64	.	NM_001102594	exon9	c.C1452G	p.P484P	CCAGCCCCAGGGA	.	PASS	Atlas-SNP
KANK2	25959	hgsc.bcm.edu	37	19	11289307	11289307	+	Missense_Mutation	SNP	C	C	T	rs149142528	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	29.0	66.0	0.0	0.42029	0	C|0.987;T|0.013	0.013	strong	.	KANK2	47	.	NM_015493	exon3	c.G1339A	p.V447M	TGGGCACTCGGCC	.	PASS	Atlas-SNP
ZPBP2	124626	hgsc.bcm.edu	37	17	38027824	38027824	+	Missense_Mutation	SNP	G	G	A	rs35829084	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	85.0	186.0	0.0	0.551948	0	G|0.968;A|0.032	0.032	strong	.	ZPBP2	33	.	NM_199321	exon4	c.G352A	p.A118T	GTTAAAGCAGAAA	.	PASS	Atlas-SNP
SLC27A5	10998	hgsc.bcm.edu	37	19	59023213	59023213	+	Missense_Mutation	SNP	A	A	C	rs146147877	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	37.0	58.0	0.0	0.5	0	A|0.995;C|0.005	0.005	strong	.	SLC27A5	58	.	NM_012254	exon1	c.T110G	p.L37R	TCCCCCAGGAGCC	.	PASS	Atlas-SNP
C17orf64	124773	hgsc.bcm.edu	37	17	58506748	58506748	+	Missense_Mutation	SNP	C	C	T	rs57928695	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	75.0	108.0	0.0	0.510204	0	C|0.882;T|0.118	0.118	strong	.	C17orf64	19	.	NM_181707	exon5	c.C455T	p.P152L	ATGCGCCGGAGAG	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13260	13260	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	11.0	11.0	12.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.T924C	p.S308S	TTCAAGTCAACTA	.	PASS	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	37	1	46496368	46496368	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	5.0	117.0	0.0	0.0420168	0	.	.	none	.	MAST2	136	.	NM_015112	exon22	c.C2643T	p.D881D	GGAGGACCATTCA	.	PASS	Atlas-SNP
TCHH	7062	hgsc.bcm.edu	37	1	152082304	152082304	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	289.0	13.0	215.0	2.0	0.0449827	0.00930233	.	.	none	TCHH,NS,malignant_melanoma,0,1	TCHH	275	1	NM_007113	exon3	c.A3389C	p.K1130T	CTTCTCTTCTCCC	.	scavenged	Atlas-SNP
PLEKHG4B	153478	hgsc.bcm.edu	37	5	162929	162929	+	Silent	SNP	G	G	C	rs75342794	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	99.0	166.0	0.0	0.529412	0	G|0.941;C|0.059	0.059	strong	PLEKHG4B_ENST00000283426,NS,carcinoma,+2,1	PLEKHG4B	167	1	NM_052909	exon11	c.G1674C	p.S558S	TACCTCGGTGGCT	.	PASS	Atlas-SNP
KIF7	374654	hgsc.bcm.edu	37	15	90196113	90196113	+	Missense_Mutation	SNP	G	G	A	rs141865394	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	54.0	90.0	0.0	0.54	0	G|0.994;A|0.006	0.006	strong	.	KIF7	130	.	NM_198525	exon2	c.C49T	p.R17W	CAACCCGCACTGG	.	PASS	Atlas-SNP
CPN1	1369	hgsc.bcm.edu	37	10	101835764	101835764	+	Silent	SNP	C	C	G	rs61754515	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	46.0	91.0	0.0	0.522727	0	C|0.959;G|0.041	0.041	strong	.	CPN1	62	.	NM_001308	exon2	c.G324C	p.R108R	CCTGTTCCGGAAC	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77911224	77911224	+	Missense_Mutation	SNP	T	T	C	rs115848453	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	71.0	152.0	0.0	0.39011	0	T|0.995;C|0.005	0.005	strong	.	USP35	179	.	NM_020798	exon5	c.T982C	p.S328P	GCCTTGTCTGTGC	.	PASS	Atlas-SNP
ATP10A	57194	hgsc.bcm.edu	37	15	25963484	25963484	+	Missense_Mutation	SNP	C	C	T	rs116055743	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	65.0	136.0	0.0	0.515873	0	C|0.994;T|0.006	0.006	strong	.	ATP10A	270	.	NM_024490	exon8	c.G1426A	p.G476S	CCGAGCCCCCTCT	.	PASS	Atlas-SNP
DGKI	9162	hgsc.bcm.edu	37	7	137263067	137263067	+	Silent	SNP	T	T	A	rs61751966	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	63.0	98.0	0.0	0.512195	0	T|0.987;A|0.013	0.013	strong	DGKI_ENST00000288490,NS,carcinoma,-2,2	DGKI	335	2	NM_004717	exon16	c.A1647T	p.A549A	TGGATTTGCTTCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179613147	179613147	+	Missense_Mutation	SNP	G	G	C	rs75785339	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	317.0	147.0	282.0	0.0	0.463722	0	G|0.964;C|0.036	0.036	strong	.	TTN	18412	.	NM_133379	exon46	c.C13980G	p.H4660Q	GATATTGTGTGTG	.	PASS	Atlas-SNP
CAGE1	285782	hgsc.bcm.edu	37	6	7379031	7379031	+	Missense_Mutation	SNP	G	G	A	rs10223538	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	72.0	169.0	0.0	0.483221	0	G|0.944;A|0.056	0.056	strong	.	CAGE1	165	.	NM_001170693	exon4	c.C506T	p.T169I	ACACTAGTTTCCA	.	PASS	Atlas-SNP
TP53INP1	94241	hgsc.bcm.edu	37	8	95942773	95942773	+	Silent	SNP	G	G	A	rs77630257	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	82.0	195.0	0.0	0.40796	0	A|0.010;G|0.990	0.010	strong	.	TP53INP1	22	.	NM_033285	exon4	c.C657T	p.H219H	CCGAGGGTGGCAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509076	195509076	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	282.0	24.0	161.0	0.0	0.0851064	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C9375A	p.D3125E	GGAAGTGTCGGTG	.	PASS	Atlas-SNP
DES	1674	hgsc.bcm.edu	37	2	220290674	220290674	+	Missense_Mutation	SNP	G	G	A	rs73991549	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	26.0	54.0	0.0	0.509804	0	G|0.989;A|0.011	0.011	strong	DES,brain,glioma,0,2	DES	53	2	NM_001927	exon9	c.G1375A	p.V459I	CAGGTCGTCAGTG	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133760592	133760592	+	Missense_Mutation	SNP	C	C	T	rs2229067	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	60.0	95.0	0.0	0.625	0	C|0.971;T|0.029	0.029	strong	.	ABL1	1632	.	NM_007313	exon11	c.C2972T	p.S991L	AGCCGTCGGGGAC	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1418188	1418188	+	Missense_Mutation	SNP	C	C	T	rs151268825	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	65.0	144.0	0.0	0.507812	0	C|0.999;T|0.001	0.001	strong	TPO,NS,carcinoma,-1,1	TPO	224	1	NM_175719	exon2	c.C8T	p.A3V	TGAGAGCGCTCGC	.	PASS	Atlas-SNP
OGG1	4968	hgsc.bcm.edu	37	3	9796508	9796508	+	Missense_Mutation	SNP	G	G	A	rs1805373	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	59.0	137.0	0.0	0.40411	0	G|0.969;A|0.031	0.031	strong	.	OGG1	57	.	NM_016819	exon4	c.G686A	p.R229Q	AGCTACGAGAGTC	.	PASS	Atlas-SNP
SFSWAP	6433	hgsc.bcm.edu	37	12	132237789	132237789	+	Silent	SNP	C	C	T	rs202066133	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	70.0	167.0	0.0	0.411765	0	C|1.000;T|0.000	0.000	strong	.	SFSWAP	69	.	NM_001261411	exon8	c.C1203T	p.T401T	CGTGACCGTGTCT	.	PASS	Atlas-SNP
KIAA1199	57214	hgsc.bcm.edu	37	15	81217024	81217024	+	Silent	SNP	G	G	A	rs28566789	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	92.0	184.0	0.0	0.469388	0	G|0.973;A|0.027	0.027	strong	.	KIAA1199	118	.	NM_018689	exon17	c.G2265A	p.P755P	GCGGCCGTTCCTC	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	37	10	97154762	97154762	+	Silent	SNP	G	G	A	rs17110703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	108.0	228.0	0.0	0.504673	0	G|0.952;A|0.048	0.048	strong	.	SORBS1	185	.	NM_001034955	exon12	c.C1293T	p.S431S	ACCTTCGGAAGTT	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18715673	18715673	+	Silent	SNP	A	A	G	rs11044184	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	85.0	181.0	0.0	0.442708	0	A|0.941;G|0.059	0.059	strong	.	PIK3C2G	315	.	NM_004570	exon26	c.A3504G	p.K1168K	TGTTAAATTGAAT	.	PASS	Atlas-SNP
CDC5L	988	hgsc.bcm.edu	37	6	44387305	44387305	+	Silent	SNP	T	T	C	rs11571982	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	61.0	144.0	0.0	0.484127	0	T|0.989;C|0.011	0.011	strong	.	CDC5L	86	.	NM_001253	exon9	c.T1212C	p.T404T	ACAGACTCCAAAC	.	PASS	Atlas-SNP
CDC14A	8556	hgsc.bcm.edu	37	1	100928421	100928421	+	Silent	SNP	C	C	T	rs74667145	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	35.0	70.0	0.0	0.479452	0	C|0.999;T|0.001	0.001	strong	.	CDC14A	65	.	NM_033313	exon9	c.C822T	p.I274I	GGCCATCGCCGTT	.	PASS	Atlas-SNP
PDE6A	5145	hgsc.bcm.edu	37	5	149324153	149324153	+	Silent	SNP	G	G	A	rs34230349	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	34.0	97.0	0.0	0.453333	0	G|0.984;A|0.016	0.016	strong	.	PDE6A	98	.	NM_000440	exon1	c.C84T	p.Y28Y	GGCCCGGTAGTGG	.	PASS	Atlas-SNP
ABCC1	4363	hgsc.bcm.edu	37	16	16230427	16230427	+	Silent	SNP	C	C	T	rs34526519	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	54.0	88.0	0.0	0.457627	0	C|0.994;T|0.006	0.006	strong	.	ABCC1	156	.	NM_004996	exon29	c.C4218T	p.A1406A	GCTGGCCCACCTG	.	PASS	Atlas-SNP
SCARB1	949	hgsc.bcm.edu	37	12	125263039	125263039	+	Missense_Mutation	SNP	C	C	T	rs701103	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	29.0	28.0	0.0	0.568627	0	C|0.956;T|0.044	0.044	strong	.	SCARB1	40	.	NM_001082959	exon12	c.G1495A	p.G499R	GCTGTCCGCTGGG	.	PASS	Atlas-SNP
KRT16	3868	hgsc.bcm.edu	37	17	39768756	39768756	+	Missense_Mutation	SNP	C	C	T	rs367990963		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	37.0	72.0	0.0	0.480519	0	.	.	weak	.	KRT16	45	.	NM_005557	exon1	c.G185A	p.C62Y	AGCCCGCAGGCTC	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	37	3	122419292	122419292	+	Missense_Mutation	SNP	A	A	G	rs7632072	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	42.0	65.0	0.0	0.482759	0	A|0.950;G|0.050	0.050	strong	.	PARP14	242	.	NM_017554	exon6	c.A1891G	p.T631A	CCAAACACTGTAA	.	PASS	Atlas-SNP
C9orf50	375759	hgsc.bcm.edu	37	9	132377769	132377769	+	Missense_Mutation	SNP	G	G	A	rs117566704	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	35.0	62.0	0.0	0.555556	0	A|0.001;C|0.002;G|0.998	0.001	strong	.	C9orf50	25	.	NM_199350	exon4	c.C874T	p.R292C	CTGAGCGTCTGCG	.	PASS	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37602611	37602611	+	Missense_Mutation	SNP	C	C	G	rs229568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	34.0	64.0	0.0	0.472222	0	C|0.934;G|0.066	0.066	strong	.	SSTR3	42	.	NM_001051	exon2	c.G1232C	p.S411T	ATCGTGCTGGACT	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50531520	50531520	+	Silent	SNP	C	C	A	rs73307889	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	34.0	78.0	1.0	0.472222	0.0128205	C|0.984;A|0.016	0.016	strong	C10orf71_ENST00000374144,NS,carcinoma,+1,2	C10orf71	179	2	NM_001135196	exon3	c.C930A	p.T310T	CACGACCTTGCTA	.	scavenged	Atlas-SNP
ACOT12	134526	hgsc.bcm.edu	37	5	80655766	80655766	+	Missense_Mutation	SNP	T	T	G	rs147339997	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	79.0	165.0	0.0	0.519737	0	T|0.996;G|0.004	0.004	strong	.	ACOT12	57	.	NM_130767	exon5	c.A452C	p.E151A	GTATCTTCATGTT	.	PASS	Atlas-SNP
ZNF577	84765	hgsc.bcm.edu	37	19	52375809	52375809	+	Silent	SNP	A	A	G	rs142094475	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	26.0	67.0	0.0	0.464286	0	A|0.998;G|0.002	0.002	strong	.	ZNF577	63	.	NM_032679	exon7	c.T1434C	p.Y478Y	TGTAAGATACAAG	.	PASS	Atlas-SNP
C12orf68	387856	hgsc.bcm.edu	37	12	48577925	48577925	+	Missense_Mutation	SNP	A	A	G	rs140861476		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	22.0	49.0	0.0	0.468085	0	A|1.000;G|0.000	0.000	weak	.	C12orf68	11	.	NM_001013635	exon1	c.A20G	p.E7G	TGCTGGAGATCAT	.	PASS	Atlas-SNP
PRR14L	253143	hgsc.bcm.edu	37	22	32109305	32109305	+	Missense_Mutation	SNP	T	T	C	rs112331962	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	50.0	101.0	0.0	0.5	0	T|0.975;C|0.025	0.025	strong	.	PRR14L	198	.	NM_173566	exon4	c.A4520G	p.H1507R	GCACCATGTATTT	.	PASS	Atlas-SNP
FBXO10	26267	hgsc.bcm.edu	37	9	37537892	37537892	+	Missense_Mutation	SNP	G	G	T	rs7044561	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	75.0	137.0	0.0	0.503356	0	G|0.983;T|0.017	0.017	strong	.	FBXO10	75	.	NM_012166	exon3	c.C634A	p.H212N	GGATGTGCCCGTT	.	PASS	Atlas-SNP
MBP	4155	hgsc.bcm.edu	37	18	74701936	74701936	+	Silent	SNP	G	G	A	rs76912958	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	72.0	153.0	0.0	0.486486	0	G|0.977;A|0.023	0.023	strong	.	MBP	45	.	NM_001025101	exon5	c.C657T	p.P219P	GACTACGGGGTTT	.	PASS	Atlas-SNP
PWWP2B	170394	hgsc.bcm.edu	37	10	134219291	134219291	+	Silent	SNP	C	C	T	rs139452616	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	17.0	12.0	19.0	0.0	0.705882	0	C|0.986;T|0.014	0.014	strong	.	PWWP2B	33	.	NM_001098637	exon2	c.C1287T	p.D429D	CCTGGACGAGGCC	.	PASS	Atlas-SNP
LTBP2	4053	hgsc.bcm.edu	37	14	74973926	74973926	+	Missense_Mutation	SNP	C	C	A	rs139481866	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	339.0	178.0	310.0	0.0	0.525074	0	C|0.998;A|0.002	0.002	strong	.	LTBP2	158	.	NM_000428	exon26	c.G3863T	p.G1288V	TGGCAGCCCAGAA	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32134122	32134122	+	Missense_Mutation	SNP	T	T	C	rs75434030	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	91.0	124.0	0.0	0.541667	0	T|0.995;C|0.005	0.005	strong	.	.	.	.	NM_018169	exon4	c.T233C	p.M78T	CTGATATGCATAA	.	PASS	Atlas-SNP
RFX7	64864	hgsc.bcm.edu	37	15	56387581	56387581	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	27.0	79.0	0.0	0.284211	0	.	.	none	RFX7_ENST00000423270,NS,lymphoid_neoplasm,0,2	RFX7	170	2	NM_022841	exon9	c.G2345A	p.W782X	TGTTGCCATCCAT	.	PASS	Atlas-SNP
NUP35	129401	hgsc.bcm.edu	37	2	183993085	183993085	+	Silent	SNP	A	A	G	rs61743390	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	44.0	90.0	0.0	0.444444	0	A|0.989;G|0.011	0.011	strong	.	NUP35	28	.	NM_138285	exon2	c.A111G	p.G37G	ACCTGGATTTTTA	.	PASS	Atlas-SNP
TMED7-TICAM2	100302736	hgsc.bcm.edu	37	5	114916351	114916351	+	Silent	SNP	T	T	G	rs7705473	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	97.0	179.0	0.0	0.563953	0	T|0.989;G|0.011	0.011	strong	.	.	.	.	NM_001164468	exon4	c.A1110C	p.G370G	AGGAAATCCACGA	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130150704	130150704	+	Missense_Mutation	SNP	A	A	G	rs61750883	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	33.0	68.0	0.0	0.485294	0	A|0.993;G|0.007	0.007	strong	.	COL6A5	205	.	NM_153264	exon33	c.A5644G	p.I1882V	TCATCCATCATCA	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38538319	38538319	+	Missense_Mutation	SNP	A	A	G	rs61998236	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	88.0	194.0	0.0	0.478261	0	A|0.974;G|0.026	0.026	strong	.	TTC3	182	.	NM_001001894	exon33	c.A3803G	p.D1268G	CTGAGGATGGGCA	.	PASS	Atlas-SNP
SLC12A3	6559	hgsc.bcm.edu	37	16	56919216	56919216	+	Missense_Mutation	SNP	A	A	G	rs61746763	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	20.0	70.0	0.0	0.4	0	A|0.981;G|0.019	0.019	strong	.	SLC12A3	99	.	NM_001126108	exon15	c.A1865G	p.N622S	CCTACAACCTGGC	.	PASS	Atlas-SNP
BMP1	649	hgsc.bcm.edu	37	8	22059413	22059413	+	Silent	SNP	C	C	G	rs28710878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	39.0	64.0	0.0	0.443182	0	C|0.970;G|0.030	0.030	strong	.	BMP1	131	.	NM_006129	exon16	c.C2205G	p.L735L	CGTCCTCCATGAC	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6966296	6966296	+	Silent	SNP	G	G	A	rs73390557	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	32.0	13.0	55.0	0.0	0.40625	0	G|0.950;A|0.050	0.050	strong	.	LAMA1	458	.	NM_005559	exon49	c.C6900T	p.S2300S	CTGGGAGCTGCAA	.	PASS	Atlas-SNP
TRIM22	10346	hgsc.bcm.edu	37	11	5719649	5719649	+	Silent	SNP	T	T	C	rs78484876	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	239.0	116.0	217.0	1.0	0.485356	0.00460829	T|0.990;C|0.010	0.010	strong	.	TRIM22	66	.	NM_006074	exon4	c.T624C	p.G208G	GGAAGGTGAGGTG	.	PASS	Atlas-SNP
AMER1	139285	hgsc.bcm.edu	37	X	63412690	63412690	+	Missense_Mutation	SNP	A	A	C	rs34677493	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	35.0	63.0	0.0	0.5	0	0|0.013;C|0.188	0.188	strong	.	.	.	.	NM_152424	exon2	c.T477G	p.F159L	AGAGGGAAACTTC	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11114174	11114174	+	Silent	SNP	A	A	G	rs61741309	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	60.0	74.0	0.0	0.517241	0	A|0.962;G|0.038	0.038	strong	.	CLEC16A	101	.	NM_015226	exon11	c.A1428G	p.Q476Q	CACGCAATGGAGC	.	PASS	Atlas-SNP
GEN1	348654	hgsc.bcm.edu	37	2	17961321	17961321	+	Silent	SNP	A	A	G	rs16983864	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	26.0	52.0	0.0	0.490566	0	A|0.963;G|0.037	0.037	strong	.	GEN1	79	.	NM_182625	exon13	c.A1341G	p.A447A	TGAAGCAGCATAT	.	PASS	Atlas-SNP
LRRIQ3	127255	hgsc.bcm.edu	37	1	74649119	74649119	+	Splice_Site	SNP	C	C	T	rs143858191	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	55.0	131.0	0.0	0.462185	0	C|0.998;T|0.002	0.002	strong	.	LRRIQ3	146	.	NM_001105659	exon3	c.249+1G>A	.	TGCTTACCTGATT	.	PASS	Atlas-SNP
TTLL2	83887	hgsc.bcm.edu	37	6	167755063	167755063	+	Missense_Mutation	SNP	G	G	A	rs34931196	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	67.0	177.0	0.0	0.403614	0	G|0.970;A|0.030	0.030	strong	.	TTLL2	82	.	NM_031949	exon3	c.G1675A	p.V559I	GTTCTTGTTTTTC	.	PASS	Atlas-SNP
ZNF41	7592	hgsc.bcm.edu	37	X	47308509	47308509	+	Missense_Mutation	SNP	A	A	C	rs34301930	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	230.0	123.0	197.0	0.0	0.534783	0	A|0.966;C|0.034	0.034	strong	.	ZNF41	71	.	NM_007130	exon5	c.T660G	p.N220K	GTTACCATTTCCA	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141750613	141750613	+	Missense_Mutation	SNP	T	T	A	rs145430437	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	112.0	261.0	0.0	0.432432	0	T|0.988;A|0.012	0.012	strong	.	MGAM	767	.	NM_004668	exon24	c.T2754A	p.N918K	ACACAATGGTGTC	.	PASS	Atlas-SNP
APOBEC3B	9582	hgsc.bcm.edu	37	22	39380131	39380131	+	Silent	SNP	C	C	T	rs61730557	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	244.0	96.0	243.0	0.0	0.393443	0	C|0.974;T|0.026	0.026	strong	.	APOBEC3B	32	.	NM_004900	exon2	c.C69T	p.N23N	TGAAAACGAACCC	.	PASS	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	37	11	108380740	108380740	+	Missense_Mutation	SNP	G	G	C	rs36005552	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	56.0	115.0	0.0	0.629214	0	G|0.990;C|0.010	0.010	strong	.	EXPH5	193	.	NM_015065	exon6	c.C5494G	p.R1832G	TCAGTCGACTCAG	.	PASS	Atlas-SNP
CROT	54677	hgsc.bcm.edu	37	7	86986863	86986863	+	Silent	SNP	T	T	C	rs75642989	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	37.0	59.0	0.0	0.513889	0	T|0.986;C|0.014	0.014	strong	.	CROT	81	.	NM_001143935	exon4	c.T156C	p.D52D	TCCAGATGCTAAG	.	PASS	Atlas-SNP
SFXN2	118980	hgsc.bcm.edu	37	10	104486822	104486822	+	Silent	SNP	C	C	T	rs35094483	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	191.0	190.0	192.0	0.0	0.994764	0	C|0.969;T|0.031	0.031	strong	.	SFXN2	40	.	NM_178858	exon3	c.C240T	p.P80P	CCACCCCGACACT	.	PASS	Atlas-SNP
FAAH	2166	hgsc.bcm.edu	37	1	46874246	46874246	+	Missense_Mutation	SNP	C	C	T	rs77101686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	43.0	59.0	1.0	0.632353	0.0169492	C|0.998;T|0.002	0.002	strong	FAAH,colon,carcinoma,-1,1	FAAH	36	1	NM_001441	exon8	c.C1067T	p.A356V	AGGCTGCGGGGCA	.	scavenged	Atlas-SNP
DCTN1	1639	hgsc.bcm.edu	37	2	74593482	74593482	+	Silent	SNP	G	G	A	rs140986485	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	64.0	140.0	0.0	0.463768	0	G|0.997;A|0.003	0.003	strong	.	DCTN1	110	.	NM_004082	exon23	c.C2649T	p.S883S	GGGGCTGCTGGAG	.	PASS	Atlas-SNP
ZNF597	146434	hgsc.bcm.edu	37	16	3486736	3486736	+	Silent	SNP	G	G	A	rs34461484	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	24.0	43.0	0.0	0.48	0	G|0.985;A|0.015	0.015	strong	.	ZNF597	41	.	NM_152457	exon4	c.C963T	p.D321D	TTCAGAGTCCTCG	.	PASS	Atlas-SNP
OR2T27	403239	hgsc.bcm.edu	37	1	248813473	248813473	+	Missense_Mutation	SNP	A	A	C	rs78776291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	108.0	110.0	0.0	0.559586	0	A|0.941;C|0.059	0.059	strong	.	OR2T27	52	.	NM_001001824	exon1	c.T713G	p.V238G	GTGGCCACAGCCT	.	PASS	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	37	6	44279824	44279824	+	Silent	SNP	C	C	T	rs75506489	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	53.0	125.0	0.0	0.386861	0	C|0.980;T|0.020	0.020	strong	.	AARS2	77	.	NM_020745	exon2	c.G420A	p.G140G	TTCACCCCCAAAG	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	37	9	32492529	32492529	+	Missense_Mutation	SNP	G	G	A	rs55789327	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	108.0	208.0	0.0	0.53202	0	G|0.972;A|0.028	0.028	strong	.	DDX58	82	.	NM_014314	exon4	c.C431T	p.S144F	TTAGTAGAGCAAA	.	PASS	Atlas-SNP
RFC1	5981	hgsc.bcm.edu	37	4	39306504	39306504	+	Silent	SNP	C	C	G	rs2066792	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	77.0	143.0	0.0	0.478261	0	C|0.922;G|0.078	0.078	strong	.	RFC1	114	.	NM_001204747	exon15	c.G2043C	p.R681R	CTTACTCCGGGTG	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140603794	140603794	+	Silent	SNP	C	C	T	rs59600730	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	25.0	98.0	0.0	0.337838	0	C|0.977;T|0.023	0.023	strong	.	PCDHB14	132	.	NM_018934	exon1	c.C717T	p.A239A	TAATGCCCCTGAG	.	PASS	Atlas-SNP
PLOD2	5352	hgsc.bcm.edu	37	3	145794607	145794607	+	Missense_Mutation	SNP	A	A	G	rs115199093	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	78.0	154.0	0.0	0.5	0	A|0.998;G|0.002	0.002	strong	.	PLOD2	81	.	NM_182943	exon15	c.T1639C	p.Y547H	TGTTATAATGGGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508385	195508385	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	352.0	26.0	413.0	0.0	0.0738636	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G10066C	p.G3356R	CGTGACCTGTGGA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152285541	152285541	+	Silent	SNP	T	T	C	rs116417983	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	542.0	253.0	535.0	0.0	0.46679	0	T|0.986;C|0.014	0.014	strong	.	FLG	900	.	NM_002016	exon3	c.A1821G	p.Q607Q	CGATGATTGTCCC	.	PASS	Atlas-SNP
CAPN6	827	hgsc.bcm.edu	37	X	110491865	110491865	+	Silent	SNP	G	G	A	rs17879776	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	50.0	150.0	0.0	0.35461	0	G|0.991;A|0.009	0.009	strong	.	CAPN6	120	.	NM_014289	exon10	c.C1416T	p.T472T	GAACATGGTTGGG	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	37	3	184039304	184039304	+	Missense_Mutation	SNP	A	A	G	rs16858632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	64.0	157.0	0.0	0.467153	0	A|0.976;G|0.024	0.024	strong	.	EIF4G1	151	.	NM_001194946	exon11	c.A953G	p.Y318C	AGCCATATCGCCT	.	PASS	Atlas-SNP
CLEC4C	170482	hgsc.bcm.edu	37	12	7890040	7890040	+	Missense_Mutation	SNP	G	G	T	rs77889141	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	27.0	67.0	0.0	0.5	0	G|0.981;T|0.019	0.019	strong	.	CLEC4C	44	.	NM_130441	exon5	c.C366A	p.N122K	CCTGGTGTTGATC	.	PASS	Atlas-SNP
TDRD5	163589	hgsc.bcm.edu	37	1	179564885	179564885	+	Missense_Mutation	SNP	A	A	G	rs147268063	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	72.0	113.0	0.0	0.483221	0	A|0.997;G|0.003	0.003	strong	.	TDRD5	149	.	NM_173533	exon4	c.A763G	p.M255V	ATGAGCATGGAAA	.	PASS	Atlas-SNP
TXNDC11	51061	hgsc.bcm.edu	37	16	11773261	11773261	+	Silent	SNP	G	G	C	rs8191350	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	53.0	101.0	0.0	0.445378	0	G|0.970;C|0.030	0.030	strong	.	TXNDC11	75	.	NM_015914	exon12	c.C2667G	p.T889T	GTTCTCGGTAAGG	.	PASS	Atlas-SNP
DBN1	1627	hgsc.bcm.edu	37	5	176885145	176885145	+	Missense_Mutation	SNP	A	A	C	rs139935466	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	43.0	117.0	0.0	0.401869	0	A|0.995;C|0.005	0.005	strong	.	DBN1	122	.	NM_080881	exon13	c.T1696G	p.S566A	GGGCTGAGGGCAG	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225373101	225373101	+	Missense_Mutation	SNP	G	G	T	rs6679852	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	55.0	128.0	0.0	0.462185	0	G|0.994;T|0.006	0.006	strong	.	DNAH14	300	.	NM_001373	exon36	c.G5578T	p.V1860F	TTATCAGTTGCAG	.	PASS	Atlas-SNP
NMT1	4836	hgsc.bcm.edu	37	17	43181223	43181223	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	51.0	95.0	0.0	0.443478	0	.	.	none	.	NMT1	31	.	NM_021079	exon10	c.C1311T	p.D437D	GAGCGACGCCCTT	.	PASS	Atlas-SNP
ZNF460	10794	hgsc.bcm.edu	37	19	57802782	57802782	+	Silent	SNP	C	C	T	rs80302225	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	27.0	76.0	0.0	0.428571	0	C|0.994;T|0.006	0.006	strong	.	ZNF460	59	.	NM_006635	exon3	c.C873T	p.Y291Y	TACCTACCGCTCC	.	PASS	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	37	4	87653594	87653594	+	Silent	SNP	A	A	G	rs201078979	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	31.0	87.0	0.0	0.402597	0	A|0.999;G|0.001	0.001	strong	.	PTPN13	203	.	NM_006264	exon11	c.A1650G	p.P550P	TGAACCATTTATA	.	PASS	Atlas-SNP
OR4D9	390199	hgsc.bcm.edu	37	11	59282838	59282838	+	Silent	SNP	G	G	A	rs75125922	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	72.0	102.0	0.0	0.5	0	G|0.966;A|0.034	0.034	strong	.	OR4D9	47	.	NM_001004711	exon1	c.G453A	p.G151G	GGTGGGGGGCTTT	.	PASS	Atlas-SNP
HIST1H4C	8364	hgsc.bcm.edu	37	6	26104382	26104382	+	Silent	SNP	C	C	T	rs2229767	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	81.0	97.0	0.0	0.473684	0	C|0.963;T|0.037	0.037	strong	.	HIST1H4C	14	.	NM_003542	exon1	c.C207T	p.D69D	TCGAGACGCCGTC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11540079	11540079	+	Silent	SNP	C	C	T	rs8065057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	36.0	77.0	0.0	0.387097	0	C|0.984;T|0.016	0.016	strong	.	DNAH9	695	.	NM_001372	exon9	c.C1764T	p.H588H	TCAGCACGTCCAG	.	PASS	Atlas-SNP
KIAA1967	57805	hgsc.bcm.edu	37	8	22472473	22472473	+	Silent	SNP	G	G	A	rs112997942	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	52.0	86.0	0.0	0.485981	0	G|0.993;A|0.007	0.007	strong	.	KIAA1967	72	.	NM_021174	exon11	c.G1164A	p.A388A	CTGTGCGCAGGCC	.	PASS	Atlas-SNP
REPIN1	29803	hgsc.bcm.edu	37	7	150068981	150068981	+	Silent	SNP	G	G	A	rs149624173	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	7.0	4.0	7.0	0.0	0.571429	0	G|0.994;A|0.006	0.006	strong	.	REPIN1	74	.	NM_001099695	exon3	c.G822A	p.R274R	GCCCAGGGGCCGC	.	PASS	Atlas-SNP
GPR179	440435	hgsc.bcm.edu	37	17	36482372	36482372	+	Silent	SNP	A	A	C	rs58740367	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	59.0	72.0	0.0	1	0	A|0.955;C|0.045	0.045	strong	.	GPR179	170	.	NM_001004334	exon11	c.T7080G	p.T2360T	ATAGACAGTGGGA	.	PASS	Atlas-SNP
SLFN13	146857	hgsc.bcm.edu	37	17	33769211	33769211	+	Missense_Mutation	SNP	C	C	T	rs77814846	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	76.0	158.0	0.0	0.490323	0	C|0.987;T|0.013	0.013	strong	.	SLFN13	79	.	NM_144682	exon5	c.G1293A	p.M431I	AGGTCGCATTTGC	.	PASS	Atlas-SNP
PCDHB15	56121	hgsc.bcm.edu	37	5	140627184	140627184	+	Missense_Mutation	SNP	C	C	G	rs79326925	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	63.0	117.0	0.0	0.577982	0	C|0.979;G|0.021	0.021	strong	.	PCDHB15	138	.	NM_018935	exon1	c.C2038G	p.Q680E	CCGGCCCAAGCCC	.	PASS	Atlas-SNP
NCLN	56926	hgsc.bcm.edu	37	19	3207398	3207398	+	Silent	SNP	G	G	A	rs76473246	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	46.0	117.0	0.0	0.489362	0	G|0.967;A|0.033	0.033	strong	.	NCLN	27	.	NM_020170	exon14	c.G1563A	p.P521P	CAAGCCGGCCGTC	.	PASS	Atlas-SNP
SMARCA2	6595	hgsc.bcm.edu	37	9	2039779	2039779	+	Silent	SNP	G	G	A	rs62639301	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	51.0	66.0	1.0	0.520408	0.0151515	G|0.889;A|0.111	0.111	strong	SMARCA2_ENST00000349721,NS,carcinoma,0,2	SMARCA2	313	2	NM_139045	exon4	c.G669A	p.Q223Q	GCAACAGCAGCAG	.	scavenged	Atlas-SNP
THOP1	7064	hgsc.bcm.edu	37	19	2790508	2790508	+	Missense_Mutation	SNP	C	C	T	rs76198851	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	27.0	50.0	0.0	0.586957	0	C|0.998;T|0.002	0.002	strong	.	THOP1	49	.	NM_003249	exon2	c.C106T	p.R36C	GAGGAGCGCACCA	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88501999	88501999	+	Silent	SNP	G	G	A	rs116696830	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	38.0	61.0	0.0	0.475	0	G|0.992;A|0.008	0.008	strong	.	ZNF469	121	.	NM_001127464	exon2	c.G8037A	p.A2679A	TGCAGCGGAGACT	.	PASS	Atlas-SNP
BHLHE41	79365	hgsc.bcm.edu	37	12	26275297	26275297	+	Missense_Mutation	SNP	G	G	T	rs121912617	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	5.0	4.0	4.0	0.0	0.8	0	.	.	alt	.	BHLHE41	20	.	NM_030762	exon5	c.C1151A	p.P384Q	GGGAACGGGGCGG	.	PASS	Atlas-SNP
APC2	10297	hgsc.bcm.edu	37	19	1469030	1469030	+	Silent	SNP	A	A	G	rs265278	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	23.0	17.0	10.0	0.0	0.73913	0	A|0.833;G|0.167	0.167	strong	.	APC2	50	.	NM_005883	exon15	c.A5730G	p.K1910K	GCCCAAAACGCCG	.	PASS	Atlas-SNP
FUK	197258	hgsc.bcm.edu	37	16	70508544	70508544	+	Missense_Mutation	SNP	C	C	T	rs17883716	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	47.0	93.0	0.0	0.489583	0	C|0.995;T|0.005	0.005	strong	.	FUK	72	.	NM_145059	exon17	c.C2102T	p.P701L	AACTGCCGGGACC	.	PASS	Atlas-SNP
MECOM	2122	hgsc.bcm.edu	37	3	168833976	168833976	+	Missense_Mutation	SNP	C	C	T	rs149928659	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	90.0	240.0	0.0	0.481283	0	C|0.999;T|0.001	0.001	strong	.	MECOM	216	.	NM_004991	exon8	c.G1684A	p.E562K	ACCTCTCGGGCTG	.	PASS	Atlas-SNP
RBM44	375316	hgsc.bcm.edu	37	2	238725833	238725833	+	Missense_Mutation	SNP	A	A	G	rs73086770	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	85.0	185.0	0.0	0.399061	0	A|0.967;G|0.033	0.033	strong	.	RBM44	167	.	NM_001080504	exon3	c.A274G	p.S92G	ACAGAGAGTACTC	.	PASS	Atlas-SNP
TNFSF15	9966	hgsc.bcm.edu	37	9	117568219	117568219	+	Missense_Mutation	SNP	C	C	T	rs150191342	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	75.0	104.0	0.0	0.694444	0	C|0.996;T|0.004	0.004	strong	.	TNFSF15	23	.	NM_005118	exon1	c.G74A	p.R25K	TTGGGCCTGCAGC	.	PASS	Atlas-SNP
TSHZ3	57616	hgsc.bcm.edu	37	19	31767717	31767717	+	Silent	SNP	G	G	A	rs61744745	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	86.0	155.0	0.0	0.51497	0	G|0.961;A|0.039	0.039	strong	.	TSHZ3	549	.	NM_020856	exon2	c.C2982T	p.H994H	CTCTAGGTGACTG	.	PASS	Atlas-SNP
SERPINA5	5104	hgsc.bcm.edu	37	14	95056407	95056407	+	Missense_Mutation	SNP	G	G	C	rs6114	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	50.0	141.0	0.0	0.413223	0	G|0.974;C|0.026	0.026	strong	.	SERPINA5	69	.	NM_000624	exon4	c.G649C	p.G217R	CACAAAGGCACCC	.	PASS	Atlas-SNP
ACOT11	26027	hgsc.bcm.edu	37	1	55073630	55073630	+	Silent	SNP	C	C	T	rs78753605	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	87.0	165.0	0.0	0.55414	0	C|0.984;T|0.016	0.016	strong	.	ACOT11	105	.	NM_147161	exon15	c.C1518T	p.I506I	TGTCATCGCGCTG	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3245054	3245054	+	Missense_Mutation	SNP	C	C	T	rs73657835	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	42.0	86.0	0.0	0.5	0	C|0.966;T|0.034	0.034	strong	CSMD1_ENST00000537824,NS,carcinoma,+1,2	CSMD1	1469	2	NM_033225	exon18	c.G2744A	p.R915K	TGGTTCCTCTCAC	.	PASS	Atlas-SNP
FER1L6	654463	hgsc.bcm.edu	37	8	124987404	124987404	+	Missense_Mutation	SNP	A	A	G	rs77810887	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	288.0	150.0	252.0	0.0	0.520833	0	A|0.988;G|0.012	0.012	strong	.	FER1L6	268	.	NM_001039112	exon8	c.A541G	p.N181D	TTCTGCAACAAGT	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123970173	123970173	+	Missense_Mutation	SNP	T	T	C	rs7083331	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	46.0	93.0	0.0	0.479167	0	T|0.899;C|0.101	0.101	strong	.	TACC2	271	.	NM_206862	exon9	c.T6233C	p.I2078T	TCCCCATCTCTAA	.	PASS	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47603338	47603338	+	Missense_Mutation	SNP	G	G	A	rs112604161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	82.0	110.0	0.0	0.479532	0	G|0.987;A|0.013	0.013	strong	.	CYP4A22	60	.	NM_001010969	exon1	c.G181A	p.G61R	CTCTTCGGGCACA	.	PASS	Atlas-SNP
ELL	8178	hgsc.bcm.edu	37	19	18561473	18561473	+	Silent	SNP	G	G	A	rs34868531	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	58.0	50.0	0.0	0.54717	0	G|0.980;A|0.020	0.020	strong	.	ELL	52	.	NM_006532	exon8	c.C1279T	p.L427L	GGGGCAGGCCGAG	.	PASS	Atlas-SNP
CNTNAP1	8506	hgsc.bcm.edu	37	17	40841001	40841001	+	Missense_Mutation	SNP	G	G	C	rs35437096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	53.0	118.0	1.0	0.486239	0.00847458	G|0.961;C|0.039	0.039	strong	CNTNAP1,uveal_tract,malignant_melanoma,-1,1	CNTNAP1	116	1	NM_003632	exon10	c.G1564C	p.V522L	ACTCTGGTGGAGG	.	scavenged	Atlas-SNP
ABLIM1	3983	hgsc.bcm.edu	37	10	116203801	116203801	+	Silent	SNP	A	A	C	rs74158004	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	57.0	112.0	0.0	0.459677	0	A|0.963;C|0.037	0.037	strong	.	ABLIM1	131	.	NM_002313	exon17	c.T1920G	p.S640S	GATGGGAGAATCG	.	PASS	Atlas-SNP
CTC1	80169	hgsc.bcm.edu	37	17	8135446	8135446	+	Silent	SNP	G	G	A	rs3027235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	41.0	53.0	0.0	0.445652	0	G|0.964;A|0.036	0.036	strong	.	CTC1	75	.	NM_025099	exon13	c.C2160T	p.T720T	TGGGCCGGTGGGA	.	PASS	Atlas-SNP
CNPY4	245812	hgsc.bcm.edu	37	7	99722173	99722173	+	Missense_Mutation	SNP	G	G	A	rs60551236	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	46.0	100.0	0.0	0.479167	0	G|0.979;A|0.021	0.021	strong	.	CNPY4	18	.	NM_152755	exon5	c.G502A	p.G168R	ATTGTGGGAGACT	.	PASS	Atlas-SNP
CTAGE5	4253	hgsc.bcm.edu	37	14	39736693	39736693	+	Silent	SNP	G	G	T	rs34909359	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	33.0	74.0	0.0	0.452055	0	G|0.979;T|0.021	0.021	strong	.	CTAGE5	75	.	NM_001247989	exon1	c.G30T	p.P10P	TCAACCGTATTTG	.	PASS	Atlas-SNP
CLU	1191	hgsc.bcm.edu	37	8	27457512	27457512	+	Missense_Mutation	SNP	T	T	G	rs9331936	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	45.0	78.0	0.0	0.555556	0	T|0.922;G|0.078	0.078	strong	.	CLU	54	.	NM_001831	exon7	c.A949C	p.N317H	AGGGGTTGTTGGT	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155219318	155219318	+	Missense_Mutation	SNP	C	C	G	rs28561984	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	94.0	212.0	0.0	0.456311	0	C|0.867;G|0.027;T|0.106	0.027	strong	.	DCHS2	594	.	NM_017639	exon18	c.G4783C	p.E1595Q	GCGACTCGGGGGA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237275	31237275	+	Missense_Mutation	SNP	G	G	A	rs41559915	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	81.0	157.0	0.0	0.522581	0	G|0.981;A|0.019	0.019	strong	HLA-C_ENST00000383329,NS,carcinoma,-1,2	HLA-C	92	2	NM_002117	exon6	c.C1043T	p.A348V	CACGCAGCCTGAG	.	PASS	Atlas-SNP
SLC26A10	65012	hgsc.bcm.edu	37	12	58017665	58017665	+	Nonsense_Mutation	SNP	G	G	A	rs115563091	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	40.0	70.0	0.0	0.56338	0	G|0.999;A|0.001	0.001	strong	.	SLC26A10	89	.	NM_133489	exon8	c.G1100A	p.W367X	TGCTGTGGCTGGG	.	PASS	Atlas-SNP
KLHL36	79786	hgsc.bcm.edu	37	16	84691256	84691256	+	Silent	SNP	C	C	T	rs12102528	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	23.0	45.0	0.0	0.38983	0	C|0.984;T|0.016	0.016	strong	.	KLHL36	51	.	NM_024731	exon3	c.C843T	p.P281P	CCAGCCCGTCATG	.	PASS	Atlas-SNP
TMEM8B	51754	hgsc.bcm.edu	37	9	35842480	35842480	+	Silent	SNP	A	A	G	rs7037450	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	52.0	115.0	0.0	0.495238	0	A|0.962;G|0.038	0.038	strong	.	TMEM8B	53	.	NM_001042590	exon6	c.A45G	p.E15E	CCCAGAACCGCCA	.	PASS	Atlas-SNP
CEP85L	387119	hgsc.bcm.edu	37	6	118887215	118887215	+	Missense_Mutation	SNP	T	T	A	rs9489444	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	114.0	175.0	0.0	0.564356	0	T|0.964;A|0.036	0.036	strong	.	CEP85L	26	.	NM_001178035	exon4	c.A506T	p.D169V	CAGTTATCCGGGG	.	PASS	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	37	3	108780895	108780895	+	Silent	SNP	T	T	A	rs79817474	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	68.0	128.0	0.0	0.561983	0	T|0.989;A|0.011	0.011	strong	.	MORC1	211	.	NM_014429	exon11	c.A906T	p.I302I	TTTCAATATGGAT	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	14000	14000	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	8.0	8.0	8.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.T1664A	p.L555Q	TAGACCTAACCTG	.	PASS	Atlas-SNP
SLC26A8	116369	hgsc.bcm.edu	37	6	35987425	35987425	+	Silent	SNP	T	T	C	rs61743377	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	89.0	227.0	0.0	0.434146	0	T|0.986;C|0.014	0.014	strong	.	SLC26A8	95	.	NM_052961	exon2	c.A60G	p.S20S	TGCGAATGAGTTT	.	PASS	Atlas-SNP
OR13F1	138805	hgsc.bcm.edu	37	9	107266813	107266813	+	Silent	SNP	C	C	T	rs61754949	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	47.0	196.0	0.0	0.279762	0	C|0.987;T|0.013	0.013	strong	.	OR13F1	75	.	NM_001004485	exon1	c.C270T	p.N90N	GAGAAACACTATT	.	PASS	Atlas-SNP
ZNF844	284391	hgsc.bcm.edu	37	19	12186372	12186372	+	Missense_Mutation	SNP	G	G	A	rs56481038		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	57.0	86.0	0.0	0.518182	0	.	.	weak	.	ZNF844	69	.	NM_001136501	exon4	c.G437A	p.R146H	AACAACGTAAGAA	.	PASS	Atlas-SNP
PSG8	440533	hgsc.bcm.edu	37	19	43269686	43269686	+	Silent	SNP	C	C	T	rs61393109	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	20.0	31.0	0.0	0.465116	0	C|0.988;T|0.012	0.012	strong	.	PSG8	101	.	NM_001130168	exon1	c.G48A	p.K16K	GAGCCCCTTCCAG	.	PASS	Atlas-SNP
CDC42EP2	10435	hgsc.bcm.edu	37	11	65088498	65088498	+	Silent	SNP	T	T	C	rs4149835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	57.0	133.0	0.0	0.445312	0	T|0.914;C|0.086	0.086	strong	.	CDC42EP2	13	.	NM_006779	exon2	c.T129C	p.I43I	TCATATTGGCAGT	.	PASS	Atlas-SNP
CEACAM4	1089	hgsc.bcm.edu	37	19	42125710	42125710	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	55.0	103.0	0.0	0.474138	0	.	.	none	CEACAM4,NS,neuroblastoma,+1,1	CEACAM4	42	1	NM_001817	exon7	c.T728C	p.V243A	TAAGAGACCACAT	.	PASS	Atlas-SNP
FAH	2184	hgsc.bcm.edu	37	15	80460421	80460421	+	Silent	SNP	C	C	T	rs116272698	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	105.0	215.0	0.0	0.477273	0	C|0.990;T|0.010	0.010	strong	.	FAH	36	.	NM_000137	exon6	c.C483T	p.G161G	CCATGGCCGTGCC	.	PASS	Atlas-SNP
FAAH	2166	hgsc.bcm.edu	37	1	46877885	46877885	+	Missense_Mutation	SNP	C	C	G	rs75429705	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	107.0	207.0	1.0	0.545918	0.00483092	C|0.997;G|0.003	0.003	strong	.	FAAH	36	.	NM_001441	exon13	c.C1427G	p.A476G	TGCTGGCCCCTGC	.	PASS	Atlas-SNP
BCAN	63827	hgsc.bcm.edu	37	1	156621252	156621252	+	Silent	SNP	G	G	A	rs146863260	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	24.0	35.0	0.0	0.470588	0	G|0.994;A|0.006	0.006	strong	.	BCAN	174	.	NM_198427	exon7	c.G1068A	p.S356S	AGACTCGGCCCAG	.	PASS	Atlas-SNP
CYP8B1	1582	hgsc.bcm.edu	37	3	42916596	42916596	+	Missense_Mutation	SNP	T	T	C	rs35764459	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	46.0	98.0	0.0	0.469388	0	T|0.977;C|0.023	0.023	strong	.	CYP8B1	59	.	NM_004391	exon1	c.A713G	p.K238R	AGCATCTTGTGAA	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	37	9	5050706	5050706	+	Silent	SNP	C	C	T	rs2230722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	32.0	86.0	0.0	0.432432	0	C|0.647;T|0.353	0.353	strong	.	JAK2	35466	.	NM_004972	exon6	c.C489T	p.H163H	TGTGCACGGATGG	.	PASS	Atlas-SNP
SYCP1	6847	hgsc.bcm.edu	37	1	115537343	115537343	+	Silent	SNP	T	T	C	rs17033011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	53.0	93.0	0.0	0.490741	0	T|0.954;C|0.046	0.046	strong	.	SYCP1	149	.	NM_003176	exon31	c.T2728C	p.L910L	GAGACATTGAAAA	.	PASS	Atlas-SNP
FAM110A	83541	hgsc.bcm.edu	37	20	825579	825579	+	Silent	SNP	G	G	A	rs8124809	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	86.0	87.0	0.0	0.547771	0	A|0.020;C|0.000;G|0.979	0.020	strong	.	FAM110A	18	.	NM_207121	exon2	c.G132A	p.E44E	TGTGGAGCGCCTG	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48174766	48174766	+	Silent	SNP	A	A	G	rs16945872	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	47.0	94.0	0.0	0.456311	0	A|0.955;G|0.045	0.045	strong	.	ABCC12	190	.	NM_033226	exon4	c.T489C	p.I163I	CAGTCCAATGCCA	.	PASS	Atlas-SNP
CCDC18	343099	hgsc.bcm.edu	37	1	93720153	93720153	+	Missense_Mutation	SNP	G	G	T	rs61729705	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	90.0	217.0	0.0	0.45	0	A|0.000;G|0.947;T|0.053	0.053	strong	.	CCDC18	93	.	NM_206886	exon24	c.G3324T	p.R1108S	ACAAAGGATGAAA	.	PASS	Atlas-SNP
VWA5B1	127731	hgsc.bcm.edu	37	1	20640969	20640969	+	Silent	SNP	G	G	A	rs114916291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	68.0	115.0	0.0	0.591304	0	G|0.988;A|0.012	0.012	strong	.	VWA5B1	44	.	NM_001039500	exon4	c.G447A	p.S149S	CTCCTCGGAGCTC	.	PASS	Atlas-SNP
MAPK10	5602	hgsc.bcm.edu	37	4	86950354	86950354	+	Silent	SNP	A	A	G	rs148438622	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	45.0	103.0	0.0	0.45	0	A|1.000;G|0.000	0.000	strong	MAPK10_ENST00000449047,colon,carcinoma,-2,2	MAPK10	106	2	NM_002753	exon13	c.T1248C	p.P416P	ACCTGAAGGAGAA	.	PASS	Atlas-SNP
ACVR1B	91	hgsc.bcm.edu	37	12	52370181	52370181	+	Silent	SNP	G	G	A	rs115556161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	85.0	154.0	0.0	0.508982	0	G|0.994;A|0.006	0.006	strong	.	ACVR1B	167	.	NM_020328	exon3	c.G402A	p.P134P	CGGCCCGGTGTTC	.	PASS	Atlas-SNP
RAB4A	5867	hgsc.bcm.edu	37	1	229431613	229431613	+	Silent	SNP	T	T	C	rs114366150	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	41.0	68.0	0.0	0.427083	0	T|0.998;C|0.002	0.002	strong	.	RAB4A	29	.	NM_004578	exon4	c.T246C	p.Y82Y	AAGTTATTACCGA	.	PASS	Atlas-SNP
CCDC102B	79839	hgsc.bcm.edu	37	18	66678192	66678192	+	Missense_Mutation	SNP	G	G	C	rs9963788	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	104.0	97.0	0.0	1	0	G|0.928;C|0.072	0.072	strong	.	CCDC102B	92	.	NM_001093729	exon9	c.G1285C	p.A429P	CAACATGCCTACT	.	PASS	Atlas-SNP
ITGA2B	3674	hgsc.bcm.edu	37	17	42457087	42457087	+	Silent	SNP	C	C	T	rs79289329	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	52.0	107.0	0.0	0.448276	0	C|0.994;T|0.006	0.006	strong	.	ITGA2B	88	.	NM_000419	exon18	c.G1848A	p.V616V	ATGCAGCACGACA	.	PASS	Atlas-SNP
AFF4	27125	hgsc.bcm.edu	37	5	132232148	132232148	+	Missense_Mutation	SNP	C	C	G	rs138811630	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	89.0	173.0	0.0	0.454082	0	C|0.999;G|0.001	0.001	strong	.	AFF4	120	.	NM_014423	exon11	c.G2174C	p.R725T	GGTATTCTAGTCA	.	PASS	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	37	22	21991224	21991224	+	Silent	SNP	C	C	T	rs45533832	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	44.0	87.0	0.0	0.488889	0	C|0.974;T|0.026	0.026	strong	.	CCDC116	56	.	NM_152612	exon5	c.C1707T	p.T569T	CTGCACCGGCATG	.	PASS	Atlas-SNP
MSH2	4436	hgsc.bcm.edu	37	2	47637246	47637246	+	Missense_Mutation	SNP	A	A	G	rs17217772	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	44.0	103.0	0.0	0.5	0	A|0.965;G|0.035	0.035	strong	.	MSH2	198	.	NM_000251	exon3	c.A380G	p.N127S	CTGGCAATCTCTC	.	PASS	Atlas-SNP
LRRC71	149499	hgsc.bcm.edu	37	1	156902678	156902678	+	Missense_Mutation	SNP	G	G	A	rs11264585	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	57.0	98.0	0.0	0.495652	0	G|0.981;A|0.019	0.019	strong	.	LRRC71	33	.	NM_144702	exon15	c.G1597A	p.A533T	GCGTACGCCATAA	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112740561	112740561	+	Silent	SNP	A	A	G	rs115203717	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	54.0	151.0	0.0	0.439024	0	A|0.995;G|0.005	0.005	strong	.	MERTK	112	.	NM_006343	exon8	c.A1287G	p.A429A	GAGTGCAGGGATT	.	PASS	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	37	3	130289687	130289687	+	Silent	SNP	C	C	T	rs59562634	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	74.0	76.0	0.0	0.986667	0	C|0.945;T|0.055	0.055	strong	.	COL6A6	497	.	NM_001102608	exon6	c.C2427T	p.D809D	TTTAGACGTTGTG	.	PASS	Atlas-SNP
ECSIT	51295	hgsc.bcm.edu	37	19	11618846	11618846	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	76.0	129.0	0.0	0.531469	0	.	.	none	.	ECSIT	32	.	NM_001142464	exon5	c.C756G	p.D252E	TGTTGAGTCTTTG	.	PASS	Atlas-SNP
IL1R1	3554	hgsc.bcm.edu	37	2	102781466	102781466	+	Silent	SNP	A	A	G	rs144946641	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	44.0	81.0	0.0	0.473118	0	A|0.998;G|0.002	0.002	strong	IL1R1,NS,carcinoma,0,1	IL1R1	52	1	NM_000877	exon3	c.A294G	p.V98V	CGTGGTAAGGTAA	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11592928	11592928	+	Silent	SNP	C	C	T	rs35922062	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	46.0	75.0	0.0	0.522727	0	C|0.988;T|0.012	0.012	strong	.	DNAH9	695	.	NM_001372	exon20	c.C3789T	p.I1263I	GCACATCGAGATC	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	37	20	57766397	57766397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	25.0	35.0	0.0	0.531915	0	.	.	none	.	ZNF831	287	.	NM_178457	exon1	c.C323T	p.P108L	GGAAGCCGGCGGC	.	PASS	Atlas-SNP
RGS3	5998	hgsc.bcm.edu	37	9	116356389	116356389	+	Missense_Mutation	SNP	C	C	T	rs57845277	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	94.0	273.0	0.0	0.362934	0	C|0.988;T|0.012	0.012	strong	.	RGS3	251	.	NM_144489	exon1	c.C190T	p.R64W	CAGCCCCGGCTTG	.	PASS	Atlas-SNP
CCDC132	55610	hgsc.bcm.edu	37	7	92926102	92926102	+	Missense_Mutation	SNP	A	A	G	rs374290264		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	32.0	67.0	0.0	0.426667	0	.	.	weak	.	CCDC132	136	.	NM_017667	exon15	c.A1216G	p.I406V	TTGTCTATATTCA	.	PASS	Atlas-SNP
CCDC130	81576	hgsc.bcm.edu	37	19	13873793	13873793	+	Missense_Mutation	SNP	C	C	A	rs138278370	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	13.0	52.0	0.0	0.325	0	C|0.994;A|0.006	0.006	strong	.	CCDC130	25	.	NM_030818	exon10	c.C1102A	p.Q368K	TCCTCCCAGGAGG	.	PASS	Atlas-SNP
SLC24A1	9187	hgsc.bcm.edu	37	15	65918277	65918277	+	Missense_Mutation	SNP	C	C	T	rs35398714	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	33.0	75.0	0.0	0.540984	0	C|0.995;T|0.005	0.005	strong	.	SLC24A1	58	.	NM_004727	exon2	c.C1859T	p.A620V	CAGTGGCCAAGGT	.	PASS	Atlas-SNP
RDH8	50700	hgsc.bcm.edu	37	19	10132358	10132358	+	Missense_Mutation	SNP	G	G	A	rs142753796	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	54.0	108.0	0.0	0.568421	0	G|0.999;A|0.001	0.001	strong	.	RDH8	51	.	NM_015725	exon6	c.G929A	p.R310H	GTCCACGCCTCCT	.	PASS	Atlas-SNP
BRSK1	84446	hgsc.bcm.edu	37	19	55823421	55823421	+	Silent	SNP	G	G	C	rs113284733	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	27.0	71.0	0.0	0.45	0	G|0.998;C|0.002	0.002	strong	.	BRSK1	192	.	NM_032430	exon19	c.G2322C	p.G774G	CAACGGGACCCCT	.	PASS	Atlas-SNP
ACTBL2	345651	hgsc.bcm.edu	37	5	56778213	56778213	+	Missense_Mutation	SNP	C	C	T	rs73757391	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	99.0	169.0	0.0	0.529412	0	C|0.973;T|0.027	0.027	strong	.	ACTBL2	65	.	NM_001017992	exon1	c.G322A	p.E108K	GTGCCTCGGTGAG	.	PASS	Atlas-SNP
CXorf36	79742	hgsc.bcm.edu	37	X	45059838	45059838	+	Splice_Site	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	67.0	155.0	0.0	0.527559	0	.	.	none	.	CXorf36	53	.	NM_176819	exon2	c.233+1G>T	.	TTCTGACCTTATT	.	PASS	Atlas-SNP
SPIRE2	84501	hgsc.bcm.edu	37	16	89927102	89927102	+	Missense_Mutation	SNP	G	G	A	rs28478911	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	41.0	67.0	0.0	0.539474	0	G|1.000;|0.000	.	weak	SPIRE2,colon,carcinoma,-1,1	SPIRE2	63	1	NM_032451	exon10	c.G1474A	p.A492T	TGTCCCGCGAGTG	.	PASS	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	37	11	73759251	73759251	+	Missense_Mutation	SNP	T	T	C	rs1632242	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	42.0	97.0	0.0	0.424242	0	T|0.962;C|0.038	0.038	strong	.	C2CD3	288	.	NM_015531	exon28	c.A5494G	p.R1832G	CTCACCTCCCAGG	.	PASS	Atlas-SNP
KIRREL3	84623	hgsc.bcm.edu	37	11	126294661	126294661	+	Silent	SNP	G	G	A	rs34844660	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	54.0	115.0	0.0	0.495413	0	G|0.992;A|0.008	0.008	strong	.	KIRREL3	183	.	NM_032531	exon17	c.C2151T	p.S717S	GCTGTCGCTGAGG	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76570924	76570924	+	Silent	SNP	G	G	A	rs61745225	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	85.0	206.0	0.0	0.414634	0	G|0.948;A|0.052	0.052	strong	.	DNAH17	347	.	NM_173628	exon2	c.C216T	p.L72L	GGACTTGAGGGAC	.	PASS	Atlas-SNP
NFASC	23114	hgsc.bcm.edu	37	1	204939763	204939763	+	Silent	SNP	C	C	T	rs6690894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	60.0	101.0	0.0	0.458015	0	C|0.974;T|0.026	0.026	strong	.	NFASC	396	.	NM_015090	exon11	c.C1056T	p.D352D	GCTGGACGAACCC	.	PASS	Atlas-SNP
ZNF212	7988	hgsc.bcm.edu	37	7	148947564	148947564	+	Silent	SNP	C	C	T	rs138413836	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	59.0	87.0	0.0	0.567308	0	C|0.999;T|0.001	0.001	strong	.	ZNF212	28	.	NM_012256	exon2	c.C339T	p.N113N	GGAGAACGTGGAG	.	PASS	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52192308	52192308	+	Missense_Mutation	SNP	A	A	C	rs61758384	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	17.0	32.0	0.0	0.425	0	A|0.985;C|0.015	0.015	strong	ZNF217,NS,carcinoma,+1,1	ZNF217	227	1	NM_006526	exon3	c.T2995G	p.C999G	GCACACAAGTGTA	.	PASS	Atlas-SNP
RBM12	10137	hgsc.bcm.edu	37	20	34241530	34241530	+	Missense_Mutation	SNP	T	T	C	rs17092928	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	78.0	149.0	0.0	0.527027	0	T|0.978;C|0.022	0.022	strong	.	RBM12	93	.	NM_001198840	exon2	c.A1715G	p.N572S	ACAGCATTTTCAT	.	PASS	Atlas-SNP
ZNF667	63934	hgsc.bcm.edu	37	19	56952615	56952615	+	Silent	SNP	A	A	G	rs61740673	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	40.0	98.0	0.0	0.425532	0	A|0.965;G|0.035	0.035	strong	ZNF667,NS,NS,-2,1	ZNF667	95	1	NM_022103	exon5	c.T1749C	p.Y583Y	ACATTCATAGGGT	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3187831	3187831	+	Missense_Mutation	SNP	C	C	T	rs34837384	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	41.0	100.0	0.0	0.506173	0	C|0.992;T|0.008	0.008	strong	.	PITRM1	109	.	NM_001242307	exon21	c.G2417A	p.R806Q	TTACTCCGACCGA	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249530	71249530	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	16.0	157.0	1.0	0.069869	0.00636943	.	.	none	KRTAP5-8,NS,carcinoma,+1,1	KRTAP5-8	28	1	NM_021046	exon1	c.T429C	p.C143C	CTGCTGTTCCCAG	.	scavenged	Atlas-SNP
FAM134B	54463	hgsc.bcm.edu	37	5	16475209	16475209	+	Missense_Mutation	SNP	G	G	C	rs34432513	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	104.0	196.0	0.0	0.504854	0	G|0.984;C|0.016	0.016	strong	.	FAM134B	72	.	NM_001034850	exon9	c.C1135G	p.Q379E	CCAACTGTTCCTT	.	PASS	Atlas-SNP
CNTN4	152330	hgsc.bcm.edu	37	3	2787338	2787338	+	Silent	SNP	G	G	A	rs116041691	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	48.0	105.0	0.0	0.615385	0	G|0.996;A|0.004	0.004	strong	CNTN4_ENST00000418658,NS,carcinoma,0,1	CNTN4	335	1	NM_175607	exon6	c.G315A	p.S105S	AAACTCGTTTGGA	.	PASS	Atlas-SNP
NUP133	55746	hgsc.bcm.edu	37	1	229636561	229636561	+	Missense_Mutation	SNP	C	C	T	rs75411588	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	38.0	55.0	0.0	0.493506	0	C|0.972;T|0.028	0.028	strong	.	NUP133	111	.	NM_018230	exon4	c.G455A	p.S152N	TCGGCACTCCAGT	.	PASS	Atlas-SNP
DCP1B	196513	hgsc.bcm.edu	37	12	2102455	2102455	+	Silent	SNP	A	A	C	rs150415068	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	85.0	146.0	0.0	0.459459	0	A|0.998;C|0.002	0.002	strong	DCP1B,rectum,carcinoma,0,6	DCP1B	63	6	NM_152640	exon3	c.T294G	p.P98P	AAGGAAAGGGTCC	.	PASS	Atlas-SNP
APOH	350	hgsc.bcm.edu	37	17	64216797	64216797	+	Missense_Mutation	SNP	G	G	T	rs114459902	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	57.0	156.0	0.0	0.387755	0	G|0.993;T|0.007	0.007	strong	.	APOH	45	.	NM_000042	exon5	c.C479A	p.A160D	TTTCCAGCTGATG	.	PASS	Atlas-SNP
OR10T2	128360	hgsc.bcm.edu	37	1	158369210	158369210	+	Missense_Mutation	SNP	A	A	G	rs6660222	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	53.0	96.0	0.0	0.477477	0	A|0.976;G|0.024	0.024	strong	.	OR10T2	76	.	NM_001004475	exon1	c.T47C	p.V16A	AAACCCACCAGGA	.	PASS	Atlas-SNP
LRRFIP2	9209	hgsc.bcm.edu	37	3	37144480	37144480	+	Missense_Mutation	SNP	G	G	A	rs143314448	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	39.0	102.0	0.0	0.481481	0	G|0.999;A|0.001	0.001	strong	.	LRRFIP2	71	.	NM_006309	exon16	c.C808T	p.R270C	TGGAGCGACTGAA	.	PASS	Atlas-SNP
NOD1	10392	hgsc.bcm.edu	37	7	30491081	30491081	+	Missense_Mutation	SNP	G	G	A	rs151170709	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	34.0	53.0	0.0	0.539683	0	G|0.998;A|0.002	0.002	strong	.	NOD1	79	.	NM_006092	exon6	c.C1952T	p.T651M	ATGAACGTGGGCA	.	PASS	Atlas-SNP
SLC44A2	57153	hgsc.bcm.edu	37	19	10713212	10713212	+	Silent	SNP	G	G	A	rs115559926	byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	13.0	21.0	0.0	0.619048	0	G|0.986;A|0.014	0.014	strong	.	SLC44A2	56	.	NM_001145056	exon1	c.G6A	p.E2E	CATGGAGGACGAG	.	PASS	Atlas-SNP
RARS2	57038	hgsc.bcm.edu	37	6	88279282	88279282	+	Silent	SNP	T	T	C	rs7748563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	71.0	137.0	0.0	0.452229	0	T|0.987;C|0.013	0.013	strong	.	RARS2	61	.	NM_020320	exon2	c.A63G	p.P21P	GTTTTCTGGTGGA	.	PASS	Atlas-SNP
ALG3	10195	hgsc.bcm.edu	37	3	183963000	183963000	+	Silent	SNP	A	A	G	rs2233464	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	67.0	128.0	0.0	0.492647	0	A|0.962;G|0.038	0.038	strong	.	ALG3	48	.	NM_005787	exon4	c.T591C	p.G197G	GCAGCAACCCCAG	.	PASS	Atlas-SNP
CD163	9332	hgsc.bcm.edu	37	12	7636027	7636027	+	Silent	SNP	A	A	G	rs78817356	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	58.0	131.0	0.0	0.471545	0	A|0.978;G|0.022	0.022	strong	.	CD163	221	.	NM_203416	exon12	c.T3024C	p.C1008C	GGCAGGACAATCC	.	PASS	Atlas-SNP
ADAMTSL5	339366	hgsc.bcm.edu	37	19	1506799	1506799	+	Silent	SNP	C	C	T	rs79538691	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	25.0	36.0	0.0	0.5	0	C|0.982;T|0.018	0.018	strong	.	ADAMTSL5	24	.	NM_213604	exon10	c.G981A	p.V327V	AGGCTCCACCCCC	.	PASS	Atlas-SNP
C1QL2	165257	hgsc.bcm.edu	37	2	119915750	119915750	+	Silent	SNP	G	G	T	rs113019193	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	7.0	4.0	7.0	0.0	0.571429	0	G|0.981;T|0.019	0.019	strong	.	C1QL2	25	.	NM_182528	exon1	c.C96A	p.I32I	GTCGCAGATCATG	.	PASS	Atlas-SNP
ISYNA1	51477	hgsc.bcm.edu	37	19	18547209	18547209	+	Silent	SNP	G	G	A	rs61743954	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	12.0	44.0	0.0	0.333333	0	G|0.982;A|0.018	0.018	strong	.	ISYNA1	31	.	NM_016368	exon6	c.C690T	p.N230N	CTCCGTGTTCGCC	.	PASS	Atlas-SNP
MYH4	4622	hgsc.bcm.edu	37	17	10354747	10354747	+	Missense_Mutation	SNP	C	C	T	rs200121484	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	202.0	99.0	198.0	0.0	0.490099	0	.	.	weak	MYH4,caecum,carcinoma,0,1	MYH4	349	1	NM_017533	exon28	c.G3761A	p.R1254H	AGGGTGCGGCACA	.	PASS	Atlas-SNP
POU5F1B	5462	hgsc.bcm.edu	37	8	128428721	128428721	+	Silent	SNP	C	C	T	rs192151034	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	86.0	124.0	0.0	0.540881	0	C|0.985;T|0.015	0.015	strong	.	POU5F1B	32	.	NM_001159542	exon1	c.C610T	p.L204L	CCCTTGCTGCAGA	.	PASS	Atlas-SNP
PRAM1	84106	hgsc.bcm.edu	37	19	8564288	8564288	+	Missense_Mutation	SNP	C	C	T	rs58466313	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	105.0	100.0	0.0	0.990566	0	C|0.891;T|0.109	0.109	strong	.	PRAM1	53	.	NM_032152	exon2	c.G404A	p.G135E	GTGGCCCCCAGCT	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100680336	100680336	+	Missense_Mutation	SNP	C	C	T	rs74687161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	59.0	130.0	0.0	0.491667	0	C|0.958;T|0.042	0.042	strong	.	MUC17	804	.	NM_001040105	exon3	c.C5639T	p.A1880V	CAGTGGCCAGTTC	.	PASS	Atlas-SNP
SIDT1	54847	hgsc.bcm.edu	37	3	113323785	113323785	+	Missense_Mutation	SNP	G	G	T	rs61732220	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	41.0	75.0	0.0	0.525641	0	G|0.981;T|0.019	0.019	strong	.	SIDT1	99	.	NM_017699	exon14	c.G1366T	p.A456S	TTTTACGCGCTGC	.	PASS	Atlas-SNP
LMBR1L	55716	hgsc.bcm.edu	37	12	49498635	49498635	+	Silent	SNP	G	G	T	rs141166526	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	33.0	76.0	0.0	0.492537	0	G|0.996;T|0.004	0.004	strong	LMBR1L_ENST00000267102,colon,carcinoma,-1,2	LMBR1L	61	2	NM_018113	exon4	c.C225A	p.A75A	ACCCAGGGCAATT	.	PASS	Atlas-SNP
OR4C16	219428	hgsc.bcm.edu	37	11	55340057	55340057	+	Missense_Mutation	SNP	G	G	A	rs144962866	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	85.0	144.0	0.0	0.534591	0	G|0.994;A|0.006	0.006	strong	.	OR4C16	104	.	NM_001004701	exon1	c.G454A	p.V152M	TCCTGTGTGCATT	.	PASS	Atlas-SNP
RANBP1	5902	hgsc.bcm.edu	37	22	20112868	20112868	+	Silent	SNP	C	C	T	rs111311060	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	91.0	166.0	0.0	0.505556	0	C|0.997;T|0.003	0.003	strong	.	RANBP1	19	.	NM_002882	exon4	c.C348T	p.S116S	AGGTAGCGACCGT	.	PASS	Atlas-SNP
PCNXL3	399909	hgsc.bcm.edu	37	11	65403666	65403666	+	Silent	SNP	C	C	T	rs61732727	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	78.0	138.0	0.0	0.516556	0	C|0.974;T|0.026	0.026	strong	.	PCNXL3	140	.	NM_032223	exon33	c.C5481T	p.A1827A	TGGCGCCGGCTGC	.	PASS	Atlas-SNP
PCED1B	91523	hgsc.bcm.edu	37	12	47629179	47629179	+	Silent	SNP	G	G	T	rs79990001	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	25.0	36.0	0.0	0.555556	0	G|0.974;T|0.026	0.026	strong	FAM113B,rectum,carcinoma,+1,1	.	.	1	NM_138371	exon2	c.G333T	p.S111S	GCAGTCGGGCGAG	.	PASS	Atlas-SNP
MRPL15	29088	hgsc.bcm.edu	37	8	55047893	55047893	+	Missense_Mutation	SNP	G	G	A	rs200980911	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	222.0	106.0	237.0	0.0	0.477477	0	G|0.997;A|0.003	0.003	strong	.	MRPL15	26	.	NM_014175	exon1	c.G50A	p.R17Q	TACTCCGGGGCCT	.	PASS	Atlas-SNP
PWP2	5822	hgsc.bcm.edu	37	21	45538685	45538685	+	Missense_Mutation	SNP	C	C	T	rs150440839	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	95.0	176.0	0.0	0.505319	0	C|0.996;T|0.004	0.004	strong	.	PWP2	64	.	NM_005049	exon9	c.C1022T	p.S341L	ATAGCTCGGGGGA	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20725366	20725366	+	Silent	SNP	T	T	G	rs115722120	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	85.0	181.0	0.0	0.459459	0	T|0.995;G|0.005	0.005	strong	.	ABCB5	357	.	NM_001163941	exon16	c.T1917G	p.T639T	TTCTACTGAAAGA	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14863863	14863863	+	Silent	SNP	A	A	G	rs61740262	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	65.0	107.0	0.0	0.53719	0	A|0.975;G|0.025	0.025	strong	.	FREM1	261	.	NM_144966	exon4	c.T273C	p.Y91Y	GTGAACATACTTG	.	PASS	Atlas-SNP
EIF3M	10480	hgsc.bcm.edu	37	11	32610617	32610617	+	Missense_Mutation	SNP	G	G	T	rs140562244	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	21.0	119.0	0.0	0.136364	0	G|0.998;T|0.002	0.002	strong	.	EIF3M	37	.	NM_006360	exon4	c.G374T	p.C125F	TGTATTGCAGCCT	.	PASS	Atlas-SNP
FES	2242	hgsc.bcm.edu	37	15	91436965	91436965	+	Silent	SNP	C	C	T	rs2227989	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	70.0	104.0	1.0	1	0.00961538	C|0.910;T|0.090	0.090	strong	.	FES	102	.	NM_002005	exon17	c.C2127T	p.A709A	GGAAGCCGATGGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509605	195509605	+	Missense_Mutation	SNP	T	T	C	rs78644746	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	29.0	292.0	2.0	0.142157	0.00684932	T|0.625;C|0.375	0.375	strong	MUC4_ENST00000463781,NS,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.A8846G	p.D2949G	GAAGTGTCGGTGA	.	scavenged	Atlas-SNP
COL21A1	81578	hgsc.bcm.edu	37	6	55925698	55925698	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	23.0	96.0	0.0	0.25	0	.	.	none	.	COL21A1	201	.	NM_030820	exon26	c.T2343G	p.D781E	CTTCCCATCCAAA	.	PASS	Atlas-SNP
ANGPTL1	9068	hgsc.bcm.edu	37	1	178834231	178834231	+	Silent	SNP	T	T	C	rs6689778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	48.0	110.0	0.0	0.375	0	T|0.939;C|0.061	0.061	strong	.	ANGPTL1	41	.	NM_004673	exon3	c.A681G	p.Q227Q	ATACTGTTGGCTG	.	PASS	Atlas-SNP
DENND2A	27147	hgsc.bcm.edu	37	7	140225578	140225578	+	Silent	SNP	G	G	A	rs61737086	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	60.0	92.0	0.0	0.540541	0	G|0.968;A|0.032	0.032	strong	.	DENND2A	132	.	NM_015689	exon14	c.C2520T	p.D840D	GACGAGGTCAACC	.	PASS	Atlas-SNP
ZNF679	168417	hgsc.bcm.edu	37	7	63727210	63727210	+	Missense_Mutation	SNP	G	G	A	rs142919190	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	34.0	20.0	24.0	0.0	0.588235	0	G|0.997;A|0.003	0.003	strong	ZNF679,NS,carcinoma,0,1	ZNF679	80	1	NM_153363	exon5	c.G1199A	p.S400N	ATAAGAGTATGCA	.	PASS	Atlas-SNP
CDYL	9425	hgsc.bcm.edu	37	6	4892381	4892381	+	Silent	SNP	C	C	T	rs734783	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	47.0	54.0	0.0	0.516484	0	C|0.956;T|0.044	0.044	strong	.	CDYL	74	.	NM_004824	exon2	c.C459T	p.T153T	CAGGACCGCAGTG	.	PASS	Atlas-SNP
PCCA	5095	hgsc.bcm.edu	37	13	100992428	100992428	+	Missense_Mutation	SNP	A	A	T	rs112237881	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	43.0	88.0	0.0	0.457447	0	A|0.997;T|0.003	0.003	strong	.	PCCA	59	.	NM_001178004	exon18	c.A1558T	p.S520C	ACCAAGAGTGAGA	.	PASS	Atlas-SNP
FKBP14	55033	hgsc.bcm.edu	37	7	30054492	30054492	+	Silent	SNP	C	C	T	rs142474407	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	42.0	63.0	0.0	0.636364	0	C|0.997;T|0.003	0.003	strong	.	FKBP14	18	.	NM_017946	exon4	c.G495A	p.K165K	CTCCTTCTTTAAA	.	PASS	Atlas-SNP
ZNF765	91661	hgsc.bcm.edu	37	19	53911041	53911041	+	Missense_Mutation	SNP	A	A	G	rs116731689	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	264.0	129.0	209.0	0.0	0.488636	0	A|0.975;G|0.025	0.025	strong	.	ZNF765	61	.	NM_001040185	exon4	c.A233G	p.E78G	GACATGAAAGTCA	.	PASS	Atlas-SNP
UNC45A	55898	hgsc.bcm.edu	37	15	91485730	91485730	+	Missense_Mutation	SNP	C	C	G	rs115978927	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	38.0	100.0	0.0	0.447059	0	C|0.991;G|0.009	0.009	strong	.	UNC45A	57	.	NM_018671	exon7	c.C751G	p.Q251E	GAAAGCCAGGCTG	.	PASS	Atlas-SNP
SLC6A3	6531	hgsc.bcm.edu	37	5	1409226	1409226	+	Silent	SNP	G	G	C	rs8179035	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	32.0	44.0	0.0	0.507937	0	G|0.995;C|0.005	0.005	strong	SLC6A3,NS,carcinoma,-1,1	SLC6A3	102	1	NM_001044	exon11	c.C1413G	p.V471V	CGTGAAGACGTAG	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	37	19	622304	622304	+	Missense_Mutation	SNP	G	G	A	rs41545023	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	23.0	34.0	0.0	0.547619	0	.	.	weak	.	POLRMT	91	.	NM_005035	exon9	c.C1696T	p.P566S	GCCAGGGCTGCTC	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14857744	14857744	+	Missense_Mutation	SNP	A	A	C	rs145369669	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	43.0	59.0	0.0	0.511905	0	A|0.997;C|0.003	0.003	strong	.	FREM1	261	.	NM_144966	exon6	c.T635G	p.L212R	GCTCTCAGTTCTA	.	PASS	Atlas-SNP
FAM109B	150368	hgsc.bcm.edu	37	22	42473586	42473586	+	Missense_Mutation	SNP	C	C	T	rs61736039	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	60.0	100.0	0.0	0.465116	0	C|0.975;T|0.025	0.025	strong	.	FAM109B	22	.	NM_001002034	exon3	c.C289T	p.R97C	GGAGTGCGCCCAC	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50165258	50165258	+	Missense_Mutation	SNP	G	G	A	rs61733228	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	44.0	105.0	0.0	0.556962	0	G|0.988;A|0.012	0.012	strong	.	WDFY4	205	.	NM_020945	exon52	c.G8062A	p.V2688I	AGTGACGTCAGGG	.	PASS	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	37	5	180058720	180058720	+	Silent	SNP	G	G	A	rs150736691	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	30.0	45.0	0.0	0.588235	0	G|0.999;A|0.001	0.001	strong	.	FLT4	356	.	NM_182925	exon2	c.C117T	p.H39H	GATGACGTGTGAC	.	PASS	Atlas-SNP
SCAF1	58506	hgsc.bcm.edu	37	19	50156762	50156762	+	Missense_Mutation	SNP	A	A	T	rs201628577	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	27.0	12.0	33.0	0.0	0.444444	0	.	.	weak	.	SCAF1	78	.	NM_021228	exon7	c.A3116T	p.E1039V	AGGAGGAGCAGCA	.	PASS	Atlas-SNP
PTCD3	55037	hgsc.bcm.edu	37	2	86358214	86358214	+	Missense_Mutation	SNP	G	G	C	rs146203968		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	65.0	154.0	0.0	0.457746	0	G|1.000;C|0.000	0.000	weak	.	PTCD3	51	.	NM_017952	exon16	c.G1251C	p.Q417H	TTTTCAGTCAGCC	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56388356	56388356	+	Silent	SNP	C	C	T	rs61745692	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	86.0	163.0	0.0	0.534162	0	C|0.968;T|0.032	0.032	strong	BZRAP1_ENST00000355701,caecum,carcinoma,0,2	BZRAP1	287	2	NM_004758	exon19	c.G3300A	p.A1100A	AAGGGGCGCTCTG	.	PASS	Atlas-SNP
SRGAP3	9901	hgsc.bcm.edu	37	3	9034605	9034605	+	Missense_Mutation	SNP	C	C	G	rs150617309	bycluster;byfrequency;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	36.0	70.0	0.0	0.521739	0	C|1.000;G|0.000	0.000	alt	.	SRGAP3	146	.	NM_014850	exon20	c.G2543C	p.G848A	ACCCCCCCAAAGC	.	PASS	Atlas-SNP
ZNF781	163115	hgsc.bcm.edu	37	19	38160255	38160255	+	Silent	SNP	A	A	C	rs73932934	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	37.0	93.0	0.0	0.480519	0	A|0.967;C|0.033	0.033	strong	.	ZNF781	66	.	NM_152605	exon4	c.T795G	p.L265L	TGTTAAAAGCTCT	.	PASS	Atlas-SNP
CNTNAP2	26047	hgsc.bcm.edu	37	7	146829390	146829390	+	Silent	SNP	C	C	T	rs78543192	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	51.0	110.0	0.0	0.439655	0	C|0.995;T|0.005	0.005	strong	CNTNAP2,colon,carcinoma,0,2	CNTNAP2	392	2	NM_014141	exon8	c.C1137T	p.N379N	TTTCAACGCTACA	.	PASS	Atlas-SNP
CLCA4	22802	hgsc.bcm.edu	37	1	87043733	87043733	+	Silent	SNP	C	C	T	rs2231601	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	38.0	125.0	0.0	0.417582	0	C|0.976;T|0.024	0.024	strong	.	CLCA4	131	.	NM_012128	exon12	c.C2100T	p.Y700Y	CGCGTACATACCA	.	PASS	Atlas-SNP
SDF2	6388	hgsc.bcm.edu	37	17	26982341	26982341	+	Silent	SNP	A	A	G	rs35579310	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	58.0	119.0	0.0	0.423358	0	A|0.991;G|0.009	0.009	strong	.	SDF2	17	.	NM_006923	exon2	c.T312C	p.H104H	GTGACTATGGAGG	.	PASS	Atlas-SNP
FGFR3	2261	hgsc.bcm.edu	37	4	1803251	1803251	+	Silent	SNP	T	T	C	rs2305181	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	15.0	29.0	0.0	0.416667	0	T|0.879;C|0.121	0.121	strong	.	FGFR3	3320	.	NM_001163213	exon5	c.T603C	p.I201I	CCGCATTGGAGGC	.	PASS	Atlas-SNP
HPGD	3248	hgsc.bcm.edu	37	4	175414444	175414444	+	Missense_Mutation	SNP	T	T	G	rs200207595	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	53.0	135.0	0.0	0.438017	0	.	.	weak	.	HPGD	19	.	NM_000860	exon6	c.A520C	p.S174R	CACCACTGTTCAT	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17696526	17696526	+	Silent	SNP	G	G	A	rs61999281	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	40.0	69.0	0.0	0.449438	0	G|0.980;A|0.020	0.020	strong	.	RAI1	121	.	NM_030665	exon3	c.G264A	p.Q88Q	CACACAGCAAGGC	.	PASS	Atlas-SNP
FKBPL	63943	hgsc.bcm.edu	37	6	32097089	32097089	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	51.0	103.0	0.0	0.542553	0	.	.	none	.	FKBPL	25	.	NM_022110	exon2	c.G469A	p.G157R	GCTCCCCCCAAGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511236	195511236	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	19.0	637.0	0.0	0.0808511	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-2,3	MUC4	1505	3	NM_018406	exon2	c.C7215A	p.D2405E	GGAAGTGTCGGTG	.	PASS	Atlas-SNP
ZFP82	284406	hgsc.bcm.edu	37	19	36884651	36884651	+	Silent	SNP	C	C	A	rs114627398	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	90.0	168.0	0.0	0.511364	0	C|0.989;A|0.011	0.011	strong	.	ZFP82	71	.	NM_133466	exon5	c.G591T	p.P197P	TTCATACGGTTTT	.	PASS	Atlas-SNP
TAB2	23118	hgsc.bcm.edu	37	6	149699333	149699333	+	Silent	SNP	A	A	G	rs13215304	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	70.0	132.0	1.0	0.496454	0.00757576	A|0.977;G|0.023	0.023	strong	TAB2,NS,carcinoma,+2,1	TAB2	55	1	NM_015093	exon5	c.A282G	p.G94G	AGAAGGAAGTAGG	.	scavenged	Atlas-SNP
ECT2	1894	hgsc.bcm.edu	37	3	172480580	172480580	+	Missense_Mutation	SNP	A	A	G	rs138074177	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	74.0	163.0	0.0	0.513889	0	A|0.999;G|0.001	0.001	strong	.	ECT2	79	.	NM_001258315	exon10	c.A989G	p.Y330C	AACTTTATGTTGT	.	PASS	Atlas-SNP
DOCK4	9732	hgsc.bcm.edu	37	7	111400275	111400275	+	Missense_Mutation	SNP	T	T	C	rs374962931		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	63.0	128.0	0.0	0.453237	0	.	.	weak	.	DOCK4	365	.	NM_014705	exon39	c.A4097G	p.N1366S	GGCTGGTTGGCGT	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26423124	26423124	+	Missense_Mutation	SNP	G	G	C	rs6004901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	39.0	86.0	0.0	0.443182	0	G|0.912;C|0.088	0.088	strong	.	MYO18B	322	.	NM_032608	exon43	c.G7184C	p.G2395A	ATGCGGGCTGTCC	.	PASS	Atlas-SNP
LRTOMT	220074	hgsc.bcm.edu	37	11	71817250	71817250	+	Missense_Mutation	SNP	G	G	A	rs181092713	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	15.0	6.0	13.0	0.0	0.4	0	G|0.998;A|0.002	0.002	strong	.	LRTOMT	20	.	NM_001145309	exon7	c.G352A	p.V118I	GGGCCTGTCAAAG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11687721	11687721	+	Silent	SNP	G	G	A	rs16945337	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	91.0	200.0	0.0	0.473958	0	G|0.956;A|0.044	0.044	strong	DNAH9,NS,carcinoma,+1,1	DNAH9	695	1	NM_001372	exon41	c.G7926A	p.A2642A	CCCGGCGTCCCTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515113	195515113	+	Missense_Mutation	SNP	A	A	G	rs71321849	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	335.0	34.0	169.0	0.0	0.101493	0	A|0.500;G|0.500	0.500	strong	.	MUC4	1505	.	NM_018406	exon2	c.T3338C	p.V1113A	GTGGATACTGAGG	.	PASS	Atlas-SNP
PDK2	5164	hgsc.bcm.edu	37	17	48174794	48174794	+	Silent	SNP	C	C	T	rs11546968	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	33.0	47.0	0.0	0.589286	0	C|0.997;T|0.003	0.003	strong	.	PDK2	41	.	NM_002611	exon2	c.C126T	p.S42S	ATCCAGCAATGCC	.	PASS	Atlas-SNP
MED12	9968	hgsc.bcm.edu	37	X	70339715	70339715	+	Silent	SNP	A	A	G	rs201566660	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	68.0	121.0	0.0	0.447368	0	A|0.999;G|0.001	0.001	strong	.	MED12	984	.	NM_005120	exon3	c.A384G	p.Q128Q	CACGCAACTAGCC	.	PASS	Atlas-SNP
PRKAR1B	5575	hgsc.bcm.edu	37	7	720274	720274	+	Silent	SNP	A	A	G	rs200458521	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	14.0	52.0	0.0	0.4	0	A|0.998;G|0.002	0.002	strong	.	PRKAR1B	32	.	NM_001164760	exon3	c.T267C	p.P89P	CACCACAGGGTTC	.	PASS	Atlas-SNP
SERPINB12	89777	hgsc.bcm.edu	37	18	61234144	61234144	+	Missense_Mutation	SNP	G	G	A	rs56812375	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	33.0	73.0	0.0	0.458333	0	G|0.972;A|0.028	0.028	strong	SERPINB12,colon,carcinoma,0,1	SERPINB12	55	1	NM_080474	exon7	c.G1118A	p.R373Q	CACTACGATCTTG	.	PASS	Atlas-SNP
OR1J1	347168	hgsc.bcm.edu	37	9	125239449	125239449	+	Missense_Mutation	SNP	G	G	A	rs192344372	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	92.0	125.0	0.0	0.671533	0	G|0.999;A|0.001	0.001	strong	OR1J1,colon,carcinoma,0,1	OR1J1	46	1	NM_001004451	exon1	c.C757T	p.R253W	TTGTCCGATAATA	.	PASS	Atlas-SNP
PGPEP1L	145814	hgsc.bcm.edu	37	15	99512877	99512877	+	Missense_Mutation	SNP	C	C	T	rs78254881	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	39.0	71.0	0.0	0.527027	0	C|0.986;T|0.014	0.014	strong	.	PGPEP1L	26	.	NM_001102612	exon4	c.G148A	p.V50I	GCACGACGAGCTG	.	PASS	Atlas-SNP
CSF3R	1441	hgsc.bcm.edu	37	1	36933493	36933493	+	Silent	SNP	G	G	A	rs3917998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	69.0	131.0	0.0	0.485915	0	G|0.991;A|0.009	0.009	strong	.	CSF3R	157	.	NM_156039	exon14	c.C1794T	p.I598I	GAGGTGGATGTGA	.	PASS	Atlas-SNP
ABCC2	1244	hgsc.bcm.edu	37	10	101604107	101604107	+	Missense_Mutation	SNP	C	C	T	rs17216317	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	33.0	62.0	0.0	0.532258	0	C|0.988;T|0.012	0.012	strong	.	ABCC2	160	.	NM_000392	exon28	c.C3872T	p.P1291L	GGCCTCCGCCAGA	.	PASS	Atlas-SNP
CDT1	81620	hgsc.bcm.edu	37	16	88874545	88874545	+	Silent	SNP	G	G	T	rs3218720	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	118.0	131.0	0.0	0.975207	0	G|0.953;T|0.047	0.047	strong	.	CDT1	30	.	NM_030928	exon10	c.G1500T	p.L500L	CCTGCTGCTCCTC	.	PASS	Atlas-SNP
TMC3	342125	hgsc.bcm.edu	37	15	81641872	81641872	+	Missense_Mutation	SNP	G	G	T	rs61740148	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	211.0	99.0	218.0	0.0	0.469194	0	G|0.990;T|0.010	0.010	strong	.	TMC3	112	.	NM_001080532	exon11	c.C1120A	p.P374T	CTGATGGTGCTAT	.	PASS	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103251218	103251218	+	Missense_Mutation	SNP	T	T	C	rs3025962	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	34.0	73.0	0.0	0.453333	0	T|0.978;C|0.022	0.022	strong	.	RELN	593	.	NM_173054	exon22	c.A2932G	p.T978A	CTGATGTAAATTC	.	PASS	Atlas-SNP
PBOV1	59351	hgsc.bcm.edu	37	6	138539372	138539372	+	Missense_Mutation	SNP	C	C	T	rs73774688	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	75.0	178.0	0.0	0.46875	0	C|0.991;T|0.009	0.009	strong	PBOV1_ENST00000527246,NS,carcinoma,-1,2	PBOV1	12	2	NM_021635	exon1	c.G161A	p.R54Q	TTTTTTCGAAATA	.	PASS	Atlas-SNP
CAST	831	hgsc.bcm.edu	37	5	96082128	96082128	+	Missense_Mutation	SNP	C	C	T	rs78054235	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	225.0	112.0	199.0	0.0	0.497778	0	C|0.988;T|0.012	0.012	strong	.	CAST	58	.	NM_001042440	exon15	c.C1160T	p.T387M	CAGCCACGGTAAA	.	PASS	Atlas-SNP
C16orf82	162083	hgsc.bcm.edu	37	16	27078462	27078462	+	Missense_Mutation	SNP	T	T	C	rs114324679	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	48.0	76.0	0.0	0.489796	0	T|0.984;C|0.016	0.016	strong	.	.	.	.	NM_001145545	exon1	c.T146C	p.V49A	CAGGAGTGGCTCA	.	PASS	Atlas-SNP
FNDC7	163479	hgsc.bcm.edu	37	1	109273351	109273351	+	Missense_Mutation	SNP	C	C	A	rs76462144	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	77.0	176.0	0.0	0.503268	0	A|0.027;C|0.973;T|0.000	0.027	strong	FNDC7_ENST00000370017,NS,carcinoma,0,2	FNDC7	113	2	NM_001144937	exon9	c.C1680A	p.N560K	AATCAACGTGAGC	.	PASS	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	37	1	152324397	152324397	+	Silent	SNP	G	G	A	rs79983774	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	426.0	211.0	383.0	0.0	0.495305	0	G|0.940;A|0.060	0.060	strong	.	FLG2	431	.	NM_001014342	exon3	c.C5865T	p.H1955H	CTCACTGTGGCCA	.	PASS	Atlas-SNP
NBPF3	84224	hgsc.bcm.edu	37	1	21795287	21795287	+	Silent	SNP	G	G	A	rs10157037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	191.0	95.0	195.0	0.0	0.497382	0	G|0.953;A|0.047	0.047	strong	.	NBPF3	55	.	NM_001256416	exon3	c.A240A	p.K80K	GAAATCGCGCCCC	.	PASS	Atlas-SNP
CEACAM8	1088	hgsc.bcm.edu	37	19	43093718	43093718	+	Silent	SNP	C	C	T	rs10413332	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	291.0	123.0	243.0	0.0	0.42268	0	C|0.938;T|0.062	0.062	strong	.	CEACAM8	44	.	NM_001816	exon3	c.G594A	p.R198R	GAGGGTCCTGTTG	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1085690	1085690	+	Silent	SNP	G	G	A	rs149960692	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	63.0	129.0	0.0	0.529412	0	G|0.993;A|0.007	0.007	strong	.	HMHA1	78	.	NM_001258328	exon23	c.G3144A	p.S1048S	GGACTCGGACCTA	.	PASS	Atlas-SNP
ITGAL	3683	hgsc.bcm.edu	37	16	30495496	30495496	+	Silent	SNP	C	C	T	rs7191097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	61.0	63.0	0.0	1	0	C|0.900;T|0.100	0.100	strong	.	ITGAL	149	.	NM_002209	exon9	c.C918T	p.P306P	AAAACCCGCGAGC	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22847917	22847917	+	Silent	SNP	T	T	C	rs4100176	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	23.0	310.0	1.0	0.884615	0.00322581	T|0.500;C|0.500	0.500	weak	ZNF492_ENST00000456783,NS,carcinoma,+1,1	ZNF492	129	1	NM_020855	exon4	c.T1446C	p.C482C	AGAATGTGGCAAA	.	scavenged	Atlas-SNP
WNT3A	89780	hgsc.bcm.edu	37	1	228238443	228238443	+	Missense_Mutation	SNP	G	G	A	rs61743220	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	79.0	189.0	0.0	0.473054	0	G|0.992;A|0.008	0.008	strong	.	WNT3A	40	.	NM_033131	exon3	c.G400A	p.A134T	ACGGCCGCCATCT	.	PASS	Atlas-SNP
LCN15	389812	hgsc.bcm.edu	37	9	139657874	139657874	+	Missense_Mutation	SNP	G	G	C	rs11145871	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	21.0	37.0	0.0	0.567568	0	G|0.994;C|0.006	0.006	strong	.	LCN15	11	.	NM_203347	exon4	c.C353G	p.S118C	GCGAAGGAGCTGT	.	PASS	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	37	2	166900425	166900425	+	Silent	SNP	C	C	T	rs145035963	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	111.0	213.0	0.0	0.569231	0	C|1.000;T|0.000	0.000	strong	.	SCN1A	641	.	NM_001165964	exon11	c.G1797A	p.E599E	GTTATCCTCAAAG	.	PASS	Atlas-SNP
NEIL2	252969	hgsc.bcm.edu	37	8	11640853	11640853	+	Silent	SNP	C	C	T	rs112549959	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	207.0	97.0	180.0	0.0	0.468599	0	C|0.996;T|0.004	0.004	strong	.	NEIL2	14	.	NM_001135746	exon4	c.C633T	p.G211G	TCTAGGCCAGGCT	.	PASS	Atlas-SNP
TSPYL5	85453	hgsc.bcm.edu	37	8	98289922	98289922	+	Missense_Mutation	SNP	C	C	T	rs200123082	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	32.0	18.0	29.0	0.0	0.5625	0	C|0.994;T|0.006	0.006	strong	.	TSPYL5	48	.	NM_033512	exon1	c.G151A	p.A51T	CCTGTGCCGCCTG	.	PASS	Atlas-SNP
APOC2	344	hgsc.bcm.edu	37	19	45452429	45452429	+	Missense_Mutation	SNP	A	A	C	rs5126	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	59.0	122.0	0.0	0.479675	0	A|0.991;C|0.009	0.009	strong	.	APOC2	9	.	NM_000483	exon4	c.A229C	p.K77Q	TACAGCAAAAGCA	.	PASS	Atlas-SNP
SPATA2	9825	hgsc.bcm.edu	37	20	48522263	48522263	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	371.0	188.0	342.0	0.0	0.506739	0	.	.	none	.	SPATA2	36	.	NM_006038	exon3	c.G1456A	p.A486T	GGTAAGCGCTGAG	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229770827	229770827	+	Missense_Mutation	SNP	C	C	T	rs115641620	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	62.0	108.0	0.0	0.529915	0	C|0.992;T|0.008	0.008	strong	.	URB2	152	.	NM_014777	exon4	c.C467T	p.S156L	GCTGGTCGGCCTG	.	PASS	Atlas-SNP
ATP5J	522	hgsc.bcm.edu	37	21	27107251	27107251	+	Missense_Mutation	SNP	C	C	G	rs71649640	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	52.0	100.0	0.0	0.525253	0	C|0.990;G|0.010	0.010	strong	.	ATP5J	13	.	NM_001003701	exon1	c.G16C	p.G6R	CCTACCCGCCATC	.	PASS	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	37	7	88963401	88963401	+	Missense_Mutation	SNP	C	C	T	rs141118086	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	34.0	87.0	0.0	0.409639	0	C|0.986;T|0.014	0.014	strong	.	ZNF804B	322	.	NM_181646	exon4	c.C1105T	p.P369S	TTCAGCCCACCAA	.	PASS	Atlas-SNP
XYLT1	64131	hgsc.bcm.edu	37	16	17353090	17353090	+	Missense_Mutation	SNP	G	G	C	rs113276942	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	110.0	143.0	0.0	0.558376	0	G|0.950;C|0.050	0.050	strong	XYLT1,NS,carcinoma,+1,1	XYLT1	147	1	NM_022166	exon3	c.C668G	p.A223G	GCTGCGGCTCTGT	.	PASS	Atlas-SNP
HPS5	11234	hgsc.bcm.edu	37	11	18330522	18330522	+	Silent	SNP	A	A	G	rs146455658	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	40.0	97.0	0.0	0.454545	0	A|0.999;G|0.001	0.001	strong	.	HPS5	70	.	NM_181507	exon6	c.T582C	p.L194L	TCGAGTAAGTGAA	.	PASS	Atlas-SNP
PNO1	56902	hgsc.bcm.edu	37	2	68385240	68385240	+	Silent	SNP	C	C	G	rs61735657	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	39.0	56.0	0.0	0.5	0	C|0.979;G|0.021	0.021	strong	.	PNO1	17	.	NM_020143	exon1	c.C174G	p.P58P	GAGGCCCGTCTTC	.	PASS	Atlas-SNP
SMARCAL1	50485	hgsc.bcm.edu	37	2	217285104	217285104	+	Missense_Mutation	SNP	C	C	G	rs2066522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	76.0	164.0	1.0	0.475	0.00609756	C|0.957;G|0.043	0.043	strong	SMARCAL1,right_upper_lobe,carcinoma,+1,1	SMARCAL1	93	1	NM_014140	exon5	c.C945G	p.S315R	CACCAGCAGTGAG	.	scavenged	Atlas-SNP
PLEKHG4B	153478	hgsc.bcm.edu	37	5	143359	143359	+	Missense_Mutation	SNP	G	G	A	rs114876243	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	24.0	61.0	0.0	0.489796	0	G|0.985;A|0.015	0.015	strong	.	PLEKHG4B	167	.	NM_052909	exon2	c.G607A	p.V203I	GGGGTCGTCACCC	.	PASS	Atlas-SNP
TNFRSF21	27242	hgsc.bcm.edu	37	6	47251772	47251772	+	Missense_Mutation	SNP	C	C	T	rs148459670	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	269.0	137.0	227.0	0.0	0.509294	0	C|1.000;T|0.000	0.000	strong	.	TNFRSF21	61	.	NM_014452	exon3	c.G1145A	p.R382Q	TCCTGCCGGGGCC	.	PASS	Atlas-SNP
DUOX1	53905	hgsc.bcm.edu	37	15	45444572	45444572	+	Silent	SNP	T	T	C	rs114272662	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	116.0	194.0	1.0	0.52968	0.00515464	T|0.968;C|0.032	0.032	strong	.	DUOX1	125	.	NM_017434	exon26	c.T3282C	p.S1094S	CATCTCTTTCATG	.	PASS	Atlas-SNP
GSE1	23199	hgsc.bcm.edu	37	16	85690900	85690900	+	Missense_Mutation	SNP	G	G	A	rs35446008	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	46.0	101.0	0.0	0.5	0	G|0.985;A|0.015	0.015	strong	.	.	.	.	NM_014615	exon8	c.G1330A	p.G444S	GATGCCGGCCTGC	.	PASS	Atlas-SNP
ZNF141	7700	hgsc.bcm.edu	37	4	367290	367290	+	Missense_Mutation	SNP	A	A	G	rs61733102	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	31.0	35.0	0.0	0.508197	0	A|0.998;G|0.002	0.002	strong	.	ZNF141	48	.	NM_003441	exon4	c.A1064G	p.N355S	AACTGAATGAACA	.	PASS	Atlas-SNP
CD200R1L	344807	hgsc.bcm.edu	37	3	112545875	112545875	+	Missense_Mutation	SNP	G	G	A	rs61740125	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	141.0	130.0	0.0	1	0	G|0.979;A|0.021	0.021	strong	.	CD200R1L	47	.	NM_001008784	exon4	c.C644T	p.T215I	TTGCCAGTCAAAT	.	PASS	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68603345	68603345	+	Missense_Mutation	SNP	C	C	T	rs146663204	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	33.0	76.0	0.0	0.375	0	C|0.997;T|0.003	0.003	strong	.	ITGA11	110	.	NM_001004439	exon26	c.G3161A	p.R1054H	GGAGCACGACGCA	.	PASS	Atlas-SNP
EPHA10	284656	hgsc.bcm.edu	37	1	38197214	38197214	+	Missense_Mutation	SNP	G	G	A	rs141193695	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	38.0	99.0	0.0	0.44186	0	G|0.979;A|0.021	0.021	strong	EPHA10,colon,carcinoma,+1,1	EPHA10	120	1	NM_001099439	exon7	c.C1532T	p.A511V	GTGGGCGCCCCTG	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46900062	46900062	+	Missense_Mutation	SNP	G	G	A	rs61738822	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	41.0	44.0	0.0	0.539474	0	G|0.996;A|0.004	0.004	strong	.	COL18A1	129	.	NM_030582	exon10	c.G1930A	p.D644N	AGACACGACAAGC	.	PASS	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12918903	12918903	+	Silent	SNP	G	G	A	rs17038644	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	452.0	227.0	358.0	1.0	0.502212	0.0027933	G|0.978;A|0.022	0.022	strong	.	PRAMEF2	85	.	NM_023014	exon2	c.G39A	p.A13A	GCTGGCGGGGCAG	.	PASS	Atlas-SNP
KRTAP10-7	386675	hgsc.bcm.edu	37	21	46021546	46021546	+	Missense_Mutation	SNP	C	C	G	rs116074123	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	83.0	59.0	0.0	0.72807	0	C|0.974;G|0.026	0.026	strong	.	KRTAP10-7	41	.	NM_198689	exon2	c.C1010G	p.A337G	GCCAGGCCAGCTG	.	PASS	Atlas-SNP
CD101	9398	hgsc.bcm.edu	37	1	117576631	117576631	+	Missense_Mutation	SNP	C	C	T	rs34248572	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	53.0	138.0	0.0	0.473214	0	C|0.972;T|0.028	0.028	strong	CD101,NS,carcinoma,-1,1	CD101	95	1	NM_001256109	exon9	c.C2974T	p.R992W	AACACACGGAAAG	.	PASS	Atlas-SNP
FASLG	356	hgsc.bcm.edu	37	1	172628488	172628488	+	Silent	SNP	G	G	A	rs61756244	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	60.0	139.0	0.0	0.441176	0	G|0.944;A|0.056	0.056	strong	.	FASLG	44	.	NM_000639	exon1	c.G147A	p.P49P	ACCACCGCCACCG	.	PASS	Atlas-SNP
TPRN	286262	hgsc.bcm.edu	37	9	140086940	140086940	+	Silent	SNP	C	C	T	rs115446132	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	41.0	93.0	0.0	0.577465	0	C|0.996;T|0.004	0.004	strong	.	TPRN	28	.	NM_001128228	exon2	c.G1929A	p.V643V	GGGTCTCACGCTG	.	PASS	Atlas-SNP
HSH2D	84941	hgsc.bcm.edu	37	19	16263946	16263946	+	Silent	SNP	C	C	T	rs1870354	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	33.0	73.0	0.0	0.6	0	C|0.986;T|0.014	0.014	strong	.	HSH2D	16	.	NM_032855	exon6	c.C309T	p.D103D	GCTGGACGCCCTG	.	PASS	Atlas-SNP
NOL8	55035	hgsc.bcm.edu	37	9	95078413	95078413	+	Missense_Mutation	SNP	T	T	C	rs41305617	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	91.0	223.0	0.0	0.376033	0	T|0.986;C|0.014	0.014	strong	.	NOL8	118	.	NM_017948	exon7	c.A494G	p.K165R	TCATATTTGATGA	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90136732	90136732	+	Missense_Mutation	SNP	C	C	G	rs61748627	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	30.0	63.0	0.0	0.517241	0	C|0.988;G|0.012	0.012	strong	.	GPR98	605	.	NM_032119	exon78	c.C16949G	p.T5650S	TCCATACCATCAG	.	PASS	Atlas-SNP
OGFR	11054	hgsc.bcm.edu	37	20	61444900	61444900	+	Missense_Mutation	SNP	A	A	C	rs61735508	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	37.0	64.0	0.0	0.578125	0	A|0.975;C|0.025	0.025	strong	.	OGFR	63	.	NM_007346	exon7	c.A1933C	p.S645R	GGCCCCAGCCCGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179577870	179577870	+	Silent	SNP	T	T	C	rs61232800	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	288.0	134.0	285.0	0.0	0.465278	0	T|0.981;C|0.019	0.019	strong	.	TTN	18412	.	NM_001267550	exon93	c.A26991G	p.T8997T	TATACATGTGTAG	.	PASS	Atlas-SNP
NOS1	4842	hgsc.bcm.edu	37	12	117691490	117691490	+	Silent	SNP	G	G	A	rs9658446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	51.0	121.0	0.0	0.342282	0	G|0.985;A|0.015	0.015	strong	NOS1,NS,carcinoma,0,1	NOS1	240	1	NM_001204218	exon18	c.C2703T	p.P901P	GAGGTCGGGCCCA	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	140999002	140999002	+	Silent	SNP	G	G	A	rs28710457	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	30.0	49.0	0.0	0.483871	0	G|0.986;A|0.014	0.014	strong	.	TRAPPC9	114	.	NM_031466	exon19	c.C3036T	p.T1012T	ATGCTCGGTGGAG	.	PASS	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	37	5	140562756	140562756	+	Missense_Mutation	SNP	C	C	G	rs28398442	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	39.0	65.0	0.0	0.534247	0	C|0.991;G|0.009	0.009	strong	.	PCDHB16	159	.	NM_020957	exon1	c.C622G	p.L208V	CCTCAACTAAGAT	.	PASS	Atlas-SNP
ECM1	1893	hgsc.bcm.edu	37	1	150482639	150482639	+	Silent	SNP	C	C	T	rs74352693	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	51.0	101.0	0.0	0.463636	0	C|0.982;T|0.018	0.018	strong	.	ECM1	96	.	NM_001202858	exon5	c.C447T	p.H149H	CCAGCACCCCAAT	.	PASS	Atlas-SNP
PODXL2	50512	hgsc.bcm.edu	37	3	127387388	127387388	+	Silent	SNP	C	C	T	rs34716022	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	253.0	133.0	230.0	0.0	0.525692	0	C|0.938;T|0.062	0.062	strong	.	PODXL2	53	.	NM_015720	exon5	c.C1311T	p.S437S	TCTGAGCAAGCCC	.	PASS	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	37	4	84374692	84374692	+	Missense_Mutation	SNP	A	A	G	rs17006837	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	64.0	124.0	0.0	0.520325	0	A|0.864;G|0.136	0.136	strong	.	HELQ	95	.	NM_133636	exon2	c.T704C	p.L235P	TGGGGCAGTTCCT	.	PASS	Atlas-SNP
TM7SF2	7108	hgsc.bcm.edu	37	11	64882441	64882441	+	Silent	SNP	G	G	A	rs33981236	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	93.0	130.0	0.0	0.534483	0	G|0.981;A|0.019	0.019	strong	TM7SF2,NS,carcinoma,+1,1	TM7SF2	30	1	NM_003273	exon7	c.G780A	p.A260A	GCTGGCGTTTGGG	.	PASS	Atlas-SNP
DEFB135	613209	hgsc.bcm.edu	37	8	11842019	11842019	+	Missense_Mutation	SNP	G	G	A	rs73663074	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	57.0	105.0	0.0	0.553398	0	G|0.959;A|0.041	0.041	strong	.	DEFB135	7	.	NM_001033017	exon2	c.G154A	p.E52K	AAAAACGAACAAT	.	PASS	Atlas-SNP
TRPV6	55503	hgsc.bcm.edu	37	7	142573613	142573613	+	Silent	SNP	C	C	T	rs79832568	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	83.0	167.0	0.0	0.488235	0	C|0.976;T|0.024	0.024	strong	.	TRPV6	108	.	NM_018646	exon7	c.G807A	p.T269T	TCCATACGTCCAC	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	37	3	123452859	123452859	+	Silent	SNP	C	C	T	rs115018449	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	65.0	114.0	0.0	0.436242	0	C|0.998;T|0.002	0.002	strong	MYLK,caecum,carcinoma,0,1	MYLK	224	1	NM_053025	exon10	c.G984A	p.S328S	TCTGGGCGAGTCC	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	37	3	122419993	122419993	+	Silent	SNP	C	C	T	rs16833421	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	37.0	56.0	0.0	0.493333	0	C|0.965;T|0.035	0.035	strong	.	PARP14	242	.	NM_017554	exon6	c.C2592T	p.A864A	CAATGCCACCATC	.	PASS	Atlas-SNP
BPIFA2	140683	hgsc.bcm.edu	37	20	31761885	31761885	+	Silent	SNP	G	G	T	rs61734343	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	58.0	121.0	0.0	0.42029	0	A|0.003;G|0.992;T|0.005	0.005	strong	.	.	.	.	NM_080574	exon4	c.G303T	p.G101G	ACACAGGTTGAAA	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3177944	3177944	+	Silent	SNP	C	C	T	rs61731934	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	40.0	51.0	0.0	0.526316	0	C|0.983;T|0.017	0.017	strong	PFKP_ENST00000381075,NS,carcinoma,+2,2	PFKP	182	2	NM_002627	exon21	c.C2139T	p.T713T	TACCACCGATGAT	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66928468	66928468	+	Missense_Mutation	SNP	G	G	C	rs62638729	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	46.0	80.0	0.0	0.464646	0	G|0.945;C|0.055	0.055	strong	.	ABCA8	213	.	NM_007168	exon6	c.C758G	p.A253G	ATCAAGGCCTTCA	.	PASS	Atlas-SNP
SEMA4B	10509	hgsc.bcm.edu	37	15	90771787	90771787	+	Missense_Mutation	SNP	G	G	A	rs16944065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	30.0	58.0	0.0	0.428571	0	G|0.979;A|0.021	0.021	strong	.	SEMA4B	51	.	NM_020210	exon15	c.G2426A	p.S809N	CACTCAGCATCCA	.	PASS	Atlas-SNP
C19orf54	284325	hgsc.bcm.edu	37	19	41248532	41248532	+	Silent	SNP	G	G	A	rs36071297	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	78.0	127.0	0.0	0.537931	0	G|0.905;A|0.095	0.095	strong	.	C19orf54	13	.	NM_198476	exon6	c.C862T	p.L288L	TGGACAGCAGGTA	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152193049	152193049	+	Silent	SNP	C	C	T	rs114845154	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	54.0	114.0	0.0	0.439024	0	C|0.985;T|0.015	0.015	strong	HRNR,NS,carcinoma,-2,1	HRNR	403	1	NM_001009931	exon3	c.G1056A	p.E352E	GCCAGACTCATGT	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33406328	33406328	+	Missense_Mutation	SNP	G	G	A	rs113919201	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	244.0	128.0	218.0	1.0	0.52459	0.00458716	G|0.991;A|0.009	0.009	strong	CEP89,NS,carcinoma,+1,1	CEP89	82	1	NM_032816	exon14	c.C1480T	p.R494C	TGGCACGTAAAAT	.	PASS	Atlas-SNP
GPC3	2719	hgsc.bcm.edu	37	X	132730541	132730541	+	Silent	SNP	A	A	G	rs2314298	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	461.0	297.0	421.0	0.0	0.644252	0	A|0.905;G|0.095	0.095	strong	.	GPC3	88	.	NM_001164617	exon8	c.T1569C	p.D523D	TTCATCATCACCG	.	PASS	Atlas-SNP
CIZ1	25792	hgsc.bcm.edu	37	9	130941451	130941451	+	Silent	SNP	C	C	T	rs45536439	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	70.0	118.0	0.0	0.59322	0	C|0.961;T|0.039	0.039	strong	.	CIZ1	75	.	NM_001257975	exon8	c.G1125A	p.A375A	TGTTTGCGCCTGC	.	PASS	Atlas-SNP
CDC42BPB	9578	hgsc.bcm.edu	37	14	103406169	103406169	+	Silent	SNP	C	C	T	rs60475222	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	96.0	163.0	0.0	0.444444	0	C|0.992;T|0.008	0.008	strong	.	CDC42BPB	123	.	NM_006035	exon33	c.G4707A	p.R1569R	CTACCGCCTCTGC	.	PASS	Atlas-SNP
CTF1	1489	hgsc.bcm.edu	37	16	30910830	30910830	+	Silent	SNP	C	C	T	rs8059269	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	83.0	194.0	0.0	0.441489	0	C|0.965;T|0.035	0.035	strong	.	CTF1	3	.	NM_001330	exon2	c.C120T	p.Y40Y	CAAATACGCTGAG	.	PASS	Atlas-SNP
CLCA4	22802	hgsc.bcm.edu	37	1	87045696	87045696	+	Missense_Mutation	SNP	G	G	C	rs2231604	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	59.0	110.0	0.0	0.395973	0	G|0.950;C|0.050	0.050	strong	.	CLCA4	131	.	NM_012128	exon14	c.G2428C	p.V810L	CTTCAAGTAAATA	.	PASS	Atlas-SNP
PSG6	5675	hgsc.bcm.edu	37	19	43414875	43414875	+	Missense_Mutation	SNP	A	A	C	rs59587483	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	294.0	133.0	278.0	0.0	0.452381	0	A|0.960;C|0.040	0.040	strong	.	PSG6	89	.	NM_001031850	exon3	c.T563G	p.M188R	TGAGTCATAGGGA	.	PASS	Atlas-SNP
SH2D4A	63898	hgsc.bcm.edu	37	8	19221784	19221784	+	Missense_Mutation	SNP	A	A	G	rs35319139	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	32.0	89.0	0.0	0.477612	0	A|0.973;G|0.027	0.027	strong	.	SH2D4A	49	.	NM_022071	exon7	c.A908G	p.K303R	CTCAAAAACCTCT	.	PASS	Atlas-SNP
SLC47A2	146802	hgsc.bcm.edu	37	17	19607432	19607432	+	Silent	SNP	C	C	T	rs34169093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	20.0	45.0	0.0	0.512821	0	C|0.935;T|0.065	0.065	strong	.	SLC47A2	61	.	NM_152908	exon11	c.G1077A	p.A359A	AGTATCCGCAGCC	.	PASS	Atlas-SNP
ENAM	10117	hgsc.bcm.edu	37	4	71508869	71508869	+	Missense_Mutation	SNP	T	T	C	rs2609428	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	62.0	125.0	0.0	0.452555	0	T|0.952;C|0.048	0.048	strong	.	ENAM	140	.	NM_031889	exon9	c.T1726C	p.F576L	CCACCTTTTAAGG	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140811114	140811114	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	6.0	87.0	1.0	0.0612245	0.0114943	.	.	none	MAML3_ENST00000509479,colon,carcinoma,0,4	MAML3	192	4	NM_018717	exon2	c.G1476A	p.Q492Q	CTGCTGCTGCTGC	.	scavenged	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23744826	23744826	+	Missense_Mutation	SNP	T	T	A	rs76331664	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	15.0	159.0	0.0	0.111111	0	.	.	weak	.	HOMEZ	80	.	NM_020834	exon2	c.A1611T	p.E537D	ATCATCTTCCTCC	.	PASS	Atlas-SNP
PROSER2	254427	hgsc.bcm.edu	37	10	11912381	11912381	+	Silent	SNP	G	G	A	rs191542752	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	19.0	10.0	20.0	0.0	0.526316	0	G|0.993;A|0.007	0.007	strong	.	.	.	.	NM_153256	exon4	c.G1284A	p.L428L	GAAGCTGGGGCTG	.	PASS	Atlas-SNP
AQP7	364	hgsc.bcm.edu	37	9	33385134	33385134	+	Missense_Mutation	SNP	C	C	T	rs61073250	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	87.0	113.0	0.0	0.58	0	C|0.964;T|0.036	0.036	strong	.	AQP7	58	.	NM_001170	exon8	c.G898A	p.V300I	GCAATACGGTTAT	.	PASS	Atlas-SNP
BCAR3	8412	hgsc.bcm.edu	37	1	94049576	94049576	+	Silent	SNP	A	A	G	rs78645541	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	81.0	144.0	0.0	0.554795	0	A|0.992;G|0.008	0.008	strong	.	BCAR3	62	.	NM_001261409	exon6	c.T1032C	p.I344I	CATACCAATCGGC	.	PASS	Atlas-SNP
FMO2	2327	hgsc.bcm.edu	37	1	171162583	171162583	+	Missense_Mutation	SNP	T	T	C	rs2020860	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	24.0	66.0	0.0	0.436364	0	T|0.895;C|0.105	0.105	strong	FMO2,colon,carcinoma,+1,1	FMO2	66	1	NM_001460	exon3	c.T242C	p.F81S	CAAACTTCCTGCA	.	PASS	Atlas-SNP
XPR1	9213	hgsc.bcm.edu	37	1	180804033	180804033	+	Silent	SNP	C	C	T	rs61742073	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	30.0	71.0	0.0	0.447761	0	C|0.949;T|0.051	0.051	strong	.	XPR1	76	.	NM_004736	exon10	c.C1158T	p.F386F	CCCCTTCCATAAG	.	PASS	Atlas-SNP
RBP1	5947	hgsc.bcm.edu	37	3	139257727	139257727	+	Missense_Mutation	SNP	T	T	C	rs34674353	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	274.0	141.0	260.0	0.0	0.514599	0	T|0.992;C|0.008	0.008	strong	.	RBP1	39	.	NM_002899	exon2	c.A334G	p.M112V	TGATCATATGGTC	.	PASS	Atlas-SNP
MTERFD2	130916	hgsc.bcm.edu	37	2	242036769	242036769	+	Silent	SNP	G	G	A	rs10171090	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	52.0	129.0	0.0	0.440678	0	G|0.978;A|0.022	0.022	strong	.	MTERFD2	33	.	NM_182501	exon3	c.C594T	p.V198V	AAGCCTGACAGTG	.	PASS	Atlas-SNP
GBA	2629	hgsc.bcm.edu	37	1	155210498	155210498	+	Missense_Mutation	SNP	T	T	C	rs150466109	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	31.0	53.0	0.0	0.516667	0	T|0.979;C|0.021	0.021	strong	.	GBA	46	.	NM_001005742	exon3	c.A38G	p.K13R	AAAGGCTTGGGAC	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38380501	38380501	+	Silent	SNP	G	G	A	rs143655348	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	95.0	207.0	1.0	0.487179	0.00483092	G|0.994;A|0.006	0.006	strong	.	WDR87	191	.	NM_031951	exon6	c.C3693T	p.G1231G	CCTGCGGCCAGAT	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	133953676	133953676	+	Missense_Mutation	SNP	A	A	G	rs61744679	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	286.0	144.0	241.0	0.0	0.503497	0	A|0.964;G|0.036	0.036	strong	.	TG	416	.	NM_003235	exon26	c.A5122G	p.I1708V	AACCCCATTGTGT	.	PASS	Atlas-SNP
TMEM44	93109	hgsc.bcm.edu	37	3	194325103	194325103	+	Missense_Mutation	SNP	G	G	A	rs745169	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	65.0	104.0	0.0	0.496183	0	G|0.930;A|0.070	0.070	strong	.	TMEM44	42	.	NM_001166306	exon9	c.C1085T	p.P362L	CGACGGGGGGTCC	.	PASS	Atlas-SNP
CCBL2	56267	hgsc.bcm.edu	37	1	89453966	89453966	+	Missense_Mutation	SNP	G	G	A	rs74100109	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	328.0	159.0	266.0	0.0	0.484756	0	G|0.988;A|0.012	0.012	strong	.	CCBL2	138	.	NM_001008661	exon2	c.C68T	p.S23F	TTGGAAGAAGAAA	.	PASS	Atlas-SNP
FUT1	2523	hgsc.bcm.edu	37	19	49253717	49253717	+	Silent	SNP	G	G	T	rs838138	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	55.0	77.0	0.0	1	0	G|0.955;T|0.045	0.045	strong	.	FUT1	44	.	NM_000148	exon4	c.C822A	p.T274T	CTGGGAGGTGTCG	.	PASS	Atlas-SNP
C1orf27	54953	hgsc.bcm.edu	37	1	186355168	186355168	+	Missense_Mutation	SNP	A	A	G	rs115570554	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	24.0	41.0	0.0	0.428571	0	A|0.997;G|0.003	0.003	strong	.	C1orf27	41	.	NM_001164245	exon4	c.A283G	p.I95V	TTTATTATTACTA	.	PASS	Atlas-SNP
PDE9A	5152	hgsc.bcm.edu	37	21	44192574	44192574	+	Missense_Mutation	SNP	C	C	T	rs147305658	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	38.0	100.0	0.0	0.612903	0	C|0.999;T|0.001	0.001	strong	.	PDE9A	69	.	NM_002606	exon19	c.C1712T	p.T571M	GCTTGACGTCTGG	.	PASS	Atlas-SNP
OR6C76	390326	hgsc.bcm.edu	37	12	55820358	55820358	+	Silent	SNP	G	G	A	rs12322458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	72.0	165.0	0.0	0.473684	0	G|0.978;A|0.022	0.022	strong	.	OR6C76	98	.	NM_001005183	exon1	c.G321A	p.T107T	CTCAACGGAGTTT	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	37	8	41522407	41522407	+	Missense_Mutation	SNP	G	G	C	rs112350393	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	28.0	68.0	0.0	0.444444	0	G|0.969;C|0.031	0.031	strong	.	ANK1	497	.	NM_020478	exon1	c.C135G	p.D45E	CTCCTTGTCCAGC	.	PASS	Atlas-SNP
THAP11	57215	hgsc.bcm.edu	37	16	67876805	67876805	+	Silent	SNP	A	A	G	rs28434205	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	19.0	7.0	19.0	0.0	0.368421	0	A|0.991;G|0.009	0.009	strong	THAP11,bladder,carcinoma,0,3	THAP11	27	3	NM_020457	exon1	c.A348G	p.Q116Q	GCAGCAACAGCAG	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371409	240371409	+	Silent	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	7.0	142.0	0.0	0.0469799	0	.	.	none	FMN2,NS,neuroblastoma,0,1	FMN2	451	1	NM_020066	exon5	c.G3297T	p.P1099P	CCCTCCGCCCCCT	.	scavenged	Atlas-SNP
EIF1AD	84285	hgsc.bcm.edu	37	11	65767578	65767578	+	Missense_Mutation	SNP	G	G	A	rs35497370	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	47.0	110.0	0.0	0.516484	0	G|0.997;A|0.003	0.003	strong	EIF1AD,colon,carcinoma,+1,1	EIF1AD	10	1	NM_001242483	exon3	c.C142T	p.R48C	GGAAGCGCTGCCC	.	PASS	Atlas-SNP
OR4K15	81127	hgsc.bcm.edu	37	14	20443751	20443751	+	Missense_Mutation	SNP	T	T	G	rs139828094	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	102.0	187.0	0.0	0.528497	0	T|0.994;G|0.006	0.006	strong	.	OR4K15	82	.	NM_001005486	exon1	c.T74G	p.M25R	AATCGATGAATGA	.	PASS	Atlas-SNP
AKNAD1	254268	hgsc.bcm.edu	37	1	109395230	109395230	+	Silent	SNP	A	A	G	rs142279898	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	49.0	83.0	0.0	0.494949	0	A|0.998;G|0.002	0.002	strong	.	AKNAD1	83	.	NM_152763	exon2	c.T57C	p.Y19Y	CCCATCATAAGGC	.	PASS	Atlas-SNP
GLIS3	169792	hgsc.bcm.edu	37	9	4118262	4118262	+	Missense_Mutation	SNP	C	C	A	rs75462592	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	18.0	10.0	0.0	0.75	0	C|0.993;A|0.007	0.007	strong	.	GLIS3	152	.	NM_001042413	exon4	c.G1216T	p.G406C	CCAGGCCTGGCTG	.	PASS	Atlas-SNP
MAP2K2	5605	hgsc.bcm.edu	37	19	4110552	4110552	+	Silent	SNP	C	C	G	rs10424722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	38.0	45.0	0.0	0.678571	0	C|0.956;G|0.044	0.044	strong	.	MAP2K2	72	.	NM_030662	exon3	c.G405C	p.G135G	GAAGGCCCCGTAG	.	PASS	Atlas-SNP
MAL2	114569	hgsc.bcm.edu	37	8	120233968	120233968	+	Missense_Mutation	SNP	G	G	A	rs2303398	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	88.0	138.0	0.0	0.651852	0	G|0.895;A|0.105	0.105	strong	.	.	.	.	NM_052886	exon3	c.G274A	p.A92T	ATGGTGGCTCAAA	.	PASS	Atlas-SNP
INCENP	3619	hgsc.bcm.edu	37	11	61906216	61906216	+	Missense_Mutation	SNP	G	G	A	rs61751226	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	26.0	44.0	0.0	0.52	0	G|0.995;A|0.005	0.005	strong	.	INCENP	122	.	NM_001040694	exon6	c.G1147A	p.E383K	GAGGCTGAGCCTG	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27804114	27804114	+	Missense_Mutation	SNP	C	C	T	rs13392197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	44.0	90.0	0.0	0.54321	0	C|0.983;T|0.017	0.017	strong	.	C2orf16	357	.	NM_032266	exon1	c.C4675T	p.H1559Y	ACCCGTCATAACC	.	PASS	Atlas-SNP
C15orf54	400360	hgsc.bcm.edu	37	15	39544809	39544809	+	Missense_Mutation	SNP	G	G	C	rs115130297	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	88.0	145.0	0.0	0.533333	0	G|0.997;C|0.003	0.003	strong	.	C15orf54	18	.	NM_207445	exon2	c.G473C	p.R158T	GAGAGAGGGGACA	.	PASS	Atlas-SNP
PLSCR5	389158	hgsc.bcm.edu	37	3	146311832	146311832	+	Missense_Mutation	SNP	G	G	T	rs12107687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	72.0	141.0	0.0	0.507042	0	G|0.987;T|0.013	0.013	strong	.	PLSCR5	35	.	NM_001085420	exon4	c.C328A	p.R110S	AAGTACGATTGAA	.	PASS	Atlas-SNP
IVL	3713	hgsc.bcm.edu	37	1	152883036	152883036	+	Missense_Mutation	SNP	C	C	T	rs4459054	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	88.0	169.0	0.0	0.423077	0	C|0.986;T|0.014	0.014	strong	IVL,NS,carcinoma,-2,1	IVL	100	1	NM_005547	exon2	c.C763T	p.L255F	CTGGAGCTCTCTG	.	PASS	Atlas-SNP
RBM20	282996	hgsc.bcm.edu	37	10	112540884	112540884	+	Missense_Mutation	SNP	C	C	A	rs7908490	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	54.0	129.0	0.0	0.418605	0	C|0.970;A|0.030	0.030	strong	.	RBM20	50	.	NM_001134363	exon2	c.C517A	p.P173T	TTTTCACCCCCCA	.	PASS	Atlas-SNP
ROS1	6098	hgsc.bcm.edu	37	6	117681560	117681560	+	Silent	SNP	G	G	T	rs140639104	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	24.0	75.0	0.0	0.328767	0	G|0.998;T|0.002	0.002	strong	.	ROS1	728	.	NM_002944	exon22	c.C3390A	p.A1130A	TGTAAAGGCCCTA	.	PASS	Atlas-SNP
LRIT2	340745	hgsc.bcm.edu	37	10	85981756	85981756	+	Missense_Mutation	SNP	G	G	T	rs74145770	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	208.0	119.0	159.0	0.0	0.572115	0	G|0.957;T|0.043	0.043	strong	.	LRIT2	81	.	NM_001017924	exon3	c.C1573A	p.P525T	CAGCTGGATGTTC	.	PASS	Atlas-SNP
NLRC4	58484	hgsc.bcm.edu	37	2	32463353	32463353	+	Missense_Mutation	SNP	A	A	G	rs202095832	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	61.0	91.0	0.0	0.539823	0	.	.	weak	.	NLRC4	165	.	NM_001199138	exon6	c.T2369C	p.L790P	TTCTTCAGGTTTT	.	PASS	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	37	11	108383560	108383560	+	Missense_Mutation	SNP	T	T	A	rs10890850	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	86.0	126.0	0.0	0.661538	0	T|0.967;A|0.033	0.033	strong	.	EXPH5	193	.	NM_015065	exon6	c.A2674T	p.N892Y	AAGAATTCTTTGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511397	195511397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	9.0	377.0	1.0	0.0633803	0.00265252	.	.	none	MUC4_ENST00000463781,NS,carcinoma,+1,3	MUC4	1505	3	NM_018406	exon2	c.C7054T	p.P2352S	GAAGAGGGGTGGC	.	scavenged	Atlas-SNP
ABCA6	23460	hgsc.bcm.edu	37	17	67109493	67109493	+	Silent	SNP	A	A	G	rs2058128	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	30.0	53.0	0.0	0.46875	0	A|0.876;G|0.124	0.124	strong	.	ABCA6	210	.	NM_080284	exon15	c.T1911C	p.L637L	ATCTAAAAGCAAA	.	PASS	Atlas-SNP
ODF1	4956	hgsc.bcm.edu	37	8	103573086	103573086	+	Missense_Mutation	SNP	T	T	C	rs11995900	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	31.0	93.0	0.0	0.392405	0	T|0.911;C|0.089	0.089	strong	.	ODF1	55	.	NM_024410	exon2	c.T727C	p.F243L	AGCCGATTTTCCT	.	PASS	Atlas-SNP
PON2	5445	hgsc.bcm.edu	37	7	95039394	95039394	+	Missense_Mutation	SNP	C	C	G	rs17876152	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	58.0	83.0	0.0	0.537037	0	C|0.983;G|0.017	0.017	strong	.	PON2	32	.	NM_000305	exon6	c.G514C	p.V172L	GTCCAACAGCTGT	.	PASS	Atlas-SNP
TAF1	6872	hgsc.bcm.edu	37	X	70595132	70595132	+	Silent	SNP	T	T	C	rs5981106	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	67.0	141.0	0.0	0.424051	0	T|0.891;C|0.109	0.109	strong	.	TAF1	439	.	NM_004606	exon4	c.T528C	p.T176T	TATTACTGGTGGT	.	PASS	Atlas-SNP
MFRP	83552	hgsc.bcm.edu	37	11	119216867	119216867	+	Missense_Mutation	SNP	G	G	C	rs139436396	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	23.0	48.0	0.0	0.5	0	G|0.990;C|0.010	0.010	strong	.	MFRP	63	.	NM_031433	exon3	c.C160G	p.R54G	GACGCCGACCTGC	.	PASS	Atlas-SNP
RASA2	5922	hgsc.bcm.edu	37	3	141248572	141248572	+	Missense_Mutation	SNP	A	A	C	rs144759014	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	17.0	35.0	0.0	0.404762	0	A|1.000;C|0.000	0.000	strong	RASA2_ENST00000286364,temporal_lobe,glioma,+2,2	RASA2	169	2	NM_006506	exon4	c.A378C	p.E126D	AAAAGAAGACTTG	.	PASS	Atlas-SNP
COX1	5742	hgsc.bcm.edu	37	MT	6071	6071	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	12.0	13.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361624	exon1	c.T168C	p.V56V	CAACGTTATCGTC	.	PASS	Atlas-SNP
KCNT1	57582	hgsc.bcm.edu	37	9	138651648	138651648	+	Silent	SNP	A	A	G	rs61739517	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	39.0	135.0	0.0	0.336207	0	A|0.967;G|0.033	0.033	strong	.	KCNT1	139	.	NM_020822	exon11	c.A978G	p.P326P	CTGGCCATCGCAG	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109637234	109637234	+	Silent	SNP	G	G	T	rs73398054	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	46.0	109.0	0.0	0.479167	0	A|0.006;G|0.992;T|0.002	0.002	strong	.	ACACB	330	.	NM_001093	exon17	c.G2655T	p.T885T	TAAGACGTGTGTG	.	PASS	Atlas-SNP
TMEM251	26175	hgsc.bcm.edu	37	14	93652734	93652734	+	Silent	SNP	C	C	T	rs61744704	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	263.0	133.0	246.0	0.0	0.505703	0	C|0.997;T|0.003	0.003	strong	.	.	.	.	NM_001098621	exon2	c.C228T	p.A76A	GCTGGCCTTGGAA	.	PASS	Atlas-SNP
ERP27	121506	hgsc.bcm.edu	37	12	15070169	15070169	+	Silent	SNP	T	T	A	rs35203261	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	102.0	229.0	0.0	0.445415	0	T|0.980;A|0.020	0.020	strong	.	ERP27	37	.	NM_152321	exon5	c.A519T	p.P173P	ATACTCTGGGGAG	.	PASS	Atlas-SNP
CEACAM8	1088	hgsc.bcm.edu	37	19	43093793	43093793	+	Silent	SNP	G	G	A	rs10418988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	231.0	104.0	206.0	0.0	0.450216	0	G|0.977;A|0.023	0.023	strong	.	CEACAM8	44	.	NM_001816	exon3	c.C519T	p.N173N	GGTTGTGTTCTGA	.	PASS	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46142624	46142624	+	Missense_Mutation	SNP	A	A	C	rs201822741	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	29.0	45.0	0.0	0.517857	0	A|0.994;C|0.006	0.006	strong	.	EML2	64	.	NM_012155	exon1	c.T11G	p.F4C	GCTCCAAAGCTAC	.	PASS	Atlas-SNP
DSE	29940	hgsc.bcm.edu	37	6	116720466	116720466	+	Missense_Mutation	SNP	G	G	T	rs76186865	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	34.0	100.0	0.0	0.435897	0	G|0.970;T|0.030	0.030	strong	.	DSE	98	.	NM_001080976	exon2	c.G53T	p.C18F	TGCTTTGCTTTGT	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234301	45234301	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	2.0	76.0	1.0	0.0434783	0.0131579	.	.	none	CDC27_ENST00000531206,NS,carcinoma,+1,10	CDC27	337	10	NM_001114091	exon7	c.G820T	p.A274S	TAAGAGCTGCTGG	.	scavenged	Atlas-SNP
FAM179B	23116	hgsc.bcm.edu	37	14	45431636	45431636	+	Silent	SNP	C	C	T	rs141982460	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	29.0	51.0	0.0	0.483333	0	C|0.998;T|0.002	0.002	strong	.	FAM179B	115	.	NM_015091	exon1	c.C12T	p.A4A	GGCTGCCCCCTCC	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18473933	18473933	+	Missense_Mutation	SNP	T	T	G	rs201637656	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	256.0	121.0	287.0	0.0	0.472656	0	.	.	weak	PIK3C2G_ENST00000433979,NS,carcinoma,+1,2	PIK3C2G	315	2	NM_004570	exon7	c.T1175G	p.L392R	ATCAACTTCTAGA	.	PASS	Atlas-SNP
KIAA1456	57604	hgsc.bcm.edu	37	8	12879016	12879016	+	Silent	SNP	T	T	A	rs75377133	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	47.0	91.0	0.0	0.419643	0	T|0.989;A|0.011	0.011	strong	.	KIAA1456	20	.	NM_020844	exon5	c.T828A	p.V276V	AGAAGTTTGGGCC	.	PASS	Atlas-SNP
SNAPC4	6621	hgsc.bcm.edu	37	9	139292751	139292751	+	Missense_Mutation	SNP	C	C	T	rs7031489	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	30.0	88.0	0.0	0.32967	0	C|0.991;T|0.009	0.009	strong	.	SNAPC4	82	.	NM_003086	exon1	c.G130A	p.D44N	GCTTACCTGCTTC	.	PASS	Atlas-SNP
GSDMA	284110	hgsc.bcm.edu	37	17	38122117	38122117	+	Silent	SNP	G	G	A	rs16965465	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	16.0	56.0	0.0	0.380952	0	G|0.930;A|0.070	0.070	strong	GSDMA,NS,carcinoma,+1,1	GSDMA	26	1	NM_178171	exon2	c.G177A	p.T59T	CTACACGCTGCTG	.	PASS	Atlas-SNP
XPR1	9213	hgsc.bcm.edu	37	1	180849394	180849394	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	66.0	111.0	0.0	0.507692	0	.	.	none	.	XPR1	76	.	NM_004736	exon14	c.A1991G	p.N664S	AGTACAACCAGAG	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158587368	158587368	+	Missense_Mutation	SNP	T	T	C	rs111980420	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	112.0	231.0	0.0	0.589474	0	T|0.994;C|0.006	0.006	strong	.	SPTA1	720	.	NM_003126	exon47	c.A6559G	p.K2187E	TTTCTTTGAGCAA	.	PASS	Atlas-SNP
GCLC	2729	hgsc.bcm.edu	37	6	53365102	53365102	+	Silent	SNP	C	C	T	rs17881359	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	82.0	179.0	0.0	0.465909	0	C|0.994;T|0.006	0.006	strong	.	GCLC	58	.	NM_001498	exon14	c.G1524A	p.T508T	GAGCTCCGTGCTG	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228882588	228882588	+	Silent	SNP	T	T	C	rs73994847	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	53.0	85.0	0.0	0.524752	0	T|0.953;C|0.047	0.047	strong	.	SPHKAP	750	.	NM_030623	exon7	c.A2982G	p.K994K	CTTGTGTTTCCTC	.	PASS	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	37	11	78387356	78387356	+	Silent	SNP	C	C	T	rs59660398	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	39.0	67.0	0.0	0.443182	0	C|0.963;T|0.037	0.037	strong	.	.	.	.	NM_001098816	exon30	c.G5337A	p.A1779A	CTGCAGCGCCACC	.	PASS	Atlas-SNP
PTPN1	5770	hgsc.bcm.edu	37	20	49191191	49191191	+	Silent	SNP	A	A	G	rs35414863	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	51.0	89.0	0.0	0.515152	0	A|0.976;G|0.024	0.024	strong	.	PTPN1	36	.	NM_002827	exon5	c.A492G	p.T164T	CCTTACAGTGAGT	.	PASS	Atlas-SNP
NLGN4X	57502	hgsc.bcm.edu	37	X	5821468	5821468	+	Silent	SNP	C	C	G	rs61741754	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	229.0	125.0	173.0	0.0	0.545852	0	C|0.870;G|0.130	0.130	strong	.	NLGN4X	191	.	NM_181332	exon5	c.G1251C	p.R417R	AGTCTCCCGCAAA	.	PASS	Atlas-SNP
TRIM17	51127	hgsc.bcm.edu	37	1	228601506	228601506	+	Missense_Mutation	SNP	C	C	T	rs116188608	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	44.0	93.0	0.0	0.40367	0	C|0.986;T|0.014	0.014	strong	.	TRIM17	66	.	NM_001024940	exon3	c.G517A	p.E173K	GCCACTCGGCTAA	.	PASS	Atlas-SNP
BRD7	29117	hgsc.bcm.edu	37	16	50368671	50368671	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	58.0	136.0	0.0	0.298969	0	.	.	none	.	BRD7	61	.	NM_013263	exon7	c.G838C	p.G280R	CATCTCCAGAGTC	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57578696	57578696	+	Silent	SNP	C	C	T	rs140921686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	79.0	110.0	0.0	0.548611	0	C|0.999;T|0.001	0.001	strong	.	LRP1	428	.	NM_002332	exon39	c.C6261T	p.R2087R	GAACCGCGAGGTG	.	PASS	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	37	2	160901403	160901403	+	Silent	SNP	C	C	T	rs35005192	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	58.0	132.0	0.0	0.423358	0	C|0.994;T|0.006	0.006	strong	.	PLA2R1	153	.	NM_001195641	exon2	c.G375A	p.P125P	CTGCAGCGGGCCT	.	PASS	Atlas-SNP
MYO3B	140469	hgsc.bcm.edu	37	2	171256771	171256771	+	Missense_Mutation	SNP	C	C	T	rs148136770	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	56.0	166.0	0.0	0.434109	0	C|0.999;T|0.001	0.001	strong	.	MYO3B	320	.	NM_001083615	exon17	c.C1865T	p.S622F	TTTCCTCTCAACA	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	744510	744510	+	Silent	SNP	G	G	A	rs3746806	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	37.0	71.0	0.0	0.425287	0	A|0.009;C|0.000;G|0.991	0.009	strong	C20orf54,colon,carcinoma,-2,1	.	.	1	NM_033409	exon3	c.C705T	p.L235L	CGCCACGAGGCAG	.	PASS	Atlas-SNP
AMOT	154796	hgsc.bcm.edu	37	X	112022687	112022687	+	Missense_Mutation	SNP	T	T	C	rs147791527	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	82.0	94.0	0.0	0.706897	0	T|0.990;C|0.010	0.010	strong	.	AMOT	204	.	NM_001113490	exon10	c.A2695G	p.T899A	CAGCAGTGGCAGT	.	PASS	Atlas-SNP
CCDC37	348807	hgsc.bcm.edu	37	3	126142189	126142189	+	Silent	SNP	C	C	A	rs78360289	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	79.0	128.0	0.0	0.533784	0	C|0.992;T|0.008	.	alt	.	CCDC37	69	.	NM_182628	exon12	c.C1104A	p.P368P	CCCCCCCACGCAG	.	PASS	Atlas-SNP
CALHM1	255022	hgsc.bcm.edu	37	10	105215071	105215071	+	Missense_Mutation	SNP	C	C	T	rs114015468	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	75.0	90.0	0.0	0.609756	0	C|0.988;T|0.012	0.012	strong	.	CALHM1	33	.	NM_001001412	exon2	c.G989A	p.G330D	GGCCCACCCCCAG	.	PASS	Atlas-SNP
MC1R	4157	hgsc.bcm.edu	37	16	89985984	89985984	+	Silent	SNP	G	G	A	rs3212364	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	35.0	62.0	0.0	0.421687	0	G|0.991;A|0.009	0.009	strong	.	MC1R	20	.	NM_002386	exon1	c.G318A	p.L106L	TGCACTGGTGGCC	.	PASS	Atlas-SNP
C1orf158	93190	hgsc.bcm.edu	37	1	12819401	12819401	+	Silent	SNP	G	G	A	rs115263357	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	53.0	111.0	0.0	0.495327	0	G|0.993;A|0.007	0.007	strong	.	C1orf158	28	.	NM_152290	exon3	c.G384A	p.K128K	AGAGAAGTCTGAC	.	PASS	Atlas-SNP
DCTN1	1639	hgsc.bcm.edu	37	2	74596321	74596321	+	Silent	SNP	T	T	C	rs13429423	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	305.0	151.0	252.0	0.0	0.495082	0	T|0.956;C|0.044	0.044	strong	.	DCTN1	110	.	NM_004082	exon15	c.A1605G	p.T535T	CTGGTTTGTCAGT	.	PASS	Atlas-SNP
ZNF566	84924	hgsc.bcm.edu	37	19	36940675	36940675	+	Missense_Mutation	SNP	T	T	C	rs35217571	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	89.0	183.0	0.0	0.559748	0	T|0.986;C|0.014	0.014	strong	.	ZNF566	40	.	NM_001145343	exon5	c.A464G	p.H155R	GGATGGTGACTCA	.	PASS	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	37	14	71514668	71514668	+	Missense_Mutation	SNP	G	G	C	rs78161372	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	226.0	102.0	206.0	0.0	0.451327	0	G|0.995;C|0.005	0.005	strong	.	PCNX	198	.	NM_014982	exon22	c.G4305C	p.L1435F	GCTGTTGGATCTC	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248636934	248636934	+	Missense_Mutation	SNP	G	G	T	rs9435929		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	441.0	278.0	635.0	2.0	0.630385	0.00314961	G|1.000;|0.000	.	weak	.	OR2T3	79	.	NM_001005495	exon1	c.G283T	p.D95Y	GGAGATGATACCA	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25010746	25010746	+	Silent	SNP	T	T	C	rs4049881	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	269.0	127.0	230.0	0.0	0.472119	0	T|0.970;C|0.030	0.030	strong	.	GGT1	68	.	NM_013430	exon6	c.T168C	p.D56D	CAGGGATGCACTG	.	PASS	Atlas-SNP
AGRN	375790	hgsc.bcm.edu	37	1	978804	978804	+	Missense_Mutation	SNP	C	C	T	rs144164397	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	38.0	65.0	0.0	0.5	0	C|0.999;T|0.001	0.001	strong	.	AGRN	110	.	NM_198576	exon8	c.C1570T	p.R524W	CTCGGGCGGGAGA	.	PASS	Atlas-SNP
SEC14L3	266629	hgsc.bcm.edu	37	22	30860831	30860831	+	Missense_Mutation	SNP	G	G	A	rs115090125	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	75.0	135.0	0.0	0.506757	0	G|0.997;A|0.003	0.003	strong	.	SEC14L3	46	.	NM_174975	exon8	c.C640T	p.R214C	TCCTGCGAGTGTC	.	PASS	Atlas-SNP
PYGM	5837	hgsc.bcm.edu	37	11	64520569	64520569	+	Silent	SNP	G	G	A	rs11231865	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	221.0	121.0	200.0	1.0	0.547511	0.005	G|0.963;A|0.037	0.037	strong	.	PYGM	77	.	NM_005609	exon12	c.C1494T	p.P498P	CAGCCCGGGGTTA	.	PASS	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	37	9	104432462	104432462	+	Silent	SNP	A	A	G	rs200841145	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	48.0	96.0	0.0	0.607595	0	A|1.000;G|0.000	0.000	strong	.	GRIN3A	186	.	NM_133445	exon3	c.T2232C	p.F744F	CATTAGAAACCTT	.	PASS	Atlas-SNP
CXorf65	158830	hgsc.bcm.edu	37	X	70325881	70325881	+	Silent	SNP	G	G	A	rs138762266	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	77.0	200.0	0.0	0.442529	0	G|0.996;A|0.004	0.004	strong	.	CXorf65	23	.	NM_001025265	exon3	c.C219T	p.Y73Y	AACGTAGTAGGTG	.	PASS	Atlas-SNP
CYB5B	80777	hgsc.bcm.edu	37	16	69458746	69458746	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	4.0	67.0	0.0	0.0449438	0	.	.	none	.	CYB5B	12	.	NM_030579	exon1	c.C160T	p.R54C	GTCACCCGCTTCC	.	PASS	Atlas-SNP
SHROOM2	357	hgsc.bcm.edu	37	X	9863929	9863929	+	Missense_Mutation	SNP	G	G	A	rs146519576	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	63.0	106.0	0.0	0.456522	0	G|0.998;A|0.002	0.002	strong	.	SHROOM2	139	.	NM_001649	exon4	c.G1981A	p.G661S	GGCACCGGCCGCT	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141754629	141754629	+	Missense_Mutation	SNP	G	G	C	rs145885349	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	191.0	94.0	169.0	0.0	0.492147	0	G|0.997;C|0.003	0.003	strong	MGAM_ENST00000549489,caecum,carcinoma,-2,3	MGAM	767	3	NM_004668	exon27	c.G3235C	p.E1079Q	ACCCCTGAGGGTC	.	PASS	Atlas-SNP
TMEM66	51669	hgsc.bcm.edu	37	8	29927182	29927182	+	Missense_Mutation	SNP	G	G	A	rs34416759	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	64.0	126.0	0.0	0.402516	0	G|0.990;A|0.010	0.010	strong	.	TMEM66	23	.	NM_016127	exon3	c.C676T	p.P226S	AGCCTGGGGGAGG	.	PASS	Atlas-SNP
ACTG2	72	hgsc.bcm.edu	37	2	74140616	74140616	+	Silent	SNP	C	C	T	rs34286914	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	66.0	144.0	0.0	0.481752	0	C|0.976;T|0.024	0.024	strong	.	ACTG2	37	.	NM_001615	exon6	c.C456T	p.I152I	AGGCATCGTCCTG	.	PASS	Atlas-SNP
AGFG2	3268	hgsc.bcm.edu	37	7	100151719	100151719	+	Missense_Mutation	SNP	G	G	A	rs61742738	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	43.0	83.0	0.0	0.5	0	G|0.959;A|0.041	0.041	strong	.	AGFG2	44	.	NM_006076	exon5	c.G589A	p.V197I	AAGCCCGTCAGTC	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536140	1536140	+	Missense_Mutation	SNP	C	C	T	rs79505704	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	40.0	65.0	0.0	0.533333	0	C|0.987;T|0.013	0.013	strong	.	PTX4	46	.	NM_001013658	exon3	c.G1222A	p.G408R	CGAATCCGCCCCC	.	PASS	Atlas-SNP
IFNAR1	3454	hgsc.bcm.edu	37	21	34721782	34721782	+	Missense_Mutation	SNP	C	C	T	rs17875834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	49.0	117.0	0.0	0.462264	0	C|0.930;T|0.070	0.070	strong	IFNAR1,caecum,carcinoma,0,1	IFNAR1	44	1	NM_000629	exon8	c.C1076T	p.T359M	GAAACACGCCTGT	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149488909	149488909	+	Silent	SNP	C	C	T	rs893600	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	77.0	188.0	0.0	0.484277	0	C|0.979;T|0.021	0.021	strong	.	.	.	.	NM_198455	exon35	c.C5250T	p.D1750D	AGTGGACGGTGAA	.	PASS	Atlas-SNP
WWC3	55841	hgsc.bcm.edu	37	X	10085227	10085227	+	Silent	SNP	T	T	C	rs7058143	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	51.0	106.0	0.0	0.414634	0	0|0.004;C|0.221	0.221	strong	.	WWC3	142	.	NM_015691	exon11	c.T1128C	p.R376R	CAGCCGTGGGTCT	.	PASS	Atlas-SNP
CTNNBL1	56259	hgsc.bcm.edu	37	20	36396429	36396429	+	Missense_Mutation	SNP	C	C	G	rs186475150	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	199.0	107.0	180.0	0.0	0.537688	0	C|0.995;G|0.005	0.005	strong	.	CTNNBL1	78	.	NM_030877	exon7	c.C733G	p.L245V	CAGTGGCTGTTGA	.	PASS	Atlas-SNP
GJB4	127534	hgsc.bcm.edu	37	1	35227306	35227306	+	Missense_Mutation	SNP	C	C	A	rs78499418	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	41.0	73.0	0.0	0.546667	0	C|0.966;A|0.034	0.034	strong	.	GJB4	51	.	NM_153212	exon2	c.C451A	p.R151S	TTCCACCGCCTCT	.	PASS	Atlas-SNP
ALKBH4	54784	hgsc.bcm.edu	37	7	102098035	102098035	+	Missense_Mutation	SNP	G	G	A	rs150409598	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	28.0	58.0	0.0	0.583333	0	G|0.996;A|0.004	0.004	strong	.	ALKBH4	21	.	NM_017621	exon3	c.C715T	p.R239C	GGGAGCGGGCGGG	.	PASS	Atlas-SNP
FBXO34	55030	hgsc.bcm.edu	37	14	55818162	55818162	+	Missense_Mutation	SNP	C	C	T	rs74050979	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	207.0	90.0	195.0	0.0	0.434783	0	C|0.979;T|0.021	0.021	strong	.	FBXO34	61	.	NM_017943	exon2	c.C1054T	p.P352S	TGTGGCCCTTCAA	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15794463	15794463	+	Missense_Mutation	SNP	G	G	C	rs57578760	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	44.0	103.0	0.0	0.285714	0	G|0.973;C|0.027	0.027	strong	.	CYP4F12	89	.	NM_023944	exon7	c.G808C	p.V270L	GACGCTGTCATCC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105417731	105417731	+	Missense_Mutation	SNP	G	G	C	rs199870471		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	108.0	364.0	0.0	0.413793	0	.	.	weak	.	AHNAK2	719	.	NM_138420	exon7	c.C4057G	p.L1353V	CAGACAGGTCCAC	.	PASS	Atlas-SNP
VPS9D1	9605	hgsc.bcm.edu	37	16	89778919	89778919	+	Silent	SNP	T	T	C	rs139626173	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	27.0	42.0	0.0	0.710526	0	T|0.989;C|0.011	0.011	strong	.	.	.	.	NM_004913	exon6	c.A555G	p.L185L	CCGCTGTAGAGAG	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26816779	26816779	+	Missense_Mutation	SNP	C	C	T	rs77639758	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	38.0	68.0	0.0	0.513514	0	C|0.998;T|0.002	0.002	strong	.	ITPR2	270	.	NM_002223	exon15	c.G1552A	p.V518I	CAAATACCTATCA	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240577	39240577	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	16.0	106.0	0.0	0.118519	0	.	.	none	.	KRTAP4-7	49	.	NM_033061	exon1	c.A119G	p.Y40C	CCTGCTACCGCCC	.	PASS	Atlas-SNP
HRCT1	646962	hgsc.bcm.edu	37	9	35906601	35906601	+	Missense_Mutation	SNP	C	C	A	rs112212538	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	22.0	37.0	0.0	0.611111	0	C|0.846;A|0.154	0.154	strong	.	HRCT1	14	.	NM_001039792	exon1	c.C317A	p.P106H	ACCACCCCCACCG	.	PASS	Atlas-SNP
YY1AP1	55249	hgsc.bcm.edu	37	1	155629982	155629982	+	Missense_Mutation	SNP	C	C	T	rs145852062	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	320.0	162.0	291.0	1.0	0.50625	0.00343643	C|0.981;T|0.019	0.019	strong	.	YY1AP1	104	.	NM_001198903	exon10	c.G2133A	p.M711I	CTGGATCATGTTA	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744771	54744771	+	Silent	SNP	A	A	G	rs394983	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	471.0	124.0	380.0	1.0	0.26327	0.00263158	A|0.570;G|0.430	0.430	strong	.	LILRA6	75	.	NM_024318	exon5	c.T891C	p.Y297Y	TGCACCATAGCAC	.	PASS	Atlas-SNP
MRS2	57380	hgsc.bcm.edu	37	6	24418749	24418749	+	Silent	SNP	G	G	A	rs141564147	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	118.0	278.0	0.0	0.452107	0	G|0.996;A|0.004	0.004	strong	.	MRS2	31	.	NM_020662	exon9	c.G1050A	p.S350S	TCTTTCGCTCTTT	.	PASS	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	37	16	30748715	30748715	+	Missense_Mutation	SNP	G	G	A	rs144295177	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	78.0	144.0	0.0	0.52349	0	G|1.000;A|0.000	0.000	weak	.	SRCAP	298	.	NM_006662	exon34	c.G7354A	p.A2452T	GCTCCGGCTGCAA	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9322194	9322194	+	Silent	SNP	C	C	T	rs145706807	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	126.0	195.0	0.0	0.591549	0	C|0.999;T|0.001	0.001	strong	.	H6PD	71	.	NM_004285	exon4	c.C822T	p.L274L	CACCCTCGTGGCC	.	PASS	Atlas-SNP
RAB3D	9545	hgsc.bcm.edu	37	19	11436221	11436221	+	Silent	SNP	A	A	G	rs12981706	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	16.0	46.0	0.0	0.333333	0	A|0.939;G|0.061;T|0.000	0.061	strong	.	RAB3D	24	.	NM_004283	exon5	c.T513C	p.N171N	CTTCACATTGATG	.	PASS	Atlas-SNP
CXCR5	643	hgsc.bcm.edu	37	11	118764382	118764382	+	Silent	SNP	G	G	T	rs2230319	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	67.0	97.0	0.0	0.587719	0	G|0.952;T|0.048	0.048	strong	.	CXCR5	34	.	NM_001716	exon2	c.G129T	p.G43G	AGAGGGGCCCCTC	.	PASS	Atlas-SNP
NOLC1	9221	hgsc.bcm.edu	37	10	103920255	103920255	+	Silent	SNP	T	T	A	rs145855726	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	51.0	97.0	0.0	0.5	0	T|0.997;A|0.003	0.003	strong	.	NOLC1	61	.	NM_004741	exon10	c.T1146A	p.G382G	AGCTGGTACCACC	.	PASS	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29429732	29429732	+	Silent	SNP	T	T	C	rs61732184	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	303.0	139.0	256.0	0.0	0.458746	0	T|0.964;C|0.036	0.036	strong	.	OR2H1	38	.	NM_030883	exon3	c.T186C	p.S62S	CCTCTCTGACCTC	.	PASS	Atlas-SNP
NDOR1	27158	hgsc.bcm.edu	37	9	140108468	140108468	+	Silent	SNP	C	C	T	rs114934623	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	15.0	36.0	0.0	0.217391	0	C|0.994;T|0.006	0.006	strong	.	NDOR1	71	.	NM_001144026	exon5	c.C460T	p.L154L	AGGGTTCTGGGGC	.	PASS	Atlas-SNP
HOXC10	3226	hgsc.bcm.edu	37	12	54379610	54379610	+	Silent	SNP	G	G	C	rs145093077	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	49.0	72.0	0.0	0.462264	0	G|1.000;A|0.000	.	alt	.	HOXC10	42	.	NM_017409	exon1	c.G567C	p.S189S	GGAATCGCCTCAG	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20766752	20766752	+	Missense_Mutation	SNP	G	G	T	rs35885925	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	27.0	76.0	0.0	0.54	0	G|0.979;T|0.021	0.021	strong	.	ABCB5	357	.	NM_001163941	exon22	c.G2715T	p.Q905H	GCTTCAGACTCAA	.	PASS	Atlas-SNP
SUN1	23353	hgsc.bcm.edu	37	7	878583	878583	+	Missense_Mutation	SNP	G	G	T	rs114826023	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	16.0	39.0	0.0	0.421053	0	G|0.997;T|0.003	0.003	strong	.	SUN1	157	.	NM_001171945	exon4	c.G289T	p.G97C	GACAGCGGCACCA	.	PASS	Atlas-SNP
FOXA2	3170	hgsc.bcm.edu	37	20	22563134	22563134	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	38.0	107.0	0.0	0.345455	0	.	.	none	.	FOXA2	48	.	NM_021784	exon2	c.T746C	p.F249S	TTCTCGAACATGT	.	PASS	Atlas-SNP
FAM160A1	729830	hgsc.bcm.edu	37	4	152571711	152571711	+	Missense_Mutation	SNP	C	C	T	rs77993711	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	55.0	126.0	0.0	0.486726	0	C|0.995;T|0.005	0.005	strong	.	FAM160A1	60	.	NM_001109977	exon11	c.C2518T	p.H840Y	AGTCGCCATCCCG	.	PASS	Atlas-SNP
HUNK	30811	hgsc.bcm.edu	37	21	33371442	33371442	+	Missense_Mutation	SNP	T	T	C	rs150499320	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	55.0	123.0	0.0	0.429688	0	T|0.999;C|0.001	0.001	strong	.	HUNK	74	.	NM_014586	exon11	c.T2090C	p.L697P	AGCCCCTAGCCCC	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100682831	100682831	+	Missense_Mutation	SNP	C	C	G	rs34223735	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	9.0	120.0	0.0	0.0616438	0	.	.	weak	.	MUC17	804	.	NM_001040105	exon3	c.C8134G	p.L2712V	AGCACCCTTTCAA	.	PASS	Atlas-SNP
OR2AE1	81392	hgsc.bcm.edu	37	7	99473801	99473801	+	Missense_Mutation	SNP	A	A	G	rs73403577	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	74.0	169.0	0.0	0.493333	0	A|0.933;G|0.067	0.067	strong	OR2AE1,rectum,carcinoma,+1,1	OR2AE1	32	1	NM_001005276	exon1	c.T856C	p.S286P	TCAGAGAATTCAA	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117637	117637	+	Silent	SNP	G	G	A	rs138098441	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	115.0	219.0	0.0	0.504386	0	G|0.974;A|0.026	0.026	strong	.	FOXD4	75	.	NM_207305	exon1	c.C483T	p.C161C	GACGAAGCAGTCG	.	PASS	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	37	12	25671871	25671871	+	Silent	SNP	A	A	G	rs34028410	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	79.0	117.0	0.0	0.523179	0	A|0.980;G|0.020	0.020	strong	.	IFLTD1	121	.	NM_001145728	exon8	c.T1047C	p.P349P	GCGATTAGGGAAA	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20996868	20996868	+	Missense_Mutation	SNP	A	A	T	rs34179606	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	35.0	79.0	0.0	0.530303	0	A|0.989;T|0.011	0.011	strong	.	DNAH3	1142	.	NM_017539	exon48	c.T7196A	p.I2399N	TTGCTGATGTTGT	.	PASS	Atlas-SNP
TTC21B	79809	hgsc.bcm.edu	37	2	166781188	166781188	+	Missense_Mutation	SNP	G	G	A	rs16851307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	44.0	121.0	0.0	0.382609	0	G|0.983;A|0.017	0.017	strong	.	TTC21B	130	.	NM_024753	exon12	c.C1387T	p.P463S	TTGCAGGCTAAAC	.	PASS	Atlas-SNP
LYSMD1	388695	hgsc.bcm.edu	37	1	151138250	151138250	+	Missense_Mutation	SNP	G	G	T	rs113805704	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	52.0	121.0	0.0	0.530612	0	G|0.994;T|0.006	0.006	strong	.	LYSMD1	23	.	NM_001136543	exon1	c.C9A	p.S3R	AGGTCCGCTCCGC	.	PASS	Atlas-SNP
OR6K2	81448	hgsc.bcm.edu	37	1	158669980	158669980	+	Missense_Mutation	SNP	G	G	A	rs111363268	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	42.0	73.0	0.0	0.494118	0	G|0.977;A|0.023	0.023	strong	OR6K2,right_upper_lobe,carcinoma,+2,1	OR6K2	104	1	NM_001005279	exon1	c.C463T	p.P155S	GAAGGGGTGTGAT	.	PASS	Atlas-SNP
AKAP1	8165	hgsc.bcm.edu	37	17	55183726	55183726	+	Missense_Mutation	SNP	G	G	A	rs61731968	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	49.0	112.0	0.0	0.429825	0	G|0.927;A|0.073	0.073	strong	.	AKAP1	73	.	NM_001242902	exon3	c.G901A	p.E301K	GGTGTCGAGGGAG	.	PASS	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	37	4	6611560	6611560	+	Missense_Mutation	SNP	G	G	A	rs61733399	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	55.0	103.0	0.0	0.55	0	G|0.981;A|0.019	0.019	strong	.	MAN2B2	80	.	NM_015274	exon13	c.G2042A	p.R681H	CAATCCGCTCCCG	.	PASS	Atlas-SNP
PTP4A1	7803	hgsc.bcm.edu	37	6	64289996	64289996	+	Silent	SNP	C	C	T	rs1681943	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	23.0	45.0	0.0	0.547619	0	C|0.980;T|0.020	0.020	strong	.	PTP4A1	13	.	NM_003463	exon6	c.C439T	p.L147L	CAACTTCTGTATT	.	PASS	Atlas-SNP
ARL4D	379	hgsc.bcm.edu	37	17	41477670	41477670	+	Silent	SNP	G	G	A	rs61749921	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	28.0	67.0	0.0	0.571429	0	G|0.979;A|0.021	0.021	strong	.	ARL4D	16	.	NM_001661	exon2	c.G570A	p.R190R	CAAGAGGAAGAAG	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	37	18	13068191	13068191	+	Silent	SNP	C	C	A	rs143595675	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	55.0	76.0	0.0	0.5	0	C|0.996;A|0.004	0.004	strong	.	CEP192	340	.	NM_032142	exon23	c.C4713A	p.G1571G	AGCAGGCCCTTCT	.	PASS	Atlas-SNP
KRTAP10-4	386672	hgsc.bcm.edu	37	21	45994763	45994763	+	Silent	SNP	C	C	T	rs115169164	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	52.0	127.0	0.0	0.5	0	C|0.980;T|0.020	0.020	strong	.	KRTAP10-4	44	.	NM_198687	exon1	c.C1128T	p.P376P	CGTGCCCGTCCCT	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13506	13506	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	8.0	8.0	20.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.C1170T	p.Y390Y	TTTCTACTCCAAA	.	PASS	Atlas-SNP
STK38L	23012	hgsc.bcm.edu	37	12	27450671	27450671	+	Silent	SNP	G	G	T	rs56140810	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	32.0	56.0	0.0	0.470588	0	G|0.972;T|0.028	0.028	strong	.	STK38L	44	.	NM_015000	exon2	c.G18T	p.G6G	GGCAGGGACTACA	.	PASS	Atlas-SNP
NOP14	8602	hgsc.bcm.edu	37	4	2955361	2955361	+	Missense_Mutation	SNP	T	T	G	rs111987238	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	55.0	117.0	0.0	0.478261	0	T|0.995;G|0.005	0.005	strong	.	NOP14	69	.	NM_003703	exon5	c.A624C	p.Q208H	TTGAGCTTGTCTC	.	PASS	Atlas-SNP
ABCB1	5243	hgsc.bcm.edu	37	7	87179256	87179256	+	Missense_Mutation	SNP	G	G	A	rs142600685	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	57.0	139.0	0.0	0.419118	0	G|0.999;A|0.001	0.001	strong	ABCB1,NS,carcinoma,0,2	ABCB1	263	2	NM_000927	exon14	c.C1465T	p.R489C	CATAGCGAATGTT	.	PASS	Atlas-SNP
TATDN2	9797	hgsc.bcm.edu	37	3	10311949	10311949	+	Silent	SNP	T	T	C	rs145595744	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	80.0	83.0	0.0	0.610687	0	T|0.997;C|0.003	0.003	strong	.	TATDN2	59	.	NM_014760	exon4	c.T1083C	p.S361S	GCCTTCTTCCTTC	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123310871	123310871	+	Missense_Mutation	SNP	A	A	G	rs755793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	37.0	70.0	0.0	0.397849	0	A|0.878;G|0.122	0.122	strong	.	FGFR2	758	.	NM_022970	exon5	c.T557C	p.M186T	GTTGGCATTGGGT	.	PASS	Atlas-SNP
ZNF658	26149	hgsc.bcm.edu	37	9	40784132	40784132	+	Silent	SNP	A	A	G	rs79131704		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	264.0	93.0	233.0	0.0	0.352273	0	.	.	weak	.	ZNF658	100	.	NM_033160	exon4	c.T213C	p.D71D	GAATTCATCTTCT	.	PASS	Atlas-SNP
OR6C76	390326	hgsc.bcm.edu	37	12	55820927	55820927	+	Missense_Mutation	SNP	C	C	T	rs73327795	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	31.0	70.0	0.0	0.574074	0	C|0.983;T|0.017	0.017	strong	.	OR6C76	98	.	NM_001005183	exon1	c.C890T	p.A297V	AACAAGCATTTAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509559	195509559	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	24.0	261.0	0.0	0.128342	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,2	MUC4	1505	2	NM_018406	exon2	c.C8892T	p.T2964T	AGTGTCGGTGACA	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91532574	91532574	+	Missense_Mutation	SNP	A	A	G	rs150021584	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	389.0	182.0	407.0	1.0	0.467866	0.002457	A|0.999;G|0.001	0.001	strong	.	KIF20B	191	.	NM_016195	exon32	c.A5251G	p.I1751V	ATTGATATATCAG	.	PASS	Atlas-SNP
KLHDC4	54758	hgsc.bcm.edu	37	16	87743072	87743072	+	Missense_Mutation	SNP	C	C	T	rs61735154	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	32.0	34.0	0.0	0.516129	0	C|0.978;T|0.022	0.022	strong	.	KLHDC4	45	.	NM_017566	exon10	c.G1246A	p.E416K	TGTCTTCGTCCTC	.	PASS	Atlas-SNP
USH1C	10083	hgsc.bcm.edu	37	11	17531057	17531057	+	Missense_Mutation	SNP	C	C	A	rs139996942	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	64.0	100.0	1.0	0.516129	0.01	C|0.988;A|0.012	0.012	strong	USH1C,NS,carcinoma,-1,2	USH1C	157	2	NM_153676	exon18	c.G1859T	p.R620L	AGTGGGCGGGTGG	.	scavenged	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152191116	152191116	+	Missense_Mutation	SNP	C	C	T	rs138107632	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	266.0	124.0	221.0	1.0	0.466165	0.00452489	C|0.985;T|0.015	0.015	strong	.	HRNR	403	.	NM_001009931	exon3	c.G2989A	p.G997S	GTTGGCCGTGGCC	.	PASS	Atlas-SNP
UACA	55075	hgsc.bcm.edu	37	15	70959576	70959576	+	Silent	SNP	C	C	T	rs61746327	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	68.0	149.0	0.0	0.42236	0	C|0.989;T|0.011	0.011	strong	.	UACA	235	.	NM_018003	exon16	c.G3447A	p.V1149V	TTTGGTCACTGTC	.	PASS	Atlas-SNP
LRIT1	26103	hgsc.bcm.edu	37	10	85993923	85993923	+	Silent	SNP	C	C	T	rs149121025	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	41.0	59.0	0.0	0.43617	0	C|0.998;T|0.002	0.002	strong	LRIT1,NS,haematopoietic_neoplasm,0,1	LRIT1	73	1	NM_015613	exon3	c.G801A	p.L267L	GCCACCCAAAAGG	.	PASS	Atlas-SNP
GDNF	2668	hgsc.bcm.edu	37	5	37835752	37835752	+	Silent	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	50.0	141.0	0.0	0.390625	0	.	.	none	.	GDNF	56	.	NM_001190468	exon1	c.T9G	p.S3S	AGGCAAAGACTGC	.	PASS	Atlas-SNP
MAP2K1	5604	hgsc.bcm.edu	37	15	66779597	66779597	+	Silent	SNP	A	A	T	rs146869577	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	51.0	133.0	0.0	0.443478	0	A|0.995;T|0.005	0.005	strong	.	MAP2K1	115	.	NM_002755	exon8	c.A927T	p.A309A	CATGGCAATTTTT	.	PASS	Atlas-SNP
TAC3	6866	hgsc.bcm.edu	37	12	57406234	57406234	+	Missense_Mutation	SNP	A	A	G	rs73334764	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	42.0	77.0	0.0	0.506024	0	A|0.971;G|0.029	0.029	strong	.	TAC3	11	.	NM_013251	exon6	c.T295C	p.S99P	TAGGAGAGTCTAG	.	PASS	Atlas-SNP
ARL14	80117	hgsc.bcm.edu	37	3	160395483	160395483	+	Missense_Mutation	SNP	C	C	A	rs35633732	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	122.0	118.0	0.0	0.99187	0	C|0.942;A|0.058	0.058	strong	.	ARL14	16	.	NM_025047	exon1	c.C349A	p.P117T	AATGTGCCTGTTG	.	PASS	Atlas-SNP
SLC40A1	30061	hgsc.bcm.edu	37	2	190437572	190437572	+	Silent	SNP	G	G	A	rs11568344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	98.0	186.0	0.0	0.5	0	G|0.960;A|0.040	0.040	strong	.	SLC40A1	51	.	NM_014585	exon4	c.C387T	p.L129L	ACTTACGAGAACC	.	PASS	Atlas-SNP
TLL2	7093	hgsc.bcm.edu	37	10	98240156	98240156	+	Missense_Mutation	SNP	T	T	A	rs61738802	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	256.0	118.0	250.0	0.0	0.460938	0	T|0.986;A|0.014	0.014	strong	.	TLL2	122	.	NM_012465	exon2	c.A236T	p.K79I	CTGGCTTTGTCAA	.	PASS	Atlas-SNP
NDUFS4	4724	hgsc.bcm.edu	37	5	52856572	52856572	+	Missense_Mutation	SNP	T	T	A	rs145347909	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	39.0	63.0	0.0	0.4875	0	T|0.999;A|0.001	0.001	strong	.	NDUFS4	17	.	NM_002495	exon1	c.T80A	p.V27D	TTTCCGTTTCCAG	.	PASS	Atlas-SNP
SIDT2	51092	hgsc.bcm.edu	37	11	117062989	117062989	+	Missense_Mutation	SNP	C	C	T	rs12285035	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	93.0	98.0	0.0	1	0	C|0.978;T|0.022	0.022	strong	.	SIDT2	82	.	NM_001040455	exon20	c.C1892T	p.T631M	GGAACACGGCGTT	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12409209	12409209	+	Missense_Mutation	SNP	G	G	A	rs77088407	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	81.0	178.0	0.0	0.503106	0	G|0.985;A|0.015	0.015	strong	.	VWDE	123	.	NM_001135924	exon12	c.C2723T	p.S908F	CTTGGGGAACACG	.	PASS	Atlas-SNP
CLEC4A	50856	hgsc.bcm.edu	37	12	8290881	8290881	+	Missense_Mutation	SNP	T	T	C	rs74810750	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	72.0	127.0	0.0	0.444444	0	T|0.994;C|0.006	0.006	strong	.	CLEC4A	28	.	NM_016184	exon6	c.T712C	p.X238R	CACTTATGAACTG	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13323261	13323261	+	Silent	SNP	C	C	T	rs7249722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	49.0	106.0	0.0	0.449541	0	C|0.996;T|0.004	0.004	strong	.	CACNA1A	715	.	NM_001127221	exon42	c.G6129A	p.T2043T	TGTGCCCGTCTTC	.	PASS	Atlas-SNP
APOBEC3C	27350	hgsc.bcm.edu	37	22	39413957	39413957	+	Missense_Mutation	SNP	G	G	A	rs141108460		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	276.0	114.0	281.0	0.0	0.413043	0	G|1.000;A|0.000	0.000	weak	.	APOBEC3C	21	.	NM_014508	exon3	c.G361A	p.A121T	TTCACCGCCCGCC	.	PASS	Atlas-SNP
SIGLEC9	27180	hgsc.bcm.edu	37	19	51628395	51628395	+	Missense_Mutation	SNP	C	C	T	rs144549146	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	227.0	108.0	210.0	0.0	0.475771	0	C|1.000;T|0.000	0.000	strong	.	SIGLEC9	85	.	NM_001198558	exon1	c.C164T	p.P55L	CTGGCCCAGTAGT	.	PASS	Atlas-SNP
SEC24D	9871	hgsc.bcm.edu	37	4	119659518	119659518	+	Silent	SNP	G	G	A	rs1128403	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	75.0	170.0	0.0	0.421348	0	G|0.956;A|0.044	0.044	strong	.	SEC24D	96	.	NM_014822	exon19	c.C2394T	p.L798L	CTGGTGGAGAACT	.	PASS	Atlas-SNP
FAM194A	131831	hgsc.bcm.edu	37	3	150391789	150391789	+	Missense_Mutation	SNP	C	C	T	rs11919896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	30.0	78.0	0.0	0.483871	0	C|0.970;T|0.030	0.030	strong	.	FAM194A	91	.	NM_152394	exon11	c.G1297A	p.G433R	TGCTCCCATGTTT	.	PASS	Atlas-SNP
MCEE	84693	hgsc.bcm.edu	37	2	71351641	71351641	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	25.0	55.0	0.0	0.490196	0	.	.	none	.	MCEE	19	.	NM_032601	exon2	c.A73G	p.T25A	TTACTGTTGGAAT	.	PASS	Atlas-SNP
DYX1C1	161582	hgsc.bcm.edu	37	15	55790053	55790053	+	Missense_Mutation	SNP	T	T	C	rs61733359	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	19.0	50.0	0.0	0.513514	0	T|0.995;C|0.005	0.005	strong	.	DYX1C1	54	.	NM_001033560	exon3	c.A128G	p.N43S	GGAAAGTTGACCT	.	PASS	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	37	3	39166887	39166887	+	Missense_Mutation	SNP	C	C	T	rs74824603	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	61.0	129.0	0.0	0.469231	0	A|0.004;C|0.994;T|0.001	0.001	strong	.	TTC21A	96	.	NM_145755	exon11	c.C1280T	p.A427V	CCACAGCGCTCCT	.	PASS	Atlas-SNP
PDE11A	50940	hgsc.bcm.edu	37	2	178592452	178592452	+	Silent	SNP	C	C	A	rs77341035	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	54.0	105.0	0.0	0.482143	0	C|0.989;A|0.011	0.011	strong	.	PDE11A	283	.	NM_016953	exon12	c.G1977T	p.R659R	AACCATCCGATAG	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232575051	232575051	+	Silent	SNP	G	G	A	rs189356281	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	61.0	106.0	1.0	0.495935	0.00943396	G|0.996;A|0.004	0.004	strong	SIPA1L2,colon,carcinoma,-2,1	SIPA1L2	218	1	NM_020808	exon13	c.C3834T	p.L1278L	AGGGCCGAGGATG	.	scavenged	Atlas-SNP
PCDHA9	9752	hgsc.bcm.edu	37	5	140229581	140229581	+	Missense_Mutation	SNP	G	G	C	rs59056023	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	346.0	173.0	300.0	1.0	0.5	0.00333333	G|0.939;C|0.061	0.061	strong	.	PCDHA9	373	.	NM_031857	exon1	c.G1501C	p.E501Q	TTGGGCGAGCGCT	.	PASS	Atlas-SNP
TSGA10	80705	hgsc.bcm.edu	37	2	99722135	99722135	+	Missense_Mutation	SNP	C	C	T	rs146207401	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	30.0	73.0	0.0	0.454545	0	C|0.999;T|0.001	0.001	strong	.	TSGA10	81	.	NM_182911	exon7	c.G236A	p.R79Q	TCTCGTCGAAGTC	.	PASS	Atlas-SNP
HEPHL1	341208	hgsc.bcm.edu	37	11	93844722	93844722	+	Silent	SNP	C	C	T	rs76467816	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	193.0	205.0	0.0	0.994845	0	C|0.979;T|0.021	0.021	strong	.	HEPHL1	144	.	NM_001098672	exon19	c.C3228T	p.S1076S	TTACTCCACCACA	.	PASS	Atlas-SNP
LEFTY1	10637	hgsc.bcm.edu	37	1	226074635	226074635	+	Missense_Mutation	SNP	C	C	T	rs61739581	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	285.0	134.0	293.0	0.0	0.470175	0	C|0.939;T|0.061	0.061	strong	.	LEFTY1	30	.	NM_020997	exon4	c.G893A	p.R298Q	GGCTGCCGGCAGG	.	PASS	Atlas-SNP
RBPJL	11317	hgsc.bcm.edu	37	20	43945377	43945377	+	Missense_Mutation	SNP	C	C	A	rs35220957	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	25.0	45.0	0.0	0.641026	0	C|0.988;A|0.012	0.012	strong	.	RBPJL	67	.	NM_014276	exon12	c.C1332A	p.S444R	CTGCAGCGACTGG	.	PASS	Atlas-SNP
ZNF213	7760	hgsc.bcm.edu	37	16	3190767	3190767	+	Missense_Mutation	SNP	G	G	A	rs143851164		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	20.0	33.0	0.0	0.606061	0	G|1.000;A|0.000	0.000	weak	.	ZNF213	36	.	NM_004220	exon6	c.G799A	p.D267N	GGCAGCGACGTGA	.	PASS	Atlas-SNP
BCL9L	283149	hgsc.bcm.edu	37	11	118773204	118773204	+	Silent	SNP	G	G	A	rs7119065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	30.0	19.0	21.0	0.0	0.633333	0	G|0.949;A|0.051	0.051	strong	BCL9L_ENST00000392849,right_upper_lobe,carcinoma,-1,2	BCL9L	254	2	NM_182557	exon6	c.C1248T	p.D416D	CTCAATGTCTCGC	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149481205	149481205	+	Missense_Mutation	SNP	T	T	C	rs73727609	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	28.0	55.0	0.0	0.430769	0	T|0.986;C|0.014	0.014	strong	.	.	.	.	NM_198455	exon18	c.T2687C	p.M896T	CCACCATGAAGGA	.	PASS	Atlas-SNP
USP11	8237	hgsc.bcm.edu	37	X	47107038	47107038	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	240.0	111.0	256.0	0.0	0.4625	0	.	.	none	.	USP11	93	.	NM_004651	exon20	c.C2694T	p.S898S	GGACAGCGGCCAG	.	PASS	Atlas-SNP
DSEL	92126	hgsc.bcm.edu	37	18	65180706	65180706	+	Silent	SNP	T	T	C	rs9959648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	68.0	67.0	0.0	1	0	T|0.949;C|0.051	0.051	strong	.	DSEL	196	.	NM_032160	exon2	c.A1170G	p.Q390Q	CCACCTTTGGGCA	.	PASS	Atlas-SNP
FASTKD1	79675	hgsc.bcm.edu	37	2	170413700	170413700	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	46.0	107.0	0.0	0.554217	0	.	.	none	.	FASTKD1	86	.	NM_024622	exon6	c.A1079G	p.K360R	TACCTTTTAATCA	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6103072	6103072	+	Missense_Mutation	SNP	C	C	T	rs2229446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	23.0	72.0	0.0	0.479167	0	C|0.939;T|0.061	0.061	strong	VWF,rectum,carcinoma,-1,1	VWF	338	1	NM_000552	exon37	c.G6554A	p.R2185Q	TTGGTCCGACAGA	.	PASS	Atlas-SNP
TNFAIP3	7128	hgsc.bcm.edu	37	6	138196066	138196066	+	Missense_Mutation	SNP	T	T	G	rs2230926	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	94.0	164.0	0.0	0.522222	0	T|0.857;G|0.143	0.143	strong	TNFAIP3,eye,lymphoid_neoplasm,0,1	TNFAIP3	340	1	NM_001270507	exon3	c.T380G	p.F127C	CGCTGTTCAGCAC	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141336858	141336858	+	Missense_Mutation	SNP	C	C	T	rs140883612	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	225.0	106.0	220.0	0.0	0.471111	0	C|0.991;T|0.009	0.009	strong	.	PCDH12	133	.	NM_016580	exon1	c.G559A	p.G187S	CAGGGCCCACAAT	.	PASS	Atlas-SNP
CBLC	23624	hgsc.bcm.edu	37	19	45285734	45285734	+	Silent	SNP	G	G	A	rs10416628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	62.0	118.0	0.0	0.521008	0	G|0.958;A|0.042	0.042	strong	.	CBLC	41	.	NM_001130852	exon4	c.G765A	p.R255R	CTGCAGGGACAAG	.	PASS	Atlas-SNP
BRD7	29117	hgsc.bcm.edu	37	16	50368626	50368626	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	8.0	71.0	0.0	0.0952381	0	.	.	none	.	BRD7	61	.	NM_013263	exon7	c.A883G	p.K295E	ACTTTTTATTTTC	.	PASS	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39253931	39253931	+	Missense_Mutation	SNP	G	G	A	rs150613353	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	54.0	84.0	0.0	0.439024	0	G|0.966;A|0.034	0.034	strong	.	KRTAP4-8	57	.	NM_031960	exon1	c.C406T	p.R136C	AGGGGCGGCAGCA	.	PASS	Atlas-SNP
ERN2	10595	hgsc.bcm.edu	37	16	23721865	23721865	+	Missense_Mutation	SNP	C	C	T	rs9932495	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	51.0	156.0	0.0	0.515152	0	C|0.981;T|0.019	0.019	strong	.	ERN2	131	.	NM_033266	exon3	c.G349A	p.V117I	CGATGACGGGATC	.	PASS	Atlas-SNP
GPATCH1	55094	hgsc.bcm.edu	37	19	33587298	33587298	+	Silent	SNP	C	C	T	rs114017497	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	73.0	167.0	0.0	0.480263	0	C|0.991;T|0.009	0.009	strong	.	GPATCH1	79	.	NM_018025	exon7	c.C798T	p.G266G	AGCTGGCGATCTT	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	34111969	34111969	+	Silent	SNP	C	C	T	rs58745096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	87.0	168.0	0.0	0.5	0	C|0.984;T|0.016	0.016	strong	RYR3,NS,carcinoma,0,1	RYR3	760	1	NM_001036	exon77	c.C10719T	p.D3573D	GGAAGACGACCCT	.	PASS	Atlas-SNP
KRTAP19-6	337973	hgsc.bcm.edu	37	21	31914013	31914013	+	Missense_Mutation	SNP	G	G	A	rs115563631	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	42.0	94.0	0.0	0.446809	0	G|0.985;A|0.015	0.015	strong	.	KRTAP19-6	16	.	NM_181612	exon1	c.C140T	p.S47L	CGGCATGATGGGC	.	PASS	Atlas-SNP
DOCK7	85440	hgsc.bcm.edu	37	1	63119442	63119442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	45.0	129.0	0.0	0.302013	0	.	.	none	.	DOCK7	184	.	NM_001271999	exon4	c.G343A	p.D115N	TACAGTCTCTAAC	.	PASS	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	37	7	98558922	98558922	+	Silent	SNP	G	G	A	rs34983214	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	46.0	81.0	0.0	0.489362	0	G|0.993;A|0.007	0.007	strong	.	TRRAP	863	.	NM_001244580	exon45	c.G6507A	p.T2169T	CTGCACGGGCCTA	.	PASS	Atlas-SNP
GFRA4	64096	hgsc.bcm.edu	37	20	3640568	3640568	+	Silent	SNP	C	C	T	rs74740423	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	23.0	37.0	0.0	0.560976	0	C|0.968;T|0.032	0.032	strong	.	GFRA4	10	.	NM_145762	exon5	c.G888A	p.P296P	CAGGGCCGGGAGA	.	PASS	Atlas-SNP
ACOT1	641371	hgsc.bcm.edu	37	14	74009937	74009937	+	Missense_Mutation	SNP	A	A	G	rs377598014		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	906.0	319.0	659.0	0.0	0.352097	0	.	.	weak	.	ACOT1	12	.	NM_001037161	exon3	c.A844G	p.I282V	AATCGCATCAAGG	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370859	32370859	+	Missense_Mutation	SNP	C	C	T	rs9461742	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	92.0	168.0	0.0	0.474227	0	C|0.992;T|0.008	0.008	strong	.	BTNL2	50	.	NM_019602	exon3	c.G562A	p.V188M	CAGACACGGCCAG	.	PASS	Atlas-SNP
C3	718	hgsc.bcm.edu	37	19	6711070	6711070	+	Missense_Mutation	SNP	C	C	G	rs11569422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	90.0	177.0	0.0	0.48913	0	C|0.980;G|0.020	0.020	strong	.	C3	192	.	NM_000064	exon12	c.G1407C	p.E469D	GAGGGTCTCCCCG	.	PASS	Atlas-SNP
MPZL2	10205	hgsc.bcm.edu	37	11	118133334	118133334	+	Silent	SNP	T	T	C	rs17122002	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	70.0	167.0	0.0	0.583333	0	T|0.954;C|0.046	0.046	strong	.	MPZL2	20	.	NM_005797	exon3	c.A255G	p.Q85Q	CATGGGTTGGAAG	.	PASS	Atlas-SNP
WAS	7454	hgsc.bcm.edu	37	X	48546837	48546837	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	255.0	68.0	238.0	0.0	0.266667	0	.	.	none	.	WAS	51	.	NM_000377	exon9	c.G926A	p.R309H	TGAGGCGCCAGGG	.	PASS	Atlas-SNP
CYP27A1	1593	hgsc.bcm.edu	37	2	219674482	219674482	+	Silent	SNP	G	G	A	rs692003	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	32.0	82.0	0.0	0.438356	0	G|0.935;A|0.065	0.065	strong	.	CYP27A1	52	.	NM_000784	exon2	c.G438A	p.P146P	TGGGCCGTTCACC	.	PASS	Atlas-SNP
HSD3B1	3283	hgsc.bcm.edu	37	1	120057163	120057163	+	Silent	SNP	G	G	A	rs33913717	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	250.0	127.0	233.0	0.0	0.508	0	G|0.990;A|0.010	0.010	strong	HSD3B1,caecum,carcinoma,+1,1	HSD3B1	53	1	NM_000862	exon4	c.G1017A	p.A339A	TCTGGCGTATAAG	.	PASS	Atlas-SNP
CD1E	913	hgsc.bcm.edu	37	1	158325819	158325819	+	Silent	SNP	G	G	A	rs61734678	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	249.0	114.0	219.0	0.0	0.457831	0	G|0.988;A|0.012	0.012	strong	CD1E,colon,carcinoma,+1,2	CD1E	129	2	NM_030893	exon4	c.G828A	p.A276A	TGTGGCGGCTGGG	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228547691	228547691	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	83.0	128.0	0.0	0.506098	0	.	.	none	.	OBSCN	2142	.	NM_052843	exon81	c.C19098T	p.P6366P	GACCCCCGGAGGG	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66928460	66928460	+	Missense_Mutation	SNP	T	T	C	rs16973446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	40.0	76.0	0.0	0.43956	0	T|0.915;C|0.085	0.085	strong	.	ABCA8	213	.	NM_007168	exon6	c.A766G	p.T256A	TCATTGTCATCAA	.	PASS	Atlas-SNP
PLA2G4F	255189	hgsc.bcm.edu	37	15	42438380	42438380	+	Silent	SNP	G	G	A	rs80108792	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	47.0	109.0	0.0	0.522222	0	G|0.988;A|0.012	0.012	strong	.	PLA2G4F	75	.	NM_213600	exon14	c.C1479T	p.Y493Y	AATGGGGTAAGGG	.	PASS	Atlas-SNP
CLRN2	645104	hgsc.bcm.edu	37	4	17517141	17517141	+	Silent	SNP	G	G	A	rs201838208	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	80.0	164.0	0.0	0.540541	0	.	.	weak	.	CLRN2	40	.	NM_001079827	exon1	c.G252A	p.T84T	ATTCACGAGTGAG	.	PASS	Atlas-SNP
MDC1	9656	hgsc.bcm.edu	37	6	30673013	30673013	+	Missense_Mutation	SNP	A	A	G	rs61733213	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	363.0	186.0	322.0	1.0	0.512397	0.00310559	A|0.958;G|0.042	0.042	strong	.	MDC1	218	.	NM_014641	exon10	c.T3947C	p.M1316T	GAGGACATATTTG	.	PASS	Atlas-SNP
PTPN23	25930	hgsc.bcm.edu	37	3	47454398	47454398	+	Missense_Mutation	SNP	C	C	T	rs140165828	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	116.0	237.0	0.0	0.469636	0	C|0.998;T|0.002	0.002	strong	PTPN23,NS,carcinoma,-1,1	PTPN23	85	1	NM_015466	exon25	c.C4634T	p.P1545L	CCTCCCCGCCCCC	.	PASS	Atlas-SNP
CHST12	55501	hgsc.bcm.edu	37	7	2472662	2472662	+	Missense_Mutation	SNP	G	G	C	rs11537796	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	21.0	10.0	17.0	0.0	0.47619	0	G|0.970;C|0.030	0.030	strong	.	CHST12	39	.	NM_018641	exon2	c.G388C	p.G130R	CTGCGGGGCTTCT	.	PASS	Atlas-SNP
XCL1	6375	hgsc.bcm.edu	37	1	168549321	168549321	+	Missense_Mutation	SNP	G	G	C	rs56148248	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	68.0	281.0	0.0	0.42236	0	G|0.982;C|0.018	0.018	strong	.	XCL1	16	.	NM_002995	exon2	c.G82C	p.D28H	GTCTCAGATAAGA	.	PASS	Atlas-SNP
DLG2	1740	hgsc.bcm.edu	37	11	83182726	83182726	+	Silent	SNP	G	G	T	rs34857356	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	60.0	144.0	0.0	0.540541	0	G|0.984;T|0.016	0.016	strong	DLG2_ENST00000418306,colon,carcinoma,+2,9	DLG2	448	9	NM_001142699	exon24	c.C2389A	p.R797R	TGATCCGATCCTT	.	PASS	Atlas-SNP
FAM174A	345757	hgsc.bcm.edu	37	5	99897880	99897880	+	Missense_Mutation	SNP	A	A	G	rs76060686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	117.0	206.0	0.0	0.483471	0	A|0.992;G|0.008	0.008	strong	.	FAM174A	13	.	NM_198507	exon2	c.A557G	p.N186S	ATGCCAATCATCC	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47274733	47274733	+	Missense_Mutation	SNP	T	T	C	rs62621889	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	68.0	155.0	0.0	0.42236	0	T|0.989;C|0.011	0.011	strong	.	PREX1	441	.	NM_020820	exon17	c.A1915G	p.I639V	CCTCGATGTCAAA	.	PASS	Atlas-SNP
HOXD8	3234	hgsc.bcm.edu	37	2	176995146	176995146	+	Missense_Mutation	SNP	G	G	A	rs192755857	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	7.0	2.0	0.0	0.777778	0	G|0.966;A|0.034	0.034	strong	.	HOXD8	24	.	NM_001199746	exon1	c.G52A	p.A18T	GCGGCTGCGGCGG	.	PASS	Atlas-SNP
RGS9	8787	hgsc.bcm.edu	37	17	63221136	63221136	+	Missense_Mutation	SNP	C	C	T	rs116395890	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	49.0	95.0	0.0	0.510417	0	C|0.994;T|0.006	0.006	strong	.	RGS9	82	.	NM_003835	exon18	c.C1424T	p.A475V	ACATGGCTCCCAG	.	PASS	Atlas-SNP
LBH	81606	hgsc.bcm.edu	37	2	30457288	30457288	+	Missense_Mutation	SNP	C	C	T	rs144194149	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	98.0	171.0	0.0	0.526882	0	C|0.996;T|0.004	0.004	strong	.	LBH	14	.	NM_030915	exon2	c.C44T	p.S15L	TGAGATCGGCCAA	.	PASS	Atlas-SNP
ATAD3A	55210	hgsc.bcm.edu	37	1	1458944	1458944	+	Silent	SNP	C	C	T	rs112145664	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	106.0	139.0	0.0	0.569892	0	C|0.974;T|0.026	0.026	strong	.	ATAD3A	35	.	NM_018188	exon9	c.C1104T	p.L368L	TGTGCTCAGTGTA	.	PASS	Atlas-SNP
ATP1A2	477	hgsc.bcm.edu	37	1	160104950	160104950	+	Silent	SNP	C	C	T	rs61734529	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	414.0	216.0	356.0	0.0	0.521739	0	C|0.978;T|0.022	0.022	strong	.	ATP1A2	167	.	NM_000702	exon15	c.C1980T	p.C660C	GGCATGCGTGGTG	.	PASS	Atlas-SNP
SF3A3	10946	hgsc.bcm.edu	37	1	38433762	38433762	+	Silent	SNP	G	G	A	rs59294668	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	500.0	294.0	478.0	2.0	0.588	0.0041841	G|0.983;A|0.017	0.017	strong	.	SF3A3	37	.	NM_006802	exon15	c.C1326T	p.N442N	AGCAGTGTTTGGG	.	PASS	Atlas-SNP
C5orf20	140947	hgsc.bcm.edu	37	5	134782396	134782396	+	Missense_Mutation	SNP	T	T	A	rs67187482	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	42.0	104.0	0.0	0.42	0	T|0.905;A|0.095	0.095	strong	.	C5orf20	16	.	NM_130848	exon1	c.A403T	p.S135C	TGAAACTACAAAC	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144946271	144946271	+	Missense_Mutation	SNP	C	C	T	rs58368323	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	34.0	95.0	0.0	0.472222	0	C|0.961;T|0.039	0.039	strong	.	EPPK1	199	.	NM_031308	exon1	c.G1151A	p.G384E	ACTAGCCCCTTCT	.	PASS	Atlas-SNP
ENDOU	8909	hgsc.bcm.edu	37	12	48110150	48110150	+	Silent	SNP	G	G	A	rs61734364	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	93.0	193.0	0.0	0.455882	0	A|0.024;G|0.975;T|0.000	0.024	strong	.	ENDOU	39	.	NM_001172439	exon6	c.C684T	p.D228D	GAAGGCGTCCTGC	.	PASS	Atlas-SNP
ANGPT4	51378	hgsc.bcm.edu	37	20	861853	861853	+	Silent	SNP	G	G	A	rs6086328	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	48.0	121.0	0.0	0.432432	0	A|0.066;G|0.934	0.066	strong	.	ANGPT4	77	.	NM_015985	exon5	c.C912T	p.V304V	GGTGTAGACACCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505828	195505828	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	292.0	24.0	246.0	0.0	0.0821918	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.C12623A	p.P4208H	GGAAGAGGGGTGG	.	PASS	Atlas-SNP
COTL1	23406	hgsc.bcm.edu	37	16	84651452	84651452	+	Silent	SNP	G	G	C	rs144159131	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	16.0	22.0	0.0	0.457143	0	G|0.999;C|0.001	0.001	strong	.	COTL1	17	.	NM_021149	exon1	c.C69G	p.A23A	GATGACGGCCGAG	.	PASS	Atlas-SNP
BCL6B	255877	hgsc.bcm.edu	37	17	6930927	6930927	+	Missense_Mutation	SNP	G	G	A	rs201522060	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	44.0	65.0	0.0	0.511628	0	.	.	weak	.	BCL6B	85	.	NM_181844	exon9	c.G1429A	p.G477R	ATTCTCGGGGGGC	.	PASS	Atlas-SNP
C9orf172	389813	hgsc.bcm.edu	37	9	139740900	139740900	+	Silent	SNP	C	C	T	rs147735504	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	16.0	41.0	0.0	0.421053	0	C|0.994;T|0.006	0.006	strong	.	C9orf172	23	.	NM_001080482	exon1	c.C2034T	p.N678N	GTTCAACGCCTGC	.	PASS	Atlas-SNP
WDSUB1	151525	hgsc.bcm.edu	37	2	160104988	160104988	+	Missense_Mutation	SNP	T	T	C	rs74475652	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	44.0	101.0	0.0	0.483516	0	T|0.958;C|0.042	0.042	strong	.	WDSUB1	39	.	NM_152528	exon10	c.A1168G	p.I390V	CTTCAATTTTCCT	.	PASS	Atlas-SNP
BMP3	651	hgsc.bcm.edu	37	4	81952658	81952658	+	Missense_Mutation	SNP	C	C	G	rs61729824	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	47.0	78.0	0.0	0.456311	0	C|0.988;T|0.012	.	alt	.	BMP3	59	.	NM_001201	exon1	c.C220G	p.R74G	GCGGCCCGGACAC	.	PASS	Atlas-SNP
SCAF11	9169	hgsc.bcm.edu	37	12	46321417	46321417	+	Silent	SNP	G	G	A	rs11574971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	45.0	76.0	0.0	0.5	0	G|0.894;A|0.106	0.106	strong	.	SCAF11	145	.	NM_004719	exon11	c.C2067T	p.T689T	ATGTTCGGTCAGC	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50720430	50720430	+	Silent	SNP	G	G	C	rs56110807	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	23.0	48.0	0.0	0.560976	0	G|0.953;C|0.047	0.047	strong	.	PLXNB2	172	.	NM_012401	exon20	c.C3198G	p.A1066A	GTTGTAGGCCTCT	.	PASS	Atlas-SNP
TNFSF12	8742	hgsc.bcm.edu	37	17	7460514	7460514	+	Silent	SNP	G	G	A	rs143039184	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	45.0	87.0	0.0	0.535714	0	G|0.999;A|0.001	0.001	strong	.	TNFSF12	20	.	NM_003809	exon7	c.G597A	p.A199A	CACTGCGGCGAGT	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	133899438	133899438	+	Silent	SNP	C	C	T	rs61742713	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	77.0	141.0	0.0	0.516779	0	C|0.974;T|0.026	0.026	strong	.	TG	416	.	NM_003235	exon9	c.C1821T	p.T607T	CCAGACCTGTGAG	.	PASS	Atlas-SNP
SEL1L3	23231	hgsc.bcm.edu	37	4	25806279	25806279	+	Missense_Mutation	SNP	T	T	C	rs16877591	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	237.0	120.0	237.0	0.0	0.506329	0	T|0.933;C|0.067	0.067	strong	.	SEL1L3	62	.	NM_015187	exon10	c.A1660G	p.I554V	AGCTAATTTGGTG	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37158363	37158363	+	Missense_Mutation	SNP	G	G	A	rs16903518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	92.0	157.0	0.0	0.502732	0	G|0.970;A|0.030	0.030	strong	.	C5orf42	422	.	NM_023073	exon39	c.C7775T	p.P2592L	GACCAAGGTTTCT	.	PASS	Atlas-SNP
UCP3	7352	hgsc.bcm.edu	37	11	73717247	73717247	+	Missense_Mutation	SNP	C	C	T	rs2229707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	32.0	67.0	0.0	0.421053	0	C|0.964;T|0.036	0.036	strong	.	UCP3	31	.	NM_003356	exon3	c.G304A	p.V102I	GCTTGACGGAGTC	.	PASS	Atlas-SNP
BMP10	27302	hgsc.bcm.edu	37	2	69093288	69093288	+	Missense_Mutation	SNP	G	G	T	rs2231345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	349.0	168.0	346.0	0.0	0.481375	0	G|0.979;T|0.021	0.021	strong	.	BMP10	70	.	NM_014482	exon2	c.C750A	p.N250K	CAAAGGGTTATGC	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2156153	2156153	+	Missense_Mutation	SNP	C	C	G	rs28369051	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	296.0	138.0	223.0	0.0	0.466216	0	C|0.972;G|0.028	0.028	strong	.	PKD1	184	.	NM_000296	exon19	c.G7642C	p.E2548Q	CCACCTCGAAGTG	.	PASS	Atlas-SNP
URB1	9875	hgsc.bcm.edu	37	21	33711077	33711077	+	Silent	SNP	C	C	T	rs58130645	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	62.0	99.0	0.0	0.488189	0	C|0.986;T|0.014	0.014	strong	.	URB1	176	.	NM_014825	exon26	c.G4449A	p.S1483S	AAACAGCGAGTGC	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	7040197	7040197	+	Missense_Mutation	SNP	T	T	C	rs62619829	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	52.0	71.0	0.0	0.490566	0	T|0.986;C|0.014	0.014	strong	.	LAMA1	458	.	NM_005559	exon10	c.A1300G	p.T434A	CTCCTGTATAACC	.	PASS	Atlas-SNP
IWS1	55677	hgsc.bcm.edu	37	2	128261099	128261099	+	Missense_Mutation	SNP	C	C	T	rs34785867	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	184.0	176.0	0.0	0.994595	0	C|0.977;T|0.023	0.023	strong	.	IWS1	61	.	NM_017969	exon4	c.G1273A	p.V425I	CTGATACAGCATC	.	PASS	Atlas-SNP
PCDHA1	56147	hgsc.bcm.edu	37	5	140167175	140167175	+	Missense_Mutation	SNP	T	T	C	rs61743801	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	81.0	159.0	0.0	0.487952	0	T|0.983;C|0.017	0.017	strong	.	PCDHA1	387	.	NM_031411	exon1	c.T1300C	p.S434P	TCGCCTTCGCTGT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536138	1536138	+	Silent	SNP	T	T	C	rs114122805	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	41.0	66.0	0.0	0.532468	0	T|0.980;C|0.020	0.020	strong	.	PTX4	46	.	NM_001013658	exon3	c.A1224G	p.G408G	GTCGAATCCGCCC	.	PASS	Atlas-SNP
KCNN1	3780	hgsc.bcm.edu	37	19	18084775	18084775	+	Silent	SNP	G	G	A	rs75754669	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	5.0	4.0	1.0	0.0	0.8	0	G|0.990;A|0.010	0.010	strong	.	KCNN1	74	.	NM_002248	exon3	c.G78A	p.P26P	CCCTCCGGACCCT	.	PASS	Atlas-SNP
FCGR2B	2213	hgsc.bcm.edu	37	1	161645058	161645058	+	Missense_Mutation	SNP	T	T	G	rs148534844	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	331.0	141.0	324.0	0.0	0.425982	0	T|0.992;G|0.008	0.008	strong	.	FCGR2B	33	.	NM_004001	exon6	c.T772G	p.Y258D	CCAGGATACCCTG	.	PASS	Atlas-SNP
PLCXD3	345557	hgsc.bcm.edu	37	5	41382536	41382536	+	Silent	SNP	C	C	T	rs16871312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	36.0	32.0	0.0	1	0	C|0.907;T|0.093	0.093	strong	.	PLCXD3	86	.	NM_001005473	exon2	c.G204A	p.V68V	TTTGGCCACAGTT	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159647584	159647584	+	Silent	SNP	G	G	A	rs12110595	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	17.0	85.0	0.0	0.34	0	G|0.929;A|0.071	0.071	strong	.	FNDC1	250	.	NM_032532	exon9	c.G1152A	p.A384A	GGATGCGCTACCA	.	PASS	Atlas-SNP
EME1	146956	hgsc.bcm.edu	37	17	48453219	48453219	+	Missense_Mutation	SNP	G	G	A	rs114836030	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	35.0	64.0	0.0	0.448718	0	G|0.994;A|0.006	0.006	strong	.	EME1	39	.	NM_152463	exon2	c.G650A	p.R217K	AGCAGAGACAAGC	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28424100	28424100	+	Silent	SNP	C	C	T	rs9806328	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	37.0	76.0	0.0	0.402174	0	C|0.864;T|0.136	0.136	strong	.	HERC2	501	.	NM_004667	exon59	c.G9096A	p.T3032T	GGGCACCGTCCCG	.	PASS	Atlas-SNP
KRTAP4-4	84616	hgsc.bcm.edu	37	17	39316841	39316841	+	Missense_Mutation	SNP	A	A	T	rs444509	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	147.0	171.0	0.0	1	0	A|0.912;T|0.088	0.088	strong	.	KRTAP4-4	21	.	NM_032524	exon1	c.T103A	p.C35S	GGCAGCAGGTGGT	.	PASS	Atlas-SNP
FAM183A	440585	hgsc.bcm.edu	37	1	43621973	43621973	+	Missense_Mutation	SNP	C	C	T	rs59274667	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	60.0	99.0	0.0	0.5	0	C|0.996;T|0.004	0.004	strong	.	FAM183A	28	.	NM_001101376	exon4	c.C394T	p.H132Y	GATGATCACCACA	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31691582	31691582	+	Missense_Mutation	SNP	G	G	A	rs80081783	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	77.0	168.0	0.0	0.503268	0	G|0.995;A|0.005	0.005	strong	LOC223075,right_lower_lobe,carcinoma,-1,2	CCDC129	127	2	NM_001257968	exon13	c.G2819A	p.R940H	CGTTACGTGAGGC	.	PASS	Atlas-SNP
ERI2	112479	hgsc.bcm.edu	37	16	20809240	20809240	+	Missense_Mutation	SNP	G	G	T	rs61746707	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	248.0	114.0	189.0	0.0	0.459677	0	G|0.987;T|0.013	0.013	strong	.	ERI2	50	.	NM_001142725	exon9	c.C1882A	p.Q628K	TTTCTTGGTATTT	.	PASS	Atlas-SNP
C7orf65	401335	hgsc.bcm.edu	37	7	47698737	47698737	+	Missense_Mutation	SNP	A	A	C	rs114109572	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	35.0	100.0	0.0	0.421687	0	A|0.999;C|0.001	0.001	strong	.	C7orf65	18	.	NM_001123065	exon3	c.A367C	p.T123P	GGTTTCACTGACC	.	PASS	Atlas-SNP
APOF	319	hgsc.bcm.edu	37	12	56755300	56755300	+	Silent	SNP	A	A	C	rs11575217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	53.0	150.0	0.0	0.420635	0	A|0.945;C|0.055	0.055	strong	.	APOF	13	.	NM_001638	exon2	c.T690G	p.A230A	CATCCCAGCCATG	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	114111156	114111156	+	Missense_Mutation	SNP	C	C	T	rs73701331	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	63.0	109.0	0.0	0.504	0	C|0.990;T|0.010	0.010	strong	.	CSMD3	2325	.	NM_052900	exon5	c.G746A	p.S249N	ATGCCACTGGATC	.	PASS	Atlas-SNP
METTL11B	149281	hgsc.bcm.edu	37	1	170136808	170136808	+	Silent	SNP	G	G	T	rs61745740	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	45.0	96.0	0.0	0.424528	0	G|0.999;T|0.001	0.001	strong	.	METTL11B	18	.	NM_001136107	exon4	c.G762T	p.L254L	TGGGCTGGTGGTG	.	PASS	Atlas-SNP
FCRL2	79368	hgsc.bcm.edu	37	1	157736673	157736673	+	Silent	SNP	C	C	T	rs34445670	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	336.0	150.0	325.0	0.0	0.446429	0	C|0.983;T|0.017	0.017	strong	.	FCRL2	104	.	NM_030764	exon7	c.G1251A	p.L417L	ATACAACAGCAAA	.	PASS	Atlas-SNP
PHC2	1912	hgsc.bcm.edu	37	1	33820520	33820520	+	Silent	SNP	G	G	A	rs79627057	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	46.0	90.0	0.0	0.418182	0	G|0.981;A|0.019	0.019	strong	.	PHC2	78	.	NM_198040	exon7	c.C1311T	p.P437P	GCCCTCGGGATGT	.	PASS	Atlas-SNP
ARID2	196528	hgsc.bcm.edu	37	12	46245077	46245077	+	Silent	SNP	G	G	A	rs7296694	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	58.0	116.0	0.0	0.483333	0	G|0.905;A|0.095	0.095	strong	.	ARID2	311	.	NM_152641	exon15	c.G3171A	p.S1057S	TGAGTCGAGTCTG	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158626382	158626382	+	Missense_Mutation	SNP	G	G	A	rs34706737	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	30.0	83.0	0.0	0.416667	0	G|0.976;A|0.024	0.024	strong	.	SPTA1	720	.	NM_003126	exon20	c.C2870T	p.A957V	CGCAGAGCTTTCA	.	PASS	Atlas-SNP
PKP1	5317	hgsc.bcm.edu	37	1	201282334	201282334	+	Missense_Mutation	SNP	G	G	A	rs34626929	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	226.0	126.0	223.0	0.0	0.557522	0	G|0.974;A|0.026	0.026	strong	.	PKP1	127	.	NM_001005337	exon3	c.G347A	p.R116H	ACAGGCGCTTCAG	.	PASS	Atlas-SNP
ZNF780A	284323	hgsc.bcm.edu	37	19	40581677	40581677	+	Silent	SNP	G	G	A	rs337795	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	139.0	89.0	0.0	1	0	G|0.928;A|0.072	0.072	strong	.	ZNF780A	156	.	NM_001142577	exon6	c.C675T	p.N225N	ACATTCGTTACAT	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	37	3	122437536	122437536	+	Missense_Mutation	SNP	C	C	T	rs61732767	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	51.0	164.0	0.0	0.369565	0	C|0.990;T|0.010	0.010	strong	.	PARP14	242	.	NM_017554	exon14	c.C4538T	p.A1513V	TTGAGGCGATGAT	.	PASS	Atlas-SNP
RBPJL	11317	hgsc.bcm.edu	37	20	43938284	43938284	+	Missense_Mutation	SNP	G	G	A	rs35032855	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	39.0	119.0	0.0	0.419355	0	G|0.988;A|0.012	0.012	strong	.	RBPJL	67	.	NM_014276	exon3	c.G209A	p.R70Q	CTGTGCGGATCCT	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144942097	144942097	+	Silent	SNP	G	G	A	rs73375119	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	260.0	132.0	247.0	1.0	0.507692	0.00404858	G|0.984;A|0.016	0.016	strong	EPPK1,NS,NS,-1,1	EPPK1	199	1	NM_031308	exon1	c.C5325T	p.H1775H	CAACACGTGTCTC	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40916272	40916272	+	Silent	SNP	G	G	A	rs34758606	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	55.0	75.0	0.0	0.561224	0	G|0.991;A|0.009	0.009	strong	.	CASC5	269	.	NM_170589	exon11	c.G3888A	p.A1296A	AAAAGCGCAAGTT	.	PASS	Atlas-SNP
CELA3A	10136	hgsc.bcm.edu	37	1	22328207	22328207	+	Missense_Mutation	SNP	G	G	A	rs11541414	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	264.0	135.0	270.0	0.0	0.511364	0	G|0.950;A|0.050	0.050	strong	.	CELA3A	35	.	NM_005747	exon1	c.G40A	p.V14I	GTGGCCGTTGGTA	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139390958	139390958	+	Silent	SNP	T	T	C	rs11574911	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	31.0	11.0	26.0	0.0	0.354839	0	T|0.968;C|0.032	0.032	strong	NOTCH1,NS,lymphoid_neoplasm,0,1	NOTCH1	1980	1	NM_017617	exon34	c.A7233G	p.P2411P	TGGTGGTGGCGGC	.	PASS	Atlas-SNP
DSC2	1824	hgsc.bcm.edu	37	18	28681903	28681903	+	Missense_Mutation	SNP	T	T	C	rs868333	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	10.0	5.0	25.0	0.0	0.5	0	T|0.923;C|0.077	0.077	strong	.	DSC2	168	.	NM_024422	exon1	c.A32G	p.N11S	GCTCCGTTCCAGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509322	195509322	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	177.0	11.0	127.0	0.0	0.0621469	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C9129T	p.V3043V	GTCGGTGACAGGA	.	PASS	Atlas-SNP
TMPRSS4	56649	hgsc.bcm.edu	37	11	117978578	117978578	+	Missense_Mutation	SNP	G	G	A	rs1894176	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	35.0	57.0	0.0	0.686275	0	G|0.955;A|0.045	0.045	strong	TMPRSS4,NS,carcinoma,-1,1	TMPRSS4	46	1	NM_019894	exon6	c.G530A	p.R177Q	GCATGCGGAACTC	.	PASS	Atlas-SNP
C1orf53	388722	hgsc.bcm.edu	37	1	197872001	197872001	+	Silent	SNP	G	G	A	rs73083807	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	15.0	7.0	20.0	0.0	0.466667	0	G|0.972;A|0.028	0.028	strong	.	C1orf53	18	.	NM_001024594	exon1	c.G222A	p.A74A	AACCGCGGCGGAG	.	PASS	Atlas-SNP
AHR	196	hgsc.bcm.edu	37	7	17379157	17379157	+	Missense_Mutation	SNP	G	G	A	rs4986826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	27.0	53.0	0.0	0.627907	0	G|0.974;A|0.026	0.026	strong	.	AHR	89	.	NM_001621	exon10	c.G1708A	p.V570I	GGTGAGGTTGACT	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228404864	228404864	+	Missense_Mutation	SNP	G	G	A	rs141921462	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	57.0	94.0	0.0	0.626374	0	G|0.996;A|0.004	0.004	strong	.	OBSCN	2142	.	NM_001271223	exon8	c.G2528A	p.R843H	GTGAGCGCTTCTT	.	PASS	Atlas-SNP
ACSM2A	123876	hgsc.bcm.edu	37	16	20476974	20476974	+	Missense_Mutation	SNP	C	C	T	rs13332099	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	521.0	179.0	502.0	0.0	0.34357	0	C|0.993;T|0.007	0.007	strong	ACSM2A,NS,carcinoma,-2,1	ACSM2A	120	1	NM_001010845	exon4	c.C313T	p.R105C	CTGCAGCGTGGGG	.	PASS	Atlas-SNP
DKK3	27122	hgsc.bcm.edu	37	11	12023868	12023868	+	Silent	SNP	A	A	G	rs79628149	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	361.0	164.0	362.0	1.0	0.454294	0.00276243	A|0.991;G|0.009	0.009	strong	.	DKK3	35	.	NM_001018057	exon2	c.T330C	p.H110H	GTGCACATGGATG	.	PASS	Atlas-SNP
LYPD1	116372	hgsc.bcm.edu	37	2	133403647	133403647	+	Missense_Mutation	SNP	T	T	C	rs139508764	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	85.0	180.0	0.0	0.537975	0	T|0.998;C|0.002	0.002	strong	.	LYPD1	11	.	NM_144586	exon3	c.A397G	p.K133E	CTAATTTGAGGAA	.	PASS	Atlas-SNP
VLDLR	7436	hgsc.bcm.edu	37	9	2643175	2643175	+	Missense_Mutation	SNP	G	G	C	rs34080096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	22.0	40.0	0.0	0.578947	0	G|0.996;C|0.004	0.004	strong	.	VLDLR	68	.	NM_003383	exon5	c.G464C	p.S155T	CATGTAGTCCCGA	.	PASS	Atlas-SNP
WDR36	134430	hgsc.bcm.edu	37	5	110432841	110432841	+	Silent	SNP	T	T	C	rs17132775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	133.0	165.0	0.0	1	0	T|0.951;C|0.049	0.049	strong	.	WDR36	111	.	NM_139281	exon3	c.T423C	p.Y141Y	TGCTTATGGAAAT	.	PASS	Atlas-SNP
GUCA1A	2978	hgsc.bcm.edu	37	6	42141360	42141360	+	Silent	SNP	C	C	T	rs116114043	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	19.0	54.0	0.0	0.527778	0	C|0.995;T|0.005	0.005	strong	.	GUCA1A	18	.	NM_000409	exon3	c.C9T	p.N3N	GGGCAACGTGATG	.	PASS	Atlas-SNP
CAP2	10486	hgsc.bcm.edu	37	6	17426846	17426846	+	Silent	SNP	T	T	C	rs59744718	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	153.0	117.0	0.0	1	0	T|0.967;C|0.033	0.033	strong	.	CAP2	61	.	NM_006366	exon3	c.T147C	p.F49F	AGCCTTTGACAAG	.	PASS	Atlas-SNP
SLC35B2	347734	hgsc.bcm.edu	37	6	44223292	44223292	+	Silent	SNP	C	C	T	rs35112470	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	72.0	114.0	0.0	0.571429	0	C|0.977;T|0.023	0.023	strong	.	SLC35B2	40	.	NM_178148	exon4	c.G450A	p.T150T	CGAGTCCGTAAAG	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117104368	117104368	+	Silent	SNP	G	G	A	rs73548990	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	34.0	79.0	0.0	0.68	0	G|0.978;A|0.022	0.022	strong	.	AKNA	119	.	NM_030767	exon20	c.C3795T	p.P1265P	ATCAGCGGGAGGC	.	PASS	Atlas-SNP
RPUSD1	113000	hgsc.bcm.edu	37	16	836111	836111	+	Missense_Mutation	SNP	G	G	T	rs112366818	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	71.0	59.0	0.0	0.986111	0	G|0.962;T|0.038	0.038	strong	.	RPUSD1	19	.	NM_058192	exon6	c.C778A	p.P260T	GGTCAGGGTCGGG	.	PASS	Atlas-SNP
MIER2	54531	hgsc.bcm.edu	37	19	307282	307282	+	Missense_Mutation	SNP	T	T	C	rs35042658	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	85.0	133.0	0.0	0.52795	0	T|0.946;C|0.054	0.054	strong	.	MIER2	51	.	NM_017550	exon13	c.A1453G	p.S485G	CATGGCTGGAGAT	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2166538	2166538	+	Missense_Mutation	SNP	G	G	A	rs149022148	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	45.0	104.0	0.0	0.529412	0	G|0.961;A|0.039	0.039	strong	PKD1,caecum,carcinoma,0,1	PKD1	184	1	NM_000296	exon8	c.C1714T	p.P572S	CCACGGGCTCGTG	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91622249	91622249	+	Missense_Mutation	SNP	C	C	A	rs138567837	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	33.0	87.0	0.0	0.445946	0	C|1.000;A|0.000	0.000	strong	.	AKAP9	788	.	NM_005751	exon5	c.C456A	p.D152E	ACAAGACAGTCCG	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100678032	100678032	+	Missense_Mutation	SNP	T	T	C	rs147173571		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	352.0	33.0	163.0	0.0	0.09375	0	.	.	weak	.	MUC17	804	.	NM_001040105	exon3	c.T3335C	p.L1112P	CCAGGCTGGTGGT	.	PASS	Atlas-SNP
SULF2	55959	hgsc.bcm.edu	37	20	46292910	46292910	+	Missense_Mutation	SNP	C	C	T	rs10048853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	57.0	92.0	0.0	0.537736	0	C|0.983;T|0.017	0.017	strong	.	SULF2	131	.	NM_001161841	exon15	c.G2021A	p.R674H	TTGAGGCGGCCTT	.	PASS	Atlas-SNP
ECE2	9718	hgsc.bcm.edu	37	3	183967500	183967500	+	Silent	SNP	A	A	C	rs2233461	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	34.0	51.0	0.0	0.586207	0	A|0.943;C|0.057	0.057	strong	.	ECE2	303	.	NM_014693	exon1	c.A18C	p.A6A	AGGGGCAGGTAGG	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11133681	11133681	+	Silent	SNP	C	C	T	rs61740118	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	44.0	99.0	0.0	0.453608	0	C|0.989;T|0.011	0.011	strong	.	CLEC16A	101	.	NM_015226	exon13	c.C1608T	p.N536N	CTACAACCACCCG	.	PASS	Atlas-SNP
LRRC43	254050	hgsc.bcm.edu	37	12	122674807	122674807	+	Missense_Mutation	SNP	T	T	C	rs77473460	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	82.0	186.0	0.0	0.465909	0	T|0.977;C|0.023	0.023	strong	.	LRRC43	105	.	NM_001098519	exon5	c.T793C	p.Y265H	GTGCCCTACTACC	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113668453	113668453	+	Silent	SNP	A	A	G	rs11992014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	132.0	95.0	0.0	1	0	A|0.971;G|0.029	0.029	strong	CSMD3_ENST00000343508,NS,carcinoma,-2,2	CSMD3	2325	2	NM_198123	exon18	c.T2934C	p.S978S	AAAATTACTGCTA	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79936579	79936579	+	Missense_Mutation	SNP	G	G	A	rs73467962	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	75.0	99.0	0.0	0.6	0	G|0.987;A|0.013	0.013	strong	.	VPS13A	735	.	NM_001018038	exon44	c.G5747A	p.S1916N	GTTTAAGTATGGA	.	PASS	Atlas-SNP
SPEF2	79925	hgsc.bcm.edu	37	5	35694454	35694454	+	Missense_Mutation	SNP	A	A	G	rs12332369	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	89.0	166.0	0.0	0.494444	0	A|0.973;G|0.027	0.027	strong	.	SPEF2	324	.	NM_024867	exon13	c.A1964G	p.E655G	AAGGTGAAACAAT	.	PASS	Atlas-SNP
OR6P1	128366	hgsc.bcm.edu	37	1	158533219	158533219	+	Missense_Mutation	SNP	A	A	C	rs114956415	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	41.0	96.0	0.0	0.476744	0	A|0.987;C|0.013	0.013	strong	.	OR6P1	47	.	NM_001160325	exon1	c.T176G	p.M59R	AAGTACATGGGAC	.	PASS	Atlas-SNP
GALNT12	79695	hgsc.bcm.edu	37	9	101594219	101594219	+	Silent	SNP	A	A	G	rs16917929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	56.0	98.0	0.0	0.629214	0	A|0.954;G|0.046	0.046	strong	.	GALNT12	37	.	NM_024642	exon4	c.A897G	p.Q299Q	GATGCAATCCCCC	.	PASS	Atlas-SNP
HIST3H3	8290	hgsc.bcm.edu	37	1	228612994	228612994	+	Silent	SNP	T	T	C	rs61741017	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	64.0	160.0	0.0	0.447552	0	T|0.984;C|0.016	0.016	strong	.	HIST3H3	20	.	NM_003493	exon1	c.A33G	p.S11S	ACCCGTTGACTTG	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	14911	14911	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	40.0	45.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.C165T	p.Y55Y	GCACTACTCACCA	.	PASS	Atlas-SNP
GALNT2	2590	hgsc.bcm.edu	37	1	230391058	230391058	+	Silent	SNP	G	G	A	rs75919037	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	69.0	133.0	0.0	0.6	0	G|0.996;A|0.004	0.004	strong	GALNT2,ear,carcinoma,+1,1	GALNT2	83	1	NM_004481	exon11	c.G1104A	p.T368T	CTACACGTTCCCG	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17084057	17084057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1363.0	118.0	1115.0	0.0	0.0865737	0	.	.	none	.	.	.	.	NM_001271733	exon14	c.G1864A	p.E622K	ACATCTCGCTCTC	.	PASS	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	37	19	39234723	39234723	+	Missense_Mutation	SNP	C	C	T	rs112433506	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	30.0	65.0	0.0	0.47619	0	C|0.998;T|0.002	0.002	strong	.	CAPN12	43	.	NM_144691	exon1	c.G83A	p.R28Q	TGGCCCCGAAAAA	.	PASS	Atlas-SNP
TRANK1	9881	hgsc.bcm.edu	37	3	36887863	36887863	+	Silent	SNP	G	G	A	rs142584752	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	224.0	92.0	175.0	0.0	0.410714	0	G|0.998;A|0.002	0.002	strong	.	TRANK1	398	.	NM_014831	exon16	c.C4935T	p.T1645T	GATGGCGGTGTAC	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	12540	12540	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	18.0	18.0	8.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.A204G	p.W68W	ACACTGAGCCACA	.	PASS	Atlas-SNP
PADI6	353238	hgsc.bcm.edu	37	1	17727847	17727847	+	Silent	SNP	T	T	C	rs183565903	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	52.0	128.0	0.0	0.429752	0	T|1.000;C|0.000	0.000	strong	.	PADI6	51	.	NM_207421	exon17	c.T1998C	p.C666C	TGACTGTTACCTG	.	PASS	Atlas-SNP
XCL1	6375	hgsc.bcm.edu	37	1	168549325	168549325	+	Missense_Mutation	SNP	A	A	G	rs61546281	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	68.0	292.0	0.0	0.4	0	A|0.981;G|0.019	0.019	strong	.	XCL1	16	.	NM_002995	exon2	c.A86G	p.K29R	CAGATAAGAGGAC	.	PASS	Atlas-SNP
C1orf127	148345	hgsc.bcm.edu	37	1	11009703	11009703	+	Missense_Mutation	SNP	C	C	T	rs1281012	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	60.0	118.0	0.0	0.495868	0	C|0.907;T|0.093	0.093	strong	.	C1orf127	134	.	NM_001170754	exon11	c.G1268A	p.R423Q	GAAGGCCGGTGCA	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118598362	118598362	+	Missense_Mutation	SNP	A	A	G	rs138706127	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	38.0	64.0	1.0	0.633333	0.015625	A|0.993;G|0.007	0.007	strong	SPAG17,NS,haematopoietic_neoplasm,0,1	SPAG17	263	1	NM_206996	exon19	c.T2716C	p.S906P	TTTTAGATTCTTT	.	scavenged	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73676189	73676189	+	Silent	SNP	C	C	T	rs77517267	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	79.0	141.0	0.0	0.503185	0	C|0.976;T|0.024	0.024	strong	ALMS1,NS,carcinoma,+2,1	ALMS1	384	1	NM_015120	exon8	c.C2532T	p.D844D	AGCTGACGGAAAG	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58386314	58386314	+	Silent	SNP	G	G	A	rs111313171	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	779.0	332.0	744.0	1.0	0.426187	0.00134409	G|0.941;A|0.059	0.059	strong	.	ZNF814	93	.	NM_001144989	exon3	c.C444T	p.Y148Y	CCCTCTGTAGGGT	.	PASS	Atlas-SNP
SEC61A2	55176	hgsc.bcm.edu	37	10	12200092	12200092	+	Silent	SNP	A	A	G	rs61731911	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	82.0	141.0	0.0	0.577465	0	A|0.974;G|0.026	0.026	strong	.	SEC61A2	48	.	NM_001142627	exon9	c.A963G	p.L321L	TTTACTAGGACAG	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73786188	73786188	+	Missense_Mutation	SNP	A	A	G	rs34071195	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	70.0	131.0	0.0	0.48951	0	A|0.991;G|0.009	0.009	strong	.	ALMS1	384	.	NM_015120	exon15	c.A10300G	p.K3434E	ACACAGAAAGAGG	.	PASS	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	37	4	186545346	186545346	+	Missense_Mutation	SNP	A	A	T	rs61736043	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	253.0	121.0	249.0	1.0	0.478261	0.00401606	A|0.977;T|0.023	0.023	strong	.	SORBS2	300	.	NM_001270771	exon16	c.T1525A	p.L509I	CACATAACAGGGA	.	PASS	Atlas-SNP
TLR5	7100	hgsc.bcm.edu	37	1	223285042	223285042	+	Silent	SNP	G	G	A	rs5744169	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	63.0	136.0	0.0	0.440559	0	G|0.976;A|0.024	0.024	strong	.	TLR5	86	.	NM_003268	exon6	c.C1332T	p.L444L	CCGTAGGAGAAAG	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47933494	47933494	+	Missense_Mutation	SNP	C	C	T	rs17131915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	16.0	46.0	0.0	0.432432	0	C|0.974;T|0.026	0.026	strong	.	PKD1L1	328	.	NM_138295	exon15	c.G2434A	p.D812N	CAGGGTCGTCAGG	.	PASS	Atlas-SNP
KIAA0196	9897	hgsc.bcm.edu	37	8	126087351	126087351	+	Silent	SNP	T	T	G	rs79464415	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	39.0	116.0	0.0	0.549296	0	T|0.994;G|0.006	0.006	strong	.	KIAA0196	90	.	NM_014846	exon8	c.A867C	p.V289V	ACTAATTACCTGA	.	PASS	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72340965	72340965	+	Silent	SNP	G	G	A	rs34914485	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	80.0	127.0	0.0	0.512821	0	G|0.965;A|0.035	0.035	strong	.	KIF19	102	.	NM_153209	exon7	c.G648A	p.T216T	CCAGACGTCCTCC	.	PASS	Atlas-SNP
KDM1A	23028	hgsc.bcm.edu	37	1	23409674	23409674	+	Silent	SNP	G	G	A	rs137940710	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	279.0	140.0	318.0	1.0	0.501792	0.00314465	G|0.999;A|0.001	0.001	strong	.	KDM1A	49	.	NM_001009999	exon21	c.G2448A	p.P816P	ATAGCCGATTCCA	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78263634	78263634	+	Silent	SNP	A	A	G	rs141921176	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	40.0	102.0	0.0	0.493827	0	A|0.995;G|0.005	0.005	strong	.	RNF213	766	.	NM_001256071	exon6	c.A1110G	p.A370A	GAAGGCAAGGTAG	.	PASS	Atlas-SNP
AR	367	hgsc.bcm.edu	37	X	66765164	66765164	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	4.0	64.0	0.0	0.0588235	0	.	.	none	.	AR	249	.	NM_000044	exon1	c.A176T	p.Q59L	TGCAGCAGCAGCA	.	PASS	Atlas-SNP
PTPN2	5771	hgsc.bcm.edu	37	18	12817348	12817348	+	Missense_Mutation	SNP	G	G	T	rs78174797	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	252.0	109.0	254.0	0.0	0.43254	0	G|0.981;T|0.019	0.019	strong	.	PTPN2	37	.	NM_001207013	exon7	c.C581A	p.T194K	GATATTGTTCTGG	.	PASS	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	37	7	133749077	133749077	+	Silent	SNP	C	C	T	rs139944066	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	52.0	94.0	0.0	0.440678	0	C|0.997;T|0.003	0.003	strong	.	EXOC4	118	.	NM_021807	exon18	c.C2721T	p.D907D	AGCTGACGAGCTC	.	PASS	Atlas-SNP
CYP3A43	64816	hgsc.bcm.edu	37	7	99463556	99463556	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	12.0	113.0	0.0	0.16	0	.	.	none	.	CYP3A43	52	.	NM_022820	exon13	c.A1447T	p.I483F	CTACCAATTCTTC	.	PASS	Atlas-SNP
DHRS2	10202	hgsc.bcm.edu	37	14	24114483	24114483	+	Missense_Mutation	SNP	T	T	C	rs7156794	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	41.0	64.0	0.0	0.554054	0	T|0.941;C|0.059	0.059	strong	.	DHRS2	78	.	NM_182908	exon9	c.T875C	p.V292A	GCTGCGTAGCTGT	.	PASS	Atlas-SNP
RBM42	79171	hgsc.bcm.edu	37	19	36124822	36124822	+	Silent	SNP	C	C	A	rs147020112	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	18.0	26.0	0.0	0.45	0	C|0.990;A|0.010	0.010	strong	.	RBM42	40	.	NM_024321	exon7	c.C918A	p.R306R	CGTCCGCGGCCTC	.	PASS	Atlas-SNP
SLC35A5	55032	hgsc.bcm.edu	37	3	112292765	112292765	+	Silent	SNP	C	C	T	rs61732187	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	183.0	168.0	0.0	1	0	C|0.976;T|0.024	0.024	strong	.	SLC35A5	40	.	NM_017945	exon5	c.C390T	p.S130S	TTTTAGCATTATA	.	PASS	Atlas-SNP
EXD3	54932	hgsc.bcm.edu	37	9	140247103	140247103	+	Missense_Mutation	SNP	C	C	T	rs115998217	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	29.0	47.0	0.0	0.371795	0	C|0.960;T|0.040	0.040	strong	.	EXD3	86	.	NM_017820	exon11	c.G1006A	p.V336M	GTTCCACAGCCAC	.	PASS	Atlas-SNP
FKBP11	51303	hgsc.bcm.edu	37	12	49315821	49315821	+	Silent	SNP	T	T	C	rs148302547	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	29.0	75.0	0.0	0.483333	0	T|0.999;C|0.001	0.001	strong	FKBP11,colon,carcinoma,-1,1	FKBP11	12	1	NM_016594	exon6	c.A552G	p.K184K	GGAGACTTTGGGT	.	PASS	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22960654	22960654	+	Missense_Mutation	SNP	C	C	T	rs10107826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	40.0	75.0	0.0	0.487805	0	C|0.958;T|0.042	0.042	strong	.	TNFRSF10C	30	.	NM_003841	exon1	c.C20T	p.T7I	CCAAGACCCTAAA	.	PASS	Atlas-SNP
TMC3	342125	hgsc.bcm.edu	37	15	81625028	81625028	+	Missense_Mutation	SNP	C	C	T	rs8031046	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	93.0	158.0	0.0	0.553571	0	C|0.811;T|0.189	0.189	strong	.	TMC3	112	.	NM_001080532	exon22	c.G3035A	p.R1012K	GGCTTTCTGGGCA	.	PASS	Atlas-SNP
TMPRSS11B	132724	hgsc.bcm.edu	37	4	69100200	69100200	+	Silent	SNP	A	A	G	rs4431295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	56.0	83.0	0.0	0.518519	0	A|0.970;G|0.030	0.030	strong	.	TMPRSS11B	66	.	NM_182502	exon5	c.T450C	p.P150P	GGAAGCAGGAACT	.	PASS	Atlas-SNP
C5orf20	140947	hgsc.bcm.edu	37	5	134782443	134782443	+	Missense_Mutation	SNP	T	T	C	rs113429044	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	37.0	83.0	0.0	0.445783	0	T|0.902;C|0.098	0.098	strong	.	C5orf20	16	.	NM_130848	exon1	c.A356G	p.K119R	CCTGTCTTCCTTC	.	PASS	Atlas-SNP
WDR93	56964	hgsc.bcm.edu	37	15	90274756	90274756	+	Silent	SNP	C	C	T	rs35502270	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	72.0	131.0	0.0	0.489796	0	C|0.973;T|0.027	0.027	strong	.	WDR93	63	.	NM_020212	exon12	c.C1293T	p.C431C	GGCCTGCGAGGAT	.	PASS	Atlas-SNP
REEP6	92840	hgsc.bcm.edu	37	19	1495327	1495327	+	Silent	SNP	C	C	T	rs79574672	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	85.0	169.0	0.0	0.467033	0	C|0.974;T|0.026	0.026	strong	REEP6_ENST00000395484,NS,carcinoma,-2,1	REEP6	21	1	NM_138393	exon2	c.C150T	p.F50F	GCTGTTCGGCTAC	.	PASS	Atlas-SNP
CD83	9308	hgsc.bcm.edu	37	6	14135394	14135394	+	Missense_Mutation	SNP	G	G	A	rs2230193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	48.0	104.0	0.0	0.45283	0	G|0.982;A|0.018	0.018	strong	.	CD83	23	.	NM_004233	exon5	c.G545A	p.R182Q	TGGAACGAGCTTT	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	37	8	8176051	8176051	+	Silent	SNP	G	G	A	rs114220337	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	44.0	27.0	44.0	0.0	0.613636	0	G|0.980;A|0.020	0.020	strong	SgK223,caecum,carcinoma,0,2	.	.	2	NM_001080826	exon5	c.C3834T	p.Y1278Y	CTGCCGGTAGTCT	.	PASS	Atlas-SNP
EPB41L4B	54566	hgsc.bcm.edu	37	9	112017883	112017883	+	Silent	SNP	A	A	G	rs73529389	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	34.0	107.0	0.0	0.293103	0	A|0.997;G|0.003	0.003	strong	.	EPB41L4B	111	.	NM_019114	exon11	c.T1077C	p.V359V	GTGCTCAACTGCA	.	PASS	Atlas-SNP
COL1A2	1278	hgsc.bcm.edu	37	7	94057007	94057007	+	Silent	SNP	C	C	T	rs34691365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	67.0	106.0	0.0	0.507576	0	C|0.995;T|0.005	0.005	strong	.	COL1A2	240	.	NM_000089	exon49	c.C3336T	p.Y1112Y	TGGTTACGATGGA	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62295149	62295149	+	Missense_Mutation	SNP	T	T	G	rs61524789	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	274.0	131.0	210.0	0.0	0.478102	0	T|0.965;G|0.035	0.035	strong	.	AHNAK	532	.	NM_001620	exon5	c.A6740C	p.K2247T	GGCATTTTCATCT	.	PASS	Atlas-SNP
FKBPL	63943	hgsc.bcm.edu	37	6	32096528	32096528	+	Silent	SNP	G	G	A	rs61747172	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	83.0	144.0	0.0	0.51875	0	G|0.998;A|0.002	0.002	strong	.	FKBPL	25	.	NM_022110	exon2	c.C1030T	p.L344L	TGCGCAGACCCTG	.	PASS	Atlas-SNP
ST3GAL1	6482	hgsc.bcm.edu	37	8	134478178	134478178	+	Silent	SNP	A	A	G	rs112787936	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	82.0	146.0	0.0	0.5125	0	A|0.984;G|0.016	0.016	strong	.	ST3GAL1	39	.	NM_173344	exon6	c.T462C	p.S154S	ATAAGAAGACTCC	.	PASS	Atlas-SNP
NUP188	23511	hgsc.bcm.edu	37	9	131755891	131755891	+	Silent	SNP	C	C	T	rs17485583	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	218.0	140.0	234.0	0.0	0.642202	0	C|0.962;T|0.038	0.038	strong	.	NUP188	140	.	NM_015354	exon27	c.C2935T	p.L979L	CCACCCCTGCTGC	.	PASS	Atlas-SNP
CDYL2	124359	hgsc.bcm.edu	37	16	80642076	80642076	+	Silent	SNP	C	C	T	rs117351184	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	59.0	117.0	0.0	0.453846	0	C|0.990;T|0.010	0.010	strong	.	CDYL2	66	.	NM_152342	exon6	c.G1275A	p.R425R	CAGCCCCCTGCTG	.	PASS	Atlas-SNP
KRT33B	3884	hgsc.bcm.edu	37	17	39521517	39521517	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	254.0	23.0	191.0	0.0	0.0905512	0	.	.	none	KRT33B,caecum,carcinoma,0,1	KRT33B	46	1	NM_002279	exon5	c.G786A	p.S262S	CTGCTCCGAGCTG	.	scavenged	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170034473	170034473	+	Silent	SNP	G	G	A	rs139363553	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	268.0	116.0	346.0	1.0	0.432836	0.00289017	G|0.999;A|0.001	0.001	strong	.	LRP2	751	.	NM_004525	exon53	c.C10233T	p.F3411F	AATAGCGAAAGGG	.	PASS	Atlas-SNP
ABCA4	24	hgsc.bcm.edu	37	1	94505604	94505604	+	Missense_Mutation	SNP	A	A	C	rs61750126	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	39.0	92.0	0.0	0.438202	0	A|0.968;C|0.032	0.032	strong	.	ABCA4	275	.	NM_000350	exon24	c.T3602G	p.L1201R	CCATCCAGGACTT	.	PASS	Atlas-SNP
CACNA1G	8913	hgsc.bcm.edu	37	17	48653144	48653144	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	44.0	56.0	0.0	0.564103	0	.	.	none	.	CACNA1G	659	.	NM_001256360	exon8	c.C1381T	p.R461W	GGTGTGCGGGTTG	.	PASS	Atlas-SNP
USP40	55230	hgsc.bcm.edu	37	2	234398065	234398065	+	Missense_Mutation	SNP	G	G	A	rs34026756	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	200.0	102.0	218.0	1.0	0.51	0.00458716	G|0.985;A|0.015	0.015	strong	USP40_ENST00000450966,NS,carcinoma,+1,2	USP40	174	2	NM_018218	exon26	c.C3110T	p.T1037M	TCCACCGTCCAGG	.	PASS	Atlas-SNP
PIGB	9488	hgsc.bcm.edu	37	15	55647617	55647617	+	Missense_Mutation	SNP	A	A	C	rs2444042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	47.0	94.0	0.0	0.456311	0	A|0.977;C|0.023	0.023	strong	.	PIGB	36	.	NM_004855	exon12	c.A1652C	p.K551T	ACATGAAGATGAA	.	PASS	Atlas-SNP
ASB15	142685	hgsc.bcm.edu	37	7	123267200	123267200	+	Missense_Mutation	SNP	C	C	T	rs73718440	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	315.0	149.0	277.0	0.0	0.473016	0	C|0.993;T|0.007	0.007	strong	.	ASB15	94	.	NM_080928	exon7	c.C734T	p.S245L	GGGCGTCGGTGCT	.	PASS	Atlas-SNP
UBASH3B	84959	hgsc.bcm.edu	37	11	122678778	122678778	+	Missense_Mutation	SNP	A	A	G	rs35343548	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	49.0	176.0	0.0	0.376923	0	A|0.992;G|0.008	0.008	strong	.	UBASH3B	73	.	NM_032873	exon13	c.A1706G	p.N569S	CAGGAAATAACAT	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36002394	36002394	+	Silent	SNP	G	G	A	rs146822312	by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	30.0	92.0	0.0	0.337079	0	G|0.933;A|0.067	0.067	strong	.	DMKN	116	.	NM_001126058	exon5	c.C837T	p.G279G	GCTGCCGCCACTG	.	PASS	Atlas-SNP
NCAPD3	23310	hgsc.bcm.edu	37	11	134055275	134055275	+	Missense_Mutation	SNP	C	C	T	rs61744119	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	74.0	114.0	0.0	0.552239	0	C|0.995;T|0.005	0.005	strong	.	NCAPD3	141	.	NM_015261	exon17	c.G2192A	p.R731K	TCCAGCCTGGGTG	.	PASS	Atlas-SNP
CYBB	1536	hgsc.bcm.edu	37	X	37663234	37663234	+	Silent	SNP	G	G	A	rs2228117	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	367.0	190.0	324.0	1.0	0.517711	0.00308642	0|0.006;A|0.061	0.061	strong	.	CYBB	62	.	NM_000397	exon9	c.G1002A	p.K334K	GTCCAAGCTGGAG	.	PASS	Atlas-SNP
MICALL2	79778	hgsc.bcm.edu	37	7	1488317	1488317	+	Silent	SNP	G	G	A	rs78897087	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	122.0	123.0	0.0	1	0	G|0.968;A|0.032	0.032	strong	.	MICALL2	63	.	NM_182924	exon3	c.C273T	p.D91D	CAGCCGGTCAGGC	.	PASS	Atlas-SNP
SPAG4	6676	hgsc.bcm.edu	37	20	34205080	34205080	+	Silent	SNP	C	C	T	rs116016997	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	35.0	65.0	0.0	0.421687	0	C|0.982;T|0.018	0.018	strong	.	SPAG4	36	.	NM_003116	exon2	c.C327T	p.V109V	AGTAGTCTCTGAG	.	PASS	Atlas-SNP
CLCN6	1185	hgsc.bcm.edu	37	1	11876692	11876692	+	Silent	SNP	G	G	A	rs57044879	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	111.0	158.0	0.0	0.578125	0	G|0.971;A|0.029	0.029	strong	.	CLCN6	77	.	NM_001286	exon4	c.G234A	p.A78A	TGAGGCGGTGAAG	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92624276	92624276	+	Silent	SNP	G	G	A	rs371790138		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	24.0	60.0	0.0	0.5	0	.	.	weak	.	FAT3	1822	.	NM_001008781	exon25	c.G13671A	p.V4557V	TCAAGTGTAGACA	.	PASS	Atlas-SNP
GFM2	84340	hgsc.bcm.edu	37	5	74037369	74037369	+	Silent	SNP	C	C	T	rs35565659	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	247.0	110.0	279.0	0.0	0.445344	0	C|0.976;T|0.024	0.024	strong	.	GFM2	38	.	NM_032380	exon11	c.G915A	p.L305L	TGGTAACAAATCA	.	PASS	Atlas-SNP
ZNF366	167465	hgsc.bcm.edu	37	5	71740073	71740073	+	Missense_Mutation	SNP	A	A	T	rs116305374	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	42.0	108.0	0.0	0.411765	0	A|0.999;T|0.001	0.001	strong	.	ZNF366	108	.	NM_152625	exon5	c.T1745A	p.L582Q	CTCCTCAGGACAC	.	PASS	Atlas-SNP
MCM8	84515	hgsc.bcm.edu	37	20	5935303	5935303	+	Missense_Mutation	SNP	A	A	C	rs6117014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	50.0	94.0	0.0	0.485437	0	A|0.936;C|0.064	0.064	strong	.	MCM8	125	.	NM_032485	exon4	c.A303C	p.K101N	TGAAAAATTTTTC	.	PASS	Atlas-SNP
ECM1	1893	hgsc.bcm.edu	37	1	150484016	150484016	+	Silent	SNP	G	G	A	rs78194273	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	54.0	88.0	0.0	0.545455	0	G|0.984;A|0.016	0.016	strong	.	ECM1	96	.	NM_001202858	exon7	c.G873A	p.E291E	GGGGGAGGCTCGG	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170038097	170038097	+	Missense_Mutation	SNP	C	C	T	rs137983840	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	183.0	82.0	197.0	0.0	0.448087	0	C|0.999;T|0.001	0.001	strong	LRP2,NS,carcinoma,0,1	LRP2	751	1	NM_004525	exon52	c.G10030A	p.A3344T	TGTATGCGCGGTG	.	PASS	Atlas-SNP
TCEB3	6924	hgsc.bcm.edu	37	1	24077554	24077554	+	Silent	SNP	T	T	C	rs35397069	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	68.0	148.0	0.0	0.427673	0	T|0.913;C|0.087	0.087	strong	.	TCEB3	61	.	NM_003198	exon4	c.T537C	p.D179D	GAGAGATGAGAGA	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82836912	82836912	+	Missense_Mutation	SNP	G	G	A	rs61733389	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	51.0	92.0	0.0	0.586207	0	G|0.967;A|0.033	0.033	strong	.	VCAN	498	.	NM_004385	exon8	c.G8090A	p.R2697H	TTCCTCGTAAGTC	.	PASS	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	37	12	121442833	121442833	+	Missense_Mutation	SNP	C	C	T	rs34543757	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	57.0	84.0	0.0	0.57	0	C|0.990;G|0.000;T|0.009	0.009	strong	.	C12orf43	30	.	NM_022895	exon5	c.G425A	p.R142H	TTTCGGCGGGGTT	.	PASS	Atlas-SNP
PRSS27	83886	hgsc.bcm.edu	37	16	2762637	2762637	+	Missense_Mutation	SNP	A	A	G	rs61734617	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	82.0	164.0	0.0	0.479532	0	A|0.948;G|0.052	0.052	strong	.	PRSS27	20	.	NM_031948	exon6	c.T857C	p.L286S	CCGCCCAACCTCG	.	PASS	Atlas-SNP
SLC4A2	6522	hgsc.bcm.edu	37	7	150768849	150768849	+	Silent	SNP	C	C	T	rs11542749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	81.0	104.0	0.0	0.50625	0	C|0.927;T|0.073	0.073	strong	.	SLC4A2	98	.	NM_003040	exon15	c.C2265T	p.C755C	CTTCTGCCTGCTG	.	PASS	Atlas-SNP
LIPE	3991	hgsc.bcm.edu	37	19	42931004	42931004	+	Missense_Mutation	SNP	A	A	G	rs16975750	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	434.0	193.0	434.0	1.0	0.4447	0.00230415	A|0.915;G|0.085	0.085	strong	.	LIPE	83	.	NM_005357	exon1	c.T298C	p.Y100H	GGATGTAAGGTGA	.	PASS	Atlas-SNP
ZNF71	58491	hgsc.bcm.edu	37	19	57132879	57132879	+	Missense_Mutation	SNP	G	G	A	rs79950845	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	43.0	72.0	0.0	0.558442	0	G|0.976;A|0.024	0.024	strong	.	ZNF71	69	.	NM_021216	exon3	c.G224A	p.C75Y	CCGCATGTCATGA	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13105	13105	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	7.0	7.0	6.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.A769G	p.I257V	GCAGGAATCTTCT	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54745659	54745659	+	Missense_Mutation	SNP	G	G	C	rs200657736	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	875.0	120.0	500.0	1.0	0.137143	0.002	G|0.999;C|0.001	0.001	weak	LILRA6,NS,carcinoma,0,2	LILRA6	75	2	NM_024318	exon4	c.C451G	p.H151D	AATGGTGATATCC	.	scavenged	Atlas-SNP
CPB1	1360	hgsc.bcm.edu	37	3	148545789	148545789	+	Silent	SNP	C	C	T	rs80013498	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	71.0	111.0	0.0	0.486301	0	C|0.986;T|0.014	0.014	strong	.	CPB1	74	.	NM_001871	exon2	c.C72T	p.G24G	ATTCAGCGAGAAG	.	PASS	Atlas-SNP
TEKT5	146279	hgsc.bcm.edu	37	16	10769873	10769873	+	Silent	SNP	G	G	A	rs115325161	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	56.0	86.0	0.0	0.554455	0	G|0.995;A|0.005	0.005	strong	.	TEKT5	66	.	NM_144674	exon5	c.C1029T	p.N343N	GCGGGCGTTGAAG	.	PASS	Atlas-SNP
ZKSCAN4	387032	hgsc.bcm.edu	37	6	28219695	28219695	+	Missense_Mutation	SNP	G	G	A	rs62638680	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	101.0	82.0	0.0	0.990196	0	G|0.968;A|0.032	0.032	strong	.	ZKSCAN4	42	.	NM_019110	exon1	c.C64T	p.L22F	TCAGGAGCCCCGT	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47927650	47927650	+	Missense_Mutation	SNP	G	G	A	rs79105203	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	54.0	125.0	1.0	0.55102	0.008	G|0.945;A|0.055	0.055	strong	PKD1L1,colon,carcinoma,0,1	PKD1L1	328	1	NM_138295	exon17	c.C2774T	p.P925L	AGATTCGGTATTT	.	scavenged	Atlas-SNP
RRAGC	64121	hgsc.bcm.edu	37	1	39325136	39325136	+	Silent	SNP	C	C	T	rs112925356	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	29.0	53.0	0.0	0.517857	0	C|0.978;T|0.022	0.022	strong	.	RRAGC	28	.	NM_001271851	exon1	c.G183A	p.K61K	CCTCGGCTTGGAG	.	PASS	Atlas-SNP
ARSG	22901	hgsc.bcm.edu	37	17	66416511	66416511	+	Silent	SNP	C	C	T	rs35268505	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	240.0	125.0	238.0	0.0	0.520833	0	C|0.981;T|0.019	0.019	strong	.	ARSG	55	.	NM_001267727	exon12	c.C1485T	p.N495N	TGCCAACGACAAC	.	PASS	Atlas-SNP
ACTN4	81	hgsc.bcm.edu	37	19	39212226	39212226	+	Missense_Mutation	SNP	C	C	T	rs140271107	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	43.0	68.0	0.0	0.477778	0	C|1.000;T|0.000	0.000	strong	.	ACTN4	69	.	NM_004924	exon12	c.C1340T	p.S447L	CACTATCGGACAT	.	PASS	Atlas-SNP
TMEM19	55266	hgsc.bcm.edu	37	12	72094627	72094627	+	Missense_Mutation	SNP	C	C	G	rs74104122	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	95.0	157.0	0.0	0.505319	0	C|0.976;G|0.024	0.024	strong	.	TMEM19	35	.	NM_018279	exon6	c.C863G	p.T288S	AAAGCACTGGCAT	.	PASS	Atlas-SNP
TMC2	117532	hgsc.bcm.edu	37	20	2582839	2582839	+	Missense_Mutation	SNP	T	T	A	rs140733869	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	245.0	137.0	226.0	0.0	0.559184	0	T|0.997;A|0.003	0.003	strong	.	TMC2	121	.	NM_080751	exon11	c.T1305A	p.F435L	CAACTTTCTCATC	.	PASS	Atlas-SNP
TRPV6	55503	hgsc.bcm.edu	37	7	142573332	142573332	+	Silent	SNP	C	C	T	rs4987664	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	49.0	28.0	47.0	0.0	0.571429	0	C|0.971;T|0.029	0.029	strong	.	TRPV6	108	.	NM_018646	exon8	c.G1011A	p.L337L	GTACAGCAGATAT	.	PASS	Atlas-SNP
PARVG	64098	hgsc.bcm.edu	37	22	44586519	44586519	+	Missense_Mutation	SNP	C	C	A	rs3842780	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	32.0	71.0	0.0	0.385542	0	C|0.985;A|0.015	0.015	strong	PARVG,NS,carcinoma,0,1	PARVG	41	1	NM_001137606	exon7	c.C477A	p.N159K	AACCAACGTCCAG	.	PASS	Atlas-SNP
CKAP2L	150468	hgsc.bcm.edu	37	2	113509891	113509891	+	Missense_Mutation	SNP	T	T	C	rs36046436	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	382.0	184.0	396.0	0.0	0.481675	0	T|0.983;C|0.017	0.017	strong	.	CKAP2L	54	.	NM_152515	exon5	c.A1555G	p.S519G	TTTTACTGGACAG	.	PASS	Atlas-SNP
TRAPPC10	7109	hgsc.bcm.edu	37	21	45518396	45518396	+	Silent	SNP	G	G	A	rs115989144	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	39.0	62.0	0.0	0.573529	0	G|0.996;A|0.004	0.004	strong	TRAPPC10,colon,carcinoma,+1,1	TRAPPC10	109	1	NM_003274	exon21	c.G3327A	p.S1109S	TTTTTCGACAAAG	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24664220	24664220	+	Missense_Mutation	SNP	G	G	A	rs145470039	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	37.0	93.0	0.0	0.468354	0	G|0.997;A|0.003	0.003	strong	GRHL3_ENST00000350501,NS,carcinoma,0,4	GRHL3	69	4	NM_021180	exon6	c.G796A	p.V266I	TACCCCGTCACCC	.	PASS	Atlas-SNP
C4A	720	hgsc.bcm.edu	37	6	31963780	31963780	+	Silent	SNP	A	A	G	rs371801898		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	867.0	299.0	927.0	2.0	0.344867	0.0021575	.	.	weak	.	C4A	15	.	NM_007293	exon26	c.A3279G	p.V1093V	GCAGGTAGGAGGC	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151155197	151155197	+	Silent	SNP	T	T	C	rs141741834	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	71.0	130.0	0.0	0.550388	0	T|0.993;C|0.007	0.007	strong	.	IGSF10	279	.	NM_178822	exon6	c.A7152G	p.Q2384Q	ATAACTTTGTGGT	.	PASS	Atlas-SNP
CRAMP1L	57585	hgsc.bcm.edu	37	16	1706480	1706480	+	Silent	SNP	C	C	G	rs80154657	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	9.0	30.0	0.0	0.375	0	C|0.979;G|0.021	0.021	strong	.	CRAMP1L	60	.	NM_020825	exon9	c.C1722G	p.P574P	TGTCCCCGAGCAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9070186	9070186	+	Missense_Mutation	SNP	C	C	T	rs1559171	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	282.0	132.0	273.0	0.0	0.468085	0	C|0.987;T|0.013	0.013	strong	.	MUC16	4315	.	NM_024690	exon3	c.G17260A	p.A5754T	CCATGGCGAAGGT	.	PASS	Atlas-SNP
MCTP2	55784	hgsc.bcm.edu	37	15	94858808	94858808	+	Silent	SNP	G	G	A	rs146431277	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	203.0	105.0	191.0	0.0	0.517241	0	G|0.998;A|0.002	0.002	strong	MCTP2,NS,adenoma,0,1	MCTP2	122	1	NM_001159643	exon3	c.G579A	p.A193A	TTTTGCGTACCTC	.	PASS	Atlas-SNP
ADCK2	90956	hgsc.bcm.edu	37	7	140374482	140374482	+	Silent	SNP	G	G	C	rs142577491	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	71.0	113.0	0.0	0.572581	0	G|0.999;C|0.001	0.001	strong	.	ADCK2	37	.	NM_052853	exon2	c.G1005C	p.L335L	AGTCCTGGGAGTT	.	PASS	Atlas-SNP
C15orf43	145645	hgsc.bcm.edu	37	15	45250685	45250685	+	Missense_Mutation	SNP	T	T	G	rs147135555	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	63.0	98.0	0.0	0.477273	0	T|0.997;G|0.003	0.003	strong	.	C15orf43	19	.	NM_152448	exon3	c.T261G	p.I87M	TTTCATTCTTCCT	.	PASS	Atlas-SNP
DUPD1	338599	hgsc.bcm.edu	37	10	76797660	76797660	+	Silent	SNP	C	C	T	rs1868624	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	34.0	69.0	0.0	0.453333	0	C|0.959;T|0.041	0.041	strong	.	DUPD1	30	.	NM_001003892	exon3	c.G597A	p.Q199Q	CACCAGCTGCTTG	.	PASS	Atlas-SNP
AMPD3	272	hgsc.bcm.edu	37	11	10526179	10526179	+	Silent	SNP	C	C	T	rs375685508		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	43.0	98.0	0.0	0.358333	0	.	.	weak	.	AMPD3	68	.	NM_000480	exon14	c.C2127T	p.S709S	GAACAGCGTGCTG	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121207083	121207083	+	Missense_Mutation	SNP	C	C	A	rs3218639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	24.0	78.0	0.0	0.421053	0	C|0.993;A|0.007	0.007	strong	.	POLQ	273	.	NM_199420	exon16	c.G4695T	p.Q1565H	AACCATCTGAACA	.	PASS	Atlas-SNP
CTU2	348180	hgsc.bcm.edu	37	16	88780603	88780603	+	Silent	SNP	C	C	G	rs73262673	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	41.0	145.0	0.0	0.44086	0	C|0.960;G|0.040	0.040	strong	.	CTU2	66	.	NM_001012759	exon10	c.C1065G	p.T355T	GCAGACCCAGTTC	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39263646	39263646	+	Missense_Mutation	SNP	G	G	A	rs58363253	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	58.0	97.0	0.0	0.456693	0	G|0.949;A|0.051	0.051	strong	.	FREM2	385	.	NM_207361	exon1	c.G2165A	p.R722K	CACTGAGGAAGAA	.	PASS	Atlas-SNP
ZNF205	7755	hgsc.bcm.edu	37	16	3169321	3169321	+	Silent	SNP	C	C	T	rs59049520	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	52.0	88.0	0.0	0.626506	0	C|0.944;T|0.056	0.056	strong	.	ZNF205	42	.	NM_003456	exon7	c.C660T	p.P220P	GAAGCCCTTCAGA	.	PASS	Atlas-SNP
ATP9A	10079	hgsc.bcm.edu	37	20	50310559	50310559	+	Silent	SNP	G	G	A	rs2031344	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	82.0	218.0	0.0	0.43617	0	G|0.985;A|0.015	0.015	strong	.	ATP9A	135	.	NM_006045	exon7	c.C630T	p.L210L	CGTGGGGAGCCTC	.	PASS	Atlas-SNP
CENPE	1062	hgsc.bcm.edu	37	4	104080217	104080217	+	Missense_Mutation	SNP	A	A	C	rs75568479	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	107.0	174.0	0.0	0.52451	0	A|0.985;C|0.015	0.015	strong	.	CENPE	253	.	NM_001813	exon22	c.T2551G	p.S851A	CTTTAGAGAGATT	.	PASS	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	37	17	7385661	7385661	+	Missense_Mutation	SNP	A	A	G	rs192630658	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	119.0	214.0	1.0	0.540909	0.0046729	A|0.977;G|0.023	0.023	strong	.	.	.	.	NM_001102614	exon2	c.A358G	p.S120G	GCCTACAGTGCGG	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	37	2	198266834	198266834	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	70.0	173.0	0.0	0.327103	0	.	.	none	SF3B1,NS,haematopoietic_neoplasm,0,263	SF3B1	1038	263	NM_012433	exon15	c.A2098G	p.K700E	GAACTTTCTGCTG	.	PASS	Atlas-SNP
FTHL17	53940	hgsc.bcm.edu	37	X	31089873	31089873	+	Missense_Mutation	SNP	A	A	T	rs73617043	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	186.0	87.0	180.0	0.0	0.467742	0	A|0.996;T|0.004	0.004	strong	.	FTHL17	99	.	NM_031894	exon1	c.T198A	p.H66Q	CTGGGCATGCTCC	.	PASS	Atlas-SNP
ALDH1L1	10840	hgsc.bcm.edu	37	3	125854404	125854404	+	Silent	SNP	C	C	T	rs114109734	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	35.0	75.0	0.0	0.443038	0	C|0.996;T|0.004	0.004	strong	.	ALDH1L1	138	.	NM_001270364	exon12	c.G1476A	p.A492A	GTCCCGCGCACTG	.	PASS	Atlas-SNP
PVR	5817	hgsc.bcm.edu	37	19	45161070	45161070	+	Missense_Mutation	SNP	G	G	A	rs35365841	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	42.0	84.0	0.0	0.451613	0	G|0.951;A|0.049	0.049	strong	.	PVR	23	.	NM_001135769	exon5	c.G883A	p.A295T	CAGGGCGCCCAGC	.	PASS	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	37	7	88964162	88964162	+	Missense_Mutation	SNP	T	T	G	rs150870900	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	46.0	83.0	0.0	0.45098	0	T|0.996;G|0.004	0.004	strong	.	ZNF804B	322	.	NM_181646	exon4	c.T1866G	p.D622E	TATAGATGAGGAC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124360037	124360037	+	Missense_Mutation	SNP	C	C	T	rs61732737	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	49.0	88.0	0.0	0.475728	0	C|0.976;T|0.024	0.024	strong	.	DNAH10	888	.	NM_207437	exon46	c.C7844T	p.S2615L	ACACCTCGGTAAC	.	PASS	Atlas-SNP
SLC9A4	389015	hgsc.bcm.edu	37	2	103142761	103142761	+	Missense_Mutation	SNP	A	A	T	rs115217520	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	59.0	123.0	0.0	0.450382	0	A|0.997;T|0.003	0.003	strong	.	SLC9A4	115	.	NM_001011552	exon11	c.A1994T	p.N665I	ACGGGAATCCTCA	.	PASS	Atlas-SNP
KRT14	3861	hgsc.bcm.edu	37	17	39741280	39741280	+	Silent	SNP	A	A	G	rs35849957	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	55.0	87.0	0.0	0.539216	0	A|0.944;G|0.056	0.056	strong	.	KRT14	65	.	NM_000526	exon2	c.T555C	p.N185N	AAGGACATTGGCA	.	PASS	Atlas-SNP
NKX3-2	579	hgsc.bcm.edu	37	4	13545610	13545610	+	Silent	SNP	C	C	T	rs10032202	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	13.0	24.0	0.0	0.5	0	C|0.964;T|0.036	0.036	strong	.	NKX3-2	15	.	NM_001189	exon1	c.G429A	p.A143A	CCGGCCCGCGGCT	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19518855	19518855	+	Silent	SNP	T	T	C	rs147313932	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	37.0	76.0	0.0	0.474359	0	T|0.999;C|0.001	0.001	strong	.	UBR4	415	.	NM_020765	exon11	c.A1221G	p.Q407Q	CAGCAATTGGAAA	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7887234	7887234	+	Missense_Mutation	SNP	C	C	T	rs35687686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	34.0	80.0	0.0	0.459459	0	C|0.993;T|0.007	0.007	strong	PER3,colon,carcinoma,0,1	PER3	95	1	NM_016831	exon17	c.C2221T	p.R741W	CACAAGCGGAAGA	.	PASS	Atlas-SNP
C17orf105	284067	hgsc.bcm.edu	37	17	41857869	41857869	+	Silent	SNP	C	C	T	rs73987086	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	67.0	98.0	0.0	0.482014	0	C|0.953;T|0.047	0.047	strong	.	C17orf105	3	.	NM_001136483	exon1	c.C39T	p.I13I	TGTTATCGTCTCT	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11583245	11583245	+	Silent	SNP	G	G	A	rs8070788	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	37.0	82.0	0.0	0.4625	0	G|0.988;A|0.012	0.012	strong	.	DNAH9	695	.	NM_001372	exon18	c.G3525A	p.L1175L	TGAATTGCTGAAG	.	PASS	Atlas-SNP
CSPG5	10675	hgsc.bcm.edu	37	3	47619025	47619025	+	Missense_Mutation	SNP	G	G	C	rs35863063	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	26.0	60.0	0.0	0.45614	0	G|0.981;C|0.019	0.019	strong	.	CSPG5	46	.	NM_006574	exon2	c.C491G	p.A164G	TCAGAAGCTGGGC	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	73000131	73000131	+	Silent	SNP	G	G	A	rs35073557	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	37.0	69.0	0.0	0.544118	0	G|0.981;A|0.019	0.019	strong	.	TSHZ1	104	.	NM_005786	exon2	c.G2634A	p.P878P	GGGCCCGCAGGAG	.	PASS	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39254184	39254184	+	Silent	SNP	T	T	C	rs7217470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	83.0	101.0	1.0	0.568493	0.00990099	T|0.820;C|0.180	0.180	strong	KRTAP4-8,NS,carcinoma,0,1	KRTAP4-8	57	1	NM_031960	exon1	c.A153G	p.R51R	CTGGGGTCTGCAG	.	scavenged	Atlas-SNP
ADAM18	8749	hgsc.bcm.edu	37	8	39537616	39537616	+	Silent	SNP	C	C	T	rs28454772	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	67.0	126.0	0.0	0.527559	0	C|0.914;T|0.086	0.086	strong	ADAM18,colon,carcinoma,0,1	ADAM18	169	1	NM_014237	exon16	c.C1692T	p.D564D	AAGTGACGCTCAA	.	PASS	Atlas-SNP
NDUFAF7	55471	hgsc.bcm.edu	37	2	37459308	37459308	+	Missense_Mutation	SNP	C	C	G	rs2714473	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	64.0	123.0	0.0	0.481203	0	C|0.931;G|0.069	0.069	strong	.	.	.	.	NM_001083946	exon2	c.C115G	p.P39A	GAAAACCCGGTGA	.	PASS	Atlas-SNP
ERC2	26059	hgsc.bcm.edu	37	3	56026204	56026204	+	Silent	SNP	C	C	T	rs61732592	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	231.0	118.0	217.0	0.0	0.510823	0	C|0.988;T|0.012	0.012	strong	ERC2_ENST00000288221,caecum,carcinoma,-1,2	ERC2	221	2	NM_015576	exon11	c.G2136A	p.A712A	GTAAGACGCCTCT	.	PASS	Atlas-SNP
FAM193A	8603	hgsc.bcm.edu	37	4	2661342	2661342	+	Missense_Mutation	SNP	A	A	G	rs17164077	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	42.0	98.0	0.0	0.47191	0	A|0.937;G|0.063	0.063	strong	FAM193A,colon,carcinoma,0,1	FAM193A	103	1	NM_001256667	exon8	c.A646G	p.M216V	AGGCACATGTTAT	.	PASS	Atlas-SNP
NOL11	25926	hgsc.bcm.edu	37	17	65735054	65735054	+	Silent	SNP	A	A	G	rs151002760	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	53.0	103.0	0.0	0.452991	0	A|0.997;G|0.003	0.003	strong	.	NOL11	48	.	NM_015462	exon15	c.A1770G	p.A590A	TAATGCAATTCTT	.	PASS	Atlas-SNP
C6orf70	55780	hgsc.bcm.edu	37	6	170155460	170155460	+	Missense_Mutation	SNP	C	C	A	rs61735516	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	297.0	149.0	268.0	0.0	0.501683	0	C|0.987;A|0.013	0.013	strong	.	C6orf70	63	.	NM_018341	exon3	c.C257A	p.T86N	CTCTGACCAAGGG	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128367556	128367556	+	Missense_Mutation	SNP	G	G	A	rs199654311	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	58.0	100.0	0.0	0.537037	0	G|0.999;A|0.001	0.001	strong	.	MYO7B	359	.	NM_001080527	exon24	c.G3157A	p.G1053S	GAGCACGGTGCCC	.	PASS	Atlas-SNP
FBXW8	26259	hgsc.bcm.edu	37	12	117387465	117387465	+	Missense_Mutation	SNP	A	A	G	rs36021180	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	85.0	163.0	0.0	0.555556	0	A|0.983;G|0.017	0.017	strong	.	FBXW8	53	.	NM_153348	exon4	c.A631G	p.T211A	CCTGACACAGTTT	.	PASS	Atlas-SNP
PACS2	23241	hgsc.bcm.edu	37	14	105821457	105821457	+	Silent	SNP	G	G	A	rs61738367	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	48.0	105.0	0.0	0.494845	0	G|0.986;A|0.014	0.014	strong	.	PACS2	75	.	NM_001100913	exon4	c.G366A	p.K122K	CTACAAGAACAGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515199	195515199	+	Silent	SNP	A	A	C	rs201720234	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	384.0	45.0	197.0	0.0	0.117188	0	A|0.994;C|0.006	0.006	strong	.	MUC4	1505	.	NM_018406	exon2	c.T3252G	p.G1084G	GGTGTCACCTGTG	.	PASS	Atlas-SNP
TM9SF3	56889	hgsc.bcm.edu	37	10	98282083	98282083	+	Silent	SNP	C	C	T	rs35359279	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	35.0	80.0	0.0	0.368421	0	C|0.990;T|0.010	0.010	strong	.	TM9SF3	45	.	NM_020123	exon15	c.G1707A	p.A569A	ACCAATCGCTCCT	.	PASS	Atlas-SNP
TBC1D9B	23061	hgsc.bcm.edu	37	5	179297262	179297262	+	Silent	SNP	T	T	C	rs407437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	30.0	104.0	0.0	0.428571	0	T|0.882;C|0.118	0.118	strong	.	TBC1D9B	157	.	NM_198868	exon16	c.A2718G	p.T906T	CATCCCTGTCACG	.	PASS	Atlas-SNP
PALD1	27143	hgsc.bcm.edu	37	10	72324139	72324139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	60.0	127.0	0.0	0.444444	0	.	.	none	KIAA1274,NS,carcinoma,-1,1	.	.	1	NM_014431	exon19	c.C2282T	p.A761V	AAGAGGCGCAAGA	.	PASS	Atlas-SNP
ZNF135	7694	hgsc.bcm.edu	37	19	58579464	58579464	+	Missense_Mutation	SNP	A	A	G	rs75381380		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	31.0	66.0	0.0	0.462687	0	.	.	weak	.	ZNF135	159	.	NM_007134	exon4	c.A1684G	p.I562V	CCCCTCATTCAGC	.	PASS	Atlas-SNP
SYTL4	94121	hgsc.bcm.edu	37	X	99955925	99955925	+	Silent	SNP	T	T	C	rs16983588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	269.0	269.0	318.0	0.0	1	0	0|0.004;C|0.166	0.166	strong	.	SYTL4	72	.	NM_001129896	exon6	c.A507G	p.R169R	GATCTTTCTTCCT	.	PASS	Atlas-SNP
XIRP1	165904	hgsc.bcm.edu	37	3	39225549	39225549	+	Silent	SNP	G	G	C	rs36091974	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	107.0	187.0	0.0	0.5	0	G|0.973;C|0.027	0.027	strong	.	XIRP1	173	.	NM_194293	exon2	c.C5388G	p.P1796P	GTTCCTGGGTGGC	.	PASS	Atlas-SNP
RIF1	55183	hgsc.bcm.edu	37	2	152321618	152321618	+	Missense_Mutation	SNP	G	G	A	rs2444258	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	29.0	84.0	0.0	0.298969	0	G|0.918;A|0.082	0.082	strong	.	RIF1	244	.	NM_018151	exon30	c.G5584A	p.V1862I	AAAACTGTTGGCC	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155156875	155156875	+	Missense_Mutation	SNP	T	T	G	rs61746101	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	48.0	74.0	0.0	0.494845	0	T|0.959;G|0.041	0.041	strong	.	DCHS2	594	.	NM_017639	exon25	c.A7564C	p.N2522H	ACACATTCACAAA	.	PASS	Atlas-SNP
OR5L2	26338	hgsc.bcm.edu	37	11	55595401	55595401	+	Missense_Mutation	SNP	A	A	G	rs148148644	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	73.0	166.0	0.0	0.459119	0	A|0.997;G|0.003	0.003	strong	.	OR5L2	135	.	NM_001004739	exon1	c.A707G	p.K236R	GGCACAAAGCTTT	.	PASS	Atlas-SNP
IQSEC2	23096	hgsc.bcm.edu	37	X	53263764	53263764	+	Silent	SNP	C	C	T	rs184087864	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	222.0	97.0	225.0	0.0	0.436937	0	C|0.937;T|0.063	0.063	strong	.	IQSEC2	195	.	NM_001111125	exon15	c.G4104A	p.L1368L	CAGGGGCAGTGGG	.	PASS	Atlas-SNP
TERF2	7014	hgsc.bcm.edu	37	16	69401085	69401085	+	Missense_Mutation	SNP	G	G	T	rs34014829	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	36.0	69.0	0.0	0.486486	0	G|0.991;T|0.009	0.009	strong	.	TERF2	24	.	NM_005652	exon7	c.C965A	p.P322Q	GTGGTTGGAGGAT	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24383873	24383873	+	Missense_Mutation	SNP	T	T	C	rs59805085	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	83.0	147.0	0.0	0.525316	0	T|0.975;C|0.025	0.025	strong	.	MYOM3	131	.	NM_152372	exon37	c.A4295G	p.K1432R	AGCTCCTTGGGCT	.	PASS	Atlas-SNP
MCM8	84515	hgsc.bcm.edu	37	20	5943985	5943985	+	Silent	SNP	G	G	A	rs35102646	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	23.0	58.0	0.0	0.425926	0	G|0.992;A|0.008	0.008	strong	.	MCM8	125	.	NM_032485	exon8	c.G855A	p.T285T	AGTTACGATGGAC	.	PASS	Atlas-SNP
C6orf201	404220	hgsc.bcm.edu	37	6	4122279	4122279	+	Silent	SNP	A	A	G	rs17137678	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	114.0	209.0	0.0	0.542857	0	A|0.978;G|0.022	0.022	strong	.	C6orf201	17	.	NM_001085401	exon4	c.A381G	p.T127T	ACAAACAGGTACA	.	PASS	Atlas-SNP
IL1R2	7850	hgsc.bcm.edu	37	2	102626187	102626187	+	Silent	SNP	G	G	A	rs2230401	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	34.0	81.0	0.0	0.419753	0	G|0.958;A|0.042	0.042	strong	.	IL1R2	58	.	NM_001261419	exon3	c.G231A	p.T77T	TAGGACGGTCCCA	.	PASS	Atlas-SNP
AZU1	566	hgsc.bcm.edu	37	19	831811	831811	+	Silent	SNP	C	C	T	rs588442	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	54.0	105.0	0.0	0.446281	0	C|0.897;T|0.103	0.103	strong	.	AZU1	31	.	NM_001700	exon5	c.C690T	p.T230T	CTTCACCCGAGTG	.	PASS	Atlas-SNP
KIAA0020	9933	hgsc.bcm.edu	37	9	2811522	2811522	+	Missense_Mutation	SNP	T	T	A	rs60717199	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	42.0	107.0	0.0	0.411765	0	T|0.980;A|0.020	0.020	strong	.	KIAA0020	56	.	NM_014878	exon15	c.A1474T	p.S492C	GGTAGCTTAACAA	.	PASS	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	37	4	84361071	84361071	+	Missense_Mutation	SNP	G	G	A	rs6817280	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	376.0	192.0	335.0	1.0	0.510638	0.00298507	G|0.916;A|0.084	0.084	strong	.	HELQ	95	.	NM_133636	exon8	c.C1753T	p.P585S	TACTAGGACAAAA	.	PASS	Atlas-SNP
DCAF8L2	347442	hgsc.bcm.edu	37	X	27766474	27766474	+	Missense_Mutation	SNP	G	G	A	rs375048390		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	250.0	138.0	295.0	1.0	0.552	0.00338983	.	.	weak	.	DCAF8L2	79	.	NM_001136533	exon1	c.G1462A	p.G488S	GTGAGCGGTAGTG	.	PASS	Atlas-SNP
C3orf43	255798	hgsc.bcm.edu	37	3	196235191	196235191	+	Missense_Mutation	SNP	A	A	G	rs73891273	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	22.0	37.0	0.0	0.407407	0	A|0.971;G|0.029	0.029	strong	C3orf43,NS,carcinoma,+1,1	C3orf43	25	1	NM_001077657	exon3	c.T212C	p.M71T	AATTCCATTGAAG	.	PASS	Atlas-SNP
ZNF142	7701	hgsc.bcm.edu	37	2	219515109	219515109	+	Missense_Mutation	SNP	T	T	G	rs61733648	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	191.0	96.0	175.0	0.0	0.502618	0	T|0.990;G|0.010	0.010	strong	.	ZNF142	190	.	NM_001105537	exon5	c.A421C	p.K141Q	GGCCTTTATCCAC	.	PASS	Atlas-SNP
PRICKLE4	29964	hgsc.bcm.edu	37	6	41753136	41753136	+	Missense_Mutation	SNP	G	G	A	rs35880970	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	77.0	89.0	0.0	0.974684	0	G|0.982;A|0.018	0.018	strong	.	PRICKLE4	29	.	NM_013397	exon6	c.G440A	p.R147H	AACAGCGCTGCTG	.	PASS	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	37	1	245775265	245775265	+	Silent	SNP	C	C	T	rs61741293	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	43.0	94.0	0.0	0.387387	0	C|0.989;T|0.011	0.011	strong	.	KIF26B	343	.	NM_018012	exon9	c.C2085T	p.S695S	GAAGAGCGGGAAA	.	PASS	Atlas-SNP
DPH1	1801	hgsc.bcm.edu	37	17	1943525	1943525	+	Missense_Mutation	SNP	A	A	G	rs200693145	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	34.0	55.0	0.0	0.666667	0	A|1.000;G|0.000	0.000	strong	.	DPH1	32	.	NM_001383	exon8	c.A778G	p.S260G	CCATATAGCAAAG	.	PASS	Atlas-SNP
DHX40	79665	hgsc.bcm.edu	37	17	57652789	57652789	+	Silent	SNP	C	C	T	rs77178464	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	386.0	201.0	392.0	1.0	0.520725	0.00255102	C|0.957;T|0.043	0.043	strong	.	DHX40	40	.	NM_024612	exon7	c.C930T	p.L310L	CACCCTCGATGGC	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144942934	144942934	+	Silent	SNP	C	C	T	rs114155737	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	25.0	16.0	33.0	0.0	0.64	0	C|0.987;T|0.013	0.013	strong	.	EPPK1	199	.	NM_031308	exon1	c.G4488A	p.A1496A	CAGGGCCGCAGCC	.	PASS	Atlas-SNP
BRDT	676	hgsc.bcm.edu	37	1	92467626	92467626	+	Missense_Mutation	SNP	A	A	G	rs78267346	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	297.0	159.0	275.0	0.0	0.535354	0	A|0.988;G|0.012	0.012	strong	.	BRDT	133	.	NM_001242806	exon16	c.A2320G	p.N774D	CTCTCAAATGGCA	.	PASS	Atlas-SNP
CLDN14	23562	hgsc.bcm.edu	37	21	37833361	37833361	+	Silent	SNP	G	G	A	rs61745291	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	419.0	228.0	332.0	0.0	0.544153	0	G|0.976;A|0.024	0.024	strong	.	CLDN14	25	.	NM_144492	exon3	c.C633T	p.Y211Y	TGGCTGGTAGGCA	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	37	20	34084415	34084415	+	Silent	SNP	G	G	C	rs224376	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	32.0	60.0	0.0	0.5	0	G|0.991;C|0.009	0.009	strong	.	CEP250	141	.	NM_007186	exon25	c.G3177C	p.L1059L	GACTCTGTCACTG	.	PASS	Atlas-SNP
NSUN3	63899	hgsc.bcm.edu	37	3	93845062	93845062	+	Missense_Mutation	SNP	A	A	G	rs61730354	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	82.0	124.0	0.0	0.546667	0	A|0.982;G|0.018	0.018	strong	.	NSUN3	33	.	NM_022072	exon6	c.A751G	p.I251V	TCTGCAATTAAGG	.	PASS	Atlas-SNP
PRICKLE1	144165	hgsc.bcm.edu	37	12	42862431	42862431	+	Silent	SNP	G	G	A	rs74081707	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	81.0	45.0	90.0	0.0	0.555556	0	G|0.967;A|0.033	0.033	strong	.	PRICKLE1	105	.	NM_001144882	exon5	c.C585T	p.D195D	TACCTCGTCACAT	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37244669	37244669	+	Silent	SNP	C	C	T	rs73750958	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	49.0	157.0	0.0	0.360294	0	C|0.980;T|0.020	0.020	strong	.	C5orf42	422	.	NM_023073	exon5	c.G378A	p.G126G	TCTTTTCCCATTT	.	PASS	Atlas-SNP
PPCS	79717	hgsc.bcm.edu	37	1	42925501	42925501	+	Silent	SNP	A	A	G	rs142078638	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	56.0	139.0	0.0	0.455285	0	A|0.998;G|0.002	0.002	strong	.	PPCS	30	.	NM_024664	exon3	c.A840G	p.L280L	ATTGCTATCAGAG	.	PASS	Atlas-SNP
NSUN5	55695	hgsc.bcm.edu	37	7	72719048	72719048	+	Missense_Mutation	SNP	G	G	A	rs34913552	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	496.0	155.0	568.0	0.0	0.3125	0	G|0.971;A|0.029	0.029	strong	.	NSUN5	47	.	NM_148956	exon5	c.C547T	p.P183S	TCAAGGGGTCCAG	.	PASS	Atlas-SNP
SLC37A1	54020	hgsc.bcm.edu	37	21	43954850	43954850	+	Missense_Mutation	SNP	G	G	A	rs115669950	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	68.0	101.0	0.0	0.576271	0	G|0.984;A|0.016	0.016	strong	.	SLC37A1	48	.	NM_018964	exon5	c.G181A	p.V61I	GCTGACGTCAGGT	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114374887	114374887	+	Missense_Mutation	SNP	T	T	A	rs2290787	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	85.0	205.0	0.0	0.452128	0	A|0.076;C|0.019;T|0.905	0.076	strong	RBM19,NS,carcinoma,0,1	RBM19	117	1	NM_001146699	exon16	c.A1993T	p.T665S	GGGCTGTGCTGGA	.	PASS	Atlas-SNP
KIAA1731	85459	hgsc.bcm.edu	37	11	93412587	93412587	+	Missense_Mutation	SNP	C	C	T	rs111783199	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	75.0	134.0	0.0	0.568182	0	C|0.995;T|0.005	0.005	strong	.	KIAA1731	173	.	NM_033395	exon7	c.C634T	p.R212C	GATGCTCGTTTGG	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	134108459	134108459	+	Missense_Mutation	SNP	G	G	C	rs61730222	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	85.0	159.0	0.0	0.469613	0	G|0.978;C|0.022	0.022	strong	TG,colon,carcinoma,0,2	TG	416	2	NM_003235	exon43	c.G7414C	p.V2472L	CTGGCCGTGAGTG	.	PASS	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	37	17	7942785	7942785	+	Missense_Mutation	SNP	C	C	G	rs78230493	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	22.0	15.0	29.0	0.0	0.681818	0	C|0.966;G|0.034	0.034	strong	.	ALOX15B	66	.	NM_001141	exon2	c.C229G	p.P77A	GTGCTGCCCCTGC	.	PASS	Atlas-SNP
TMEM104	54868	hgsc.bcm.edu	37	17	72784931	72784931	+	Silent	SNP	C	C	T	rs62638676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	15.0	35.0	0.0	0.365854	0	C|0.968;T|0.032	0.032	strong	.	TMEM104	49	.	NM_017728	exon4	c.C171T	p.F57F	CAGCTTCGTGACC	.	PASS	Atlas-SNP
LMTK2	22853	hgsc.bcm.edu	37	7	97822990	97822990	+	Silent	SNP	G	G	A	rs56064038	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	25.0	49.0	0.0	0.462963	0	G|0.985;A|0.015	0.015	strong	.	LMTK2	228	.	NM_014916	exon11	c.G3213A	p.P1071P	CAACCCGGTCATT	.	PASS	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	37	9	136595253	136595253	+	Silent	SNP	C	C	T	rs35457000	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	40.0	128.0	0.0	0.353982	0	C|0.985;T|0.015	0.015	strong	.	SARDH	112	.	NM_007101	exon5	c.G747A	p.V249V	CCGCCGCACCCCA	.	PASS	Atlas-SNP
EMCN	51705	hgsc.bcm.edu	37	4	101386643	101386643	+	Missense_Mutation	SNP	C	C	T	rs78403369	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	65.0	127.0	0.0	0.492424	0	C|0.980;T|0.020	0.020	strong	.	EMCN	37	.	NM_001159694	exon4	c.G313A	p.V105I	CTGTTACGTTTGA	.	PASS	Atlas-SNP
FBN1	2200	hgsc.bcm.edu	37	15	48734008	48734008	+	Missense_Mutation	SNP	C	C	A	rs113577372	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	34.0	59.0	0.0	0.5	0	C|0.998;A|0.002	0.002	strong	.	FBN1	310	.	NM_000138	exon50	c.G6073T	p.A2025S	CCAGGGCACAAAT	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62393420	62393420	+	Missense_Mutation	SNP	C	C	T	rs61743112	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	45.0	84.0	0.0	0.5	0	C|0.959;T|0.041	0.041	strong	.	INADL	179	.	NM_176877	exon27	c.C3589T	p.P1197S	GCTCCACCGCCAA	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	37	17	5085806	5085806	+	Silent	SNP	G	G	A	rs114624606	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	47.0	124.0	0.0	0.419643	0	G|0.990;A|0.010	0.010	strong	.	ZNF594	89	.	NM_032530	exon2	c.C1746T	p.D582D	GATGAGGTCTGAG	.	PASS	Atlas-SNP
ADAMTSL3	57188	hgsc.bcm.edu	37	15	84683428	84683428	+	Missense_Mutation	SNP	A	A	G	rs17158450	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	63.0	122.0	0.0	0.396226	0	A|0.943;G|0.057	0.057	strong	.	ADAMTSL3	290	.	NM_207517	exon24	c.A4108G	p.T1370A	ATAGCCACCAATG	.	PASS	Atlas-SNP
CWF19L1	55280	hgsc.bcm.edu	37	10	101993024	101993024	+	Missense_Mutation	SNP	C	C	T	rs7922946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	33.0	105.0	0.0	0.428571	0	C|0.993;T|0.007	0.007	strong	.	CWF19L1	39	.	NM_018294	exon14	c.G1577A	p.R526Q	TCTTTCCGGAAGC	.	PASS	Atlas-SNP
SRF	6722	hgsc.bcm.edu	37	6	43146105	43146105	+	Silent	SNP	G	G	T	rs140883192	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	28.0	57.0	0.0	0.444444	0	G|0.997;T|0.003	0.003	strong	.	SRF	24	.	NM_003131	exon5	c.G1236T	p.P412P	TAGCCCGCATGCG	.	PASS	Atlas-SNP
CARD14	79092	hgsc.bcm.edu	37	17	78176193	78176193	+	Silent	SNP	G	G	A	rs35692270	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	35.0	70.0	0.0	0.448718	0	G|0.992;A|0.008	0.008	strong	.	CARD14	98	.	NM_024110	exon15	c.G2193A	p.A731A	TGCCGCGCACGGC	.	PASS	Atlas-SNP
CXXC11	285093	hgsc.bcm.edu	37	2	242815157	242815157	+	Missense_Mutation	SNP	C	C	T	rs77317868	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	36.0	76.0	0.0	0.493151	0	C|0.973;T|0.027	0.027	strong	.	.	.	.	NM_173821	exon2	c.C1450T	p.R484C	ATAAAGCGCAAGG	.	PASS	Atlas-SNP
ZNF20	7568	hgsc.bcm.edu	37	19	12244624	12244624	+	Missense_Mutation	SNP	G	G	A	rs61743205	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	88.0	182.0	0.0	0.483516	0	G|0.981;A|0.019	0.019	strong	.	ZNF20	86	.	NM_021143	exon4	c.C377T	p.A126V	GTGTCAGCTCTGA	.	PASS	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	37	2	98779418	98779418	+	Missense_Mutation	SNP	G	G	A	rs77092382	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	60.0	133.0	0.0	0.431655	0	G|0.981;A|0.019	0.019	strong	.	VWA3B	138	.	NM_144992	exon8	c.G1093A	p.D365N	AAGCCCGACGTGG	.	PASS	Atlas-SNP
CSNK1G1	53944	hgsc.bcm.edu	37	15	64592522	64592522	+	Silent	SNP	T	T	C	rs7163558	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	91.0	147.0	0.0	0.478947	0	T|0.968;C|0.032	0.032	strong	.	CSNK1G1	56	.	NM_022048	exon2	c.A177G	p.R59R	ACCTAATCTGAGC	.	PASS	Atlas-SNP
SEC14L3	266629	hgsc.bcm.edu	37	22	30864545	30864545	+	Missense_Mutation	SNP	T	T	A	rs115380280	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	57.0	112.0	0.0	0.504425	0	T|0.998;A|0.002	0.002	strong	.	SEC14L3	46	.	NM_174975	exon5	c.A373T	p.M125L	CCCTCATCTTGGT	.	PASS	Atlas-SNP
KRTAP29-1	100533177	hgsc.bcm.edu	37	17	39458200	39458200	+	Missense_Mutation	SNP	C	C	T	rs115643796	byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	73.0	142.0	0.0	0.480263	0	C|0.987;T|0.013	0.013	strong	.	KRTAP29-1	2	.	NM_001257309	exon1	c.G904A	p.G302S	TGCAGCCACTCTG	.	PASS	Atlas-SNP
DZIP1L	199221	hgsc.bcm.edu	37	3	137787173	137787173	+	Missense_Mutation	SNP	G	G	A	rs11917468	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	77.0	209.0	0.0	0.463855	0	G|0.948;A|0.052	0.052	strong	.	DZIP1L	88	.	NM_173543	exon13	c.C1652T	p.A551V	GGCTGGGCCTCTC	.	PASS	Atlas-SNP
TSPAN18	90139	hgsc.bcm.edu	37	11	44931308	44931308	+	Missense_Mutation	SNP	C	C	T	rs34282417	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	44.0	96.0	0.0	0.505747	0	C|0.995;T|0.005	0.005	strong	.	TSPAN18	38	.	NM_130783	exon4	c.C116T	p.T39I	ACCCCACCGGCTT	.	PASS	Atlas-SNP
ATP13A4	84239	hgsc.bcm.edu	37	3	193120459	193120459	+	Silent	SNP	G	G	A	rs9863164	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	49.0	99.0	0.0	0.453704	0	G|0.974;A|0.026	0.026	strong	.	ATP13A4	154	.	NM_032279	exon30	c.C3573T	p.S1191S	TTCATTGCTCTCA	.	PASS	Atlas-SNP
PTOV1	53635	hgsc.bcm.edu	37	19	50361874	50361874	+	Silent	SNP	A	A	G	rs35389621	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	43.0	99.0	0.0	0.505882	0	A|0.990;G|0.010	0.010	strong	.	PTOV1	41	.	NM_017432	exon10	c.A1005G	p.T335T	GGAGACACTGAAG	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149485987	149485987	+	Nonsense_Mutation	SNP	T	T	A	rs893597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	190.0	90.0	146.0	0.0	0.473684	0	T|0.977;A|0.023	0.023	strong	.	.	.	.	NM_198455	exon29	c.T4206A	p.C1402X	CGACTGTGGCGAT	.	PASS	Atlas-SNP
IPPK	64768	hgsc.bcm.edu	37	9	95411816	95411816	+	Silent	SNP	G	G	A	rs16908484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	69.0	113.0	0.0	0.594828	0	G|0.986;A|0.014	0.014	strong	.	IPPK	34	.	NM_022755	exon5	c.C333T	p.Y111Y	CATAGCGTAACCA	.	PASS	Atlas-SNP
C16orf58	64755	hgsc.bcm.edu	37	16	31519174	31519174	+	Silent	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	51.0	64.0	0.0	0.515152	0	.	.	none	.	C16orf58	28	.	NM_022744	exon2	c.G326G	p.G109G	GCTAGGGAGCCGG	.	PASS	Atlas-SNP
ZC3H12D	340152	hgsc.bcm.edu	37	6	149777914	149777914	+	Missense_Mutation	SNP	G	G	T	rs200917878	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	23.0	61.0	0.0	0.433962	0	.	.	weak	.	ZC3H12D	21	.	NM_207360	exon4	c.C568A	p.Q190K	CGTCCTGCTCGTA	.	PASS	Atlas-SNP
EIF2S3	1968	hgsc.bcm.edu	37	X	24073785	24073785	+	Silent	SNP	A	A	G	rs56229020	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	370.0	169.0	364.0	0.0	0.456757	0	A|0.998;G|0.002	0.002	strong	.	EIF2S3	31	.	NM_001415	exon2	c.A123G	p.T41T	AGCCACAATTAAC	.	PASS	Atlas-SNP
UCN3	114131	hgsc.bcm.edu	37	10	5416027	5416027	+	Missense_Mutation	SNP	C	C	G	rs201708420	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	25.0	45.0	0.0	0.438596	0	.	.	weak	.	UCN3	13	.	NM_053049	exon2	c.C344G	p.P115R	AGAGTCCCCACCG	.	PASS	Atlas-SNP
RAD51B	5890	hgsc.bcm.edu	37	14	68292187	68292187	+	Silent	SNP	T	T	C	rs114131734	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	29.0	81.0	0.0	0.414286	0	T|0.991;C|0.009	0.009	strong	.	RAD51B	80	.	NM_133509	exon3	c.T91C	p.L31L	GACTTTTTATGTC	.	PASS	Atlas-SNP
SRPX	8406	hgsc.bcm.edu	37	X	38033415	38033415	+	Missense_Mutation	SNP	T	T	C	rs35474361	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	56.0	120.0	0.0	0.5	0	T|0.921;C|0.079	0.079	strong	.	SRPX	53	.	NM_001170751	exon3	c.A347G	p.K116R	TCACGTTTGCAGA	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47584869	47584869	+	Silent	SNP	C	C	T	rs73943616	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	84.0	139.0	0.0	0.583333	0	C|0.986;T|0.014	0.014	strong	.	ZC3H4	96	.	NM_015168	exon11	c.G1341A	p.P447P	CTTACACGGGAAA	.	PASS	Atlas-SNP
ZNF695	57116	hgsc.bcm.edu	37	1	247150631	247150631	+	Missense_Mutation	SNP	T	T	C	rs77178548	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	24.0	46.0	0.0	0.444444	0	T|0.968;C|0.032	0.032	strong	.	ZNF695	55	.	NM_020394	exon4	c.A1186G	p.I396V	GCTGAATAAGGTA	.	PASS	Atlas-SNP
ZNF883	169834	hgsc.bcm.edu	37	9	115760381	115760381	+	Silent	SNP	G	G	A	rs113877750	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	34.0	100.0	0.0	0.365591	0	G|0.991;A|0.009	0.009	strong	.	.	.	.	NM_001101338	exon5	c.C159T	p.N53N	ATTACTGTTCCGG	.	PASS	Atlas-SNP
ZDHHC2	51201	hgsc.bcm.edu	37	8	17067959	17067959	+	Missense_Mutation	SNP	C	C	G	rs190630185	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	37.0	58.0	0.0	0.486842	0	C|0.997;G|0.003	0.003	strong	.	ZDHHC2	25	.	NM_016353	exon10	c.C920G	p.T307S	CATCTACTCCTGC	.	PASS	Atlas-SNP
CWC25	54883	hgsc.bcm.edu	37	17	36963226	36963226	+	Silent	SNP	G	G	T	rs3785452	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	131.0	137.0	0.0	1	0	G|0.860;T|0.140	0.140	strong	.	CWC25	24	.	NM_017748	exon7	c.C694A	p.R232R	AGTTCCGGACCTA	.	PASS	Atlas-SNP
CCSER1	401145	hgsc.bcm.edu	37	4	91230407	91230407	+	Silent	SNP	T	T	C	rs34445159	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	218.0	92.0	178.0	0.0	0.422018	0	T|0.995;C|0.005	0.005	strong	.	.	.	.	NM_001145065	exon2	c.T972C	p.Y324Y	GAAATATAGGTTA	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49967996	49967996	+	Silent	SNP	G	G	A	rs10421522	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	40.0	67.0	0.0	0.506329	0	G|0.964;A|0.036	0.036	strong	.	ALDH16A1	54	.	NM_153329	exon12	c.G1545A	p.P515P	CCTGCCGGCTGGG	.	PASS	Atlas-SNP
ENDOD1	23052	hgsc.bcm.edu	37	11	94862340	94862340	+	Missense_Mutation	SNP	A	A	T	rs188091415	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	89.0	165.0	0.0	0.613793	0	A|0.998;T|0.002	0.002	strong	.	ENDOD1	26	.	NM_015036	exon2	c.A1100T	p.Q367L	CCAAGCAGGTGAT	.	PASS	Atlas-SNP
OR8K1	390157	hgsc.bcm.edu	37	11	56113703	56113703	+	Silent	SNP	C	C	T	rs145394503	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	189.0	94.0	216.0	1.0	0.497355	0.00462963	C|0.993;T|0.007	0.007	strong	.	OR8K1	93	.	NM_001002907	exon1	c.C189T	p.T63T	ACACACCCCCATG	.	PASS	Atlas-SNP
PGAM4	441531	hgsc.bcm.edu	37	X	77225099	77225099	+	Missense_Mutation	SNP	C	C	T	rs6622613	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	488.0	248.0	470.0	1.0	0.508197	0.00212766	C|0.990;T|0.010	0.010	strong	.	PGAM4	28	.	NM_001029891	exon1	c.G37A	p.E13K	TGCTCTCGCCGTG	.	PASS	Atlas-SNP
RPGR	6103	hgsc.bcm.edu	37	X	38145918	38145918	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	294.0	15.0	459.0	0.0	0.0510204	0	.	.	none	.	RPGR	175	.	NM_001034853	exon15	c.G2334A	p.E778E	TCTTTCCTCCTTT	.	PASS	Atlas-SNP
UBE3A	7337	hgsc.bcm.edu	37	15	25616844	25616844	+	Silent	SNP	T	T	A	rs28528079	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	341.0	169.0	295.0	0.0	0.495601	0	T|0.958;A|0.042	0.042	strong	.	UBE3A	109	.	NM_000462	exon7	c.A486T	p.A162A	TACCAATGCCTCA	.	PASS	Atlas-SNP
FAM178B	51252	hgsc.bcm.edu	37	2	97543701	97543701	+	Missense_Mutation	SNP	G	G	A	rs34013660	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	44.0	120.0	0.0	0.52381	0	G|0.979;A|0.021	0.021	strong	FAM178B_ENST00000417561,colon,carcinoma,+1,2	FAM178B	35	2	NM_001122646	exon16	c.C1933T	p.R645C	TGGTGCGGTGCAT	.	PASS	Atlas-SNP
C16orf58	64755	hgsc.bcm.edu	37	16	31505252	31505252	+	Silent	SNP	C	C	T	rs34231527	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	63.0	78.0	0.0	0.508065	0	C|0.991;T|0.009	0.009	strong	.	C16orf58	28	.	NM_022744	exon7	c.C708A	p.S236S	CACCAGCGTCTCC	.	PASS	Atlas-SNP
CMPK2	129607	hgsc.bcm.edu	37	2	7005236	7005236	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	12.0	6.0	6.0	0.0	0.5	0	.	.	none	.	CMPK2	30	.	NM_001256478	exon1	c.C592A	p.P198T	GCGGGGGCTCCGG	.	PASS	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	37	12	25673001	25673001	+	Silent	SNP	C	C	G	rs76419032	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	65.0	108.0	0.0	0.580357	0	C|0.981;G|0.019	0.019	strong	.	IFLTD1	121	.	NM_001145728	exon7	c.G807C	p.A269A	GTACCACGCAATG	.	PASS	Atlas-SNP
ARFGAP3	26286	hgsc.bcm.edu	37	22	43195134	43195134	+	Missense_Mutation	SNP	C	C	T	rs36003980	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	43.0	65.0	0.0	0.565789	0	C|0.983;T|0.017	0.017	strong	.	ARFGAP3	48	.	NM_014570	exon15	c.G1444A	p.A482T	CGGGGGCGTTGGG	.	PASS	Atlas-SNP
HIST1H2BE	8344	hgsc.bcm.edu	37	6	26184082	26184082	+	Missense_Mutation	SNP	C	C	G	rs61978632	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	105.0	225.0	0.0	0.492958	0	C|0.965;G|0.035	0.035	strong	.	HIST1H2BE	10	.	NM_003523	exon1	c.C59G	p.T20S	CCGTGACCAAGGC	.	PASS	Atlas-SNP
TNR	7143	hgsc.bcm.edu	37	1	175306758	175306758	+	Missense_Mutation	SNP	G	G	A	rs61731114	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	71.0	143.0	0.0	0.541985	0	G|0.989;A|0.011	0.011	strong	.	TNR	399	.	NM_003285	exon19	c.C3440T	p.T1147I	CTCAAAGTGTCTC	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102469273	102469273	+	Silent	SNP	T	T	C	rs75094258	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	32.0	92.0	0.0	0.405063	0	T|0.994;C|0.006	0.006	strong	.	DYNC1H1	395	.	NM_001376	exon23	c.T4854C	p.Y1618Y	AGAATATCTGGAA	.	PASS	Atlas-SNP
ABTB2	25841	hgsc.bcm.edu	37	11	34226140	34226140	+	Silent	SNP	G	G	T	rs77165558	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	17.0	45.0	0.0	0.515152	0	G|0.972;T|0.028	0.028	strong	ABTB2,NS,carcinoma,-2,1	ABTB2	101	1	NM_145804	exon2	c.C981A	p.T327T	CTCCAGGGTTCGG	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21030956	21030956	+	Missense_Mutation	SNP	G	G	T	rs56750936	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	121.0	107.0	0.0	0.960317	0	G|0.968;T|0.032	0.032	strong	.	KIF17	130	.	NM_001122819	exon5	c.C1107A	p.S369R	GCTGGGGCTCATC	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79396610	79396610	+	Silent	SNP	G	G	A	rs79849142	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	220.0	110.0	220.0	1.0	0.5	0.00454545	G|0.984;A|0.016	0.016	strong	.	FRAS1	779	.	NM_025074	exon54	c.G7701A	p.K2567K	TGAGAAGGCAGGG	.	PASS	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	37	5	140222430	140222430	+	Missense_Mutation	SNP	T	T	G	rs6873763	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	287.0	156.0	303.0	0.0	0.543554	0	T|0.933;G|0.067	0.067	strong	.	PCDHA8	366	.	NM_031856	exon1	c.T1524G	p.I508M	CTACATTTCGGTG	.	PASS	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	37	15	45392382	45392382	+	Missense_Mutation	SNP	T	T	C	rs79393107	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	31.0	95.0	0.0	0.392405	0	T|0.960;C|0.040	0.040	strong	.	DUOX2	137	.	NM_014080	exon24	c.A3050G	p.E1017G	ATCTTCTCTTGCA	.	PASS	Atlas-SNP
ESX1	80712	hgsc.bcm.edu	37	X	103495007	103495007	+	Missense_Mutation	SNP	G	G	C	rs78191648	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	29.0	53.0	0.0	0.54717	0	G|0.948;C|0.052	0.052	strong	.	ESX1	57	.	NM_153448	exon4	c.C1123G	p.L375V	GTGGCAGAGGCGC	.	PASS	Atlas-SNP
CYP1B1	1545	hgsc.bcm.edu	37	2	38301803	38301803	+	Silent	SNP	C	C	G	rs9341249	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	148.0	107.0	0.0	1	0	C|0.934;G|0.066	0.066	strong	.	CYP1B1	39	.	NM_000104	exon2	c.G729C	p.V243V	GGGCATCACGTCC	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4511913	4511913	+	Missense_Mutation	SNP	C	C	T	rs199927982	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	359.0	137.0	323.0	0.0	0.381616	0	C|0.988;T|0.012	0.012	strong	.	PLIN4	191	.	NM_001080400	exon3	c.G2017A	p.D673N	CCGTGTCTACACC	.	PASS	Atlas-SNP
CBX2	84733	hgsc.bcm.edu	37	17	77755894	77755894	+	Missense_Mutation	SNP	C	C	G	rs9912676	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	42.0	92.0	0.0	0.362069	0	C|0.976;G|0.024	0.024	strong	.	CBX2	50	.	NM_032647	exon4	c.C582G	p.F194L	ACTCTTCCCTCCC	.	PASS	Atlas-SNP
SLC45A4	57210	hgsc.bcm.edu	37	8	142228386	142228386	+	Silent	SNP	C	C	T	rs61995881	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	28.0	32.0	0.0	0.608696	0	C|0.986;T|0.014	0.014	strong	.	SLC45A4	71	.	NM_001080431	exon4	c.G1200A	p.P400P	GCGCGACGGCTTG	.	PASS	Atlas-SNP
POMT2	29954	hgsc.bcm.edu	37	14	77786864	77786864	+	Missense_Mutation	SNP	G	G	T	rs8177536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	27.0	32.0	0.0	0.658537	0	G|0.920;T|0.080	0.080	strong	.	POMT2	47	.	NM_013382	exon1	c.C161A	p.A54E	CCGACCGCCTCGA	.	PASS	Atlas-SNP
FGFR3	2261	hgsc.bcm.edu	37	4	1803704	1803704	+	Silent	SNP	T	T	C	rs2234909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	50.0	112.0	0.0	0.515464	0	T|0.799;C|0.201	0.201	strong	FGFR3_ENST00000340107,caecum,carcinoma,+2,11	FGFR3	3320	11	NM_001163213	exon7	c.T882C	p.N294N	GGTGAATGGCAGC	.	PASS	Atlas-SNP
KRTAP13-3	337960	hgsc.bcm.edu	37	21	31797919	31797919	+	Silent	SNP	G	G	A	rs73356706	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	47.0	132.0	0.0	0.439252	0	G|0.975;A|0.025	0.025	strong	.	KRTAP13-3	47	.	NM_181622	exon1	c.C312T	p.S104S	GCTATTGGATCCA	.	PASS	Atlas-SNP
CCDC134	79879	hgsc.bcm.edu	37	22	42209767	42209767	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	45.0	99.0	0.0	0.46875	0	.	.	none	.	CCDC134	19	.	NM_024821	exon6	c.C505T	p.L169L	CAGGAGCTGGGGA	.	PASS	Atlas-SNP
GFAP	2670	hgsc.bcm.edu	37	17	42985453	42985453	+	Silent	SNP	G	G	T	rs146298944	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	70.0	155.0	0.0	0.469799	0	G|0.999;T|0.001	0.001	strong	GFAP,colon,carcinoma,0,1	GFAP	88	1	NM_002055	exon8	c.C1236A	p.T412T	CTCCACGGTCTTC	.	PASS	Atlas-SNP
PCDHA3	56145	hgsc.bcm.edu	37	5	140180964	140180964	+	Missense_Mutation	SNP	C	C	A	rs7731327	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	32.0	75.0	0.0	0.380952	0	C|0.949;A|0.051	0.051	strong	PCDHA3_ENST00000522353,NS,carcinoma,-1,2	PCDHA3	396	2	NM_031497	exon1	c.C182A	p.P61Q	TGGTGCCGCGCCT	.	PASS	Atlas-SNP
NOL7	51406	hgsc.bcm.edu	37	6	13615767	13615767	+	Silent	SNP	T	T	C	rs75029999	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	32.0	48.0	0.0	0.477612	0	T|0.994;C|0.006	0.006	strong	.	NOL7	18	.	NM_016167	exon1	c.T177C	p.F59F	TGAGTTTGACGAT	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12414314	12414314	+	Splice_Site	SNP	C	C	G	rs138469050	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	81.0	178.0	0.0	0.473684	0	C|0.994;G|0.006	0.006	strong	.	VWDE	123	.	NM_001135924	exon10	c.1316+1G>C	.	AAATTACCTGCCA	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24256512	24256512	+	Silent	SNP	T	T	C	rs7005258	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	56.0	114.0	0.0	0.421053	0	T|0.977;C|0.023	0.023	strong	.	ADAMDEC1	69	.	NM_014479	exon9	c.T888C	p.S296S	CAGTTCTAACCTG	.	PASS	Atlas-SNP
GAS2L3	283431	hgsc.bcm.edu	37	12	101018061	101018061	+	Missense_Mutation	SNP	C	C	T	rs61748063	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	30.0	40.0	0.0	0.526316	0	C|0.995;T|0.005	0.005	strong	.	GAS2L3	76	.	NM_174942	exon10	c.C1478T	p.S493L	CACATTCAAATTC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228461055	228461055	+	Silent	SNP	T	T	C	rs113996842	byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	290.0	140.0	283.0	0.0	0.482759	0	T|0.997;C|0.003	0.003	strong	.	OBSCN	2142	.	NM_001271223	exon21	c.T6069C	p.C2023C	GAGCTGTGAGGTG	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46656562	46656562	+	Silent	SNP	A	A	G	rs7287371	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	74.0	142.0	0.0	0.532374	0	A|0.942;G|0.058	0.058	strong	.	PKDREJ	195	.	NM_006071	exon1	c.T2658C	p.Y886Y	TGTTGGATAAAAA	.	PASS	Atlas-SNP
TAF1	6872	hgsc.bcm.edu	37	X	70586196	70586196	+	Missense_Mutation	SNP	C	C	T	rs139510844	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	351.0	183.0	303.0	1.0	0.521368	0.00330033	C|0.989;T|0.011	0.011	strong	.	TAF1	439	.	NM_004606	exon1	c.C32T	p.T11I	TGCGGACAGCAGC	.	PASS	Atlas-SNP
MASP2	10747	hgsc.bcm.edu	37	1	11087687	11087687	+	Missense_Mutation	SNP	C	C	T	rs12085877	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	44.0	104.0	0.0	0.44	0	C|0.971;T|0.029	0.029	strong	MASP2,NS,carcinoma,-1,1	MASP2	71	1	NM_006610	exon11	c.G1316A	p.R439H	GTTGTGCGGGCTG	.	PASS	Atlas-SNP
TMEM82	388595	hgsc.bcm.edu	37	1	16069664	16069664	+	Missense_Mutation	SNP	T	T	C	rs61740067	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	29.0	67.0	0.0	0.3625	0	T|0.982;C|0.018	0.018	strong	.	TMEM82	30	.	NM_001013641	exon3	c.T311C	p.V104A	GGGCCGTGTCCAC	.	PASS	Atlas-SNP
ZNF286B	729288	hgsc.bcm.edu	37	17	18566422	18566422	+	Missense_Mutation	SNP	C	C	T	rs146829975	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	381.0	149.0	416.0	0.0	0.391076	0	C|0.975;T|0.025	0.025	strong	.	ZNF286B	75	.	NM_001145045	exon5	c.G397A	p.E133K	ATGATTCTGCTTT	.	PASS	Atlas-SNP
MYBL2	4605	hgsc.bcm.edu	37	20	42310449	42310449	+	Missense_Mutation	SNP	G	G	A	rs150704861	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	49.0	135.0	0.0	0.401639	0	G|0.998;A|0.002	0.002	strong	.	MYBL2	82	.	NM_002466	exon3	c.G140A	p.R47K	TGGTGAGGCAGTT	.	PASS	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735091	55735091	+	Silent	SNP	C	C	T	rs12292026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	55.0	115.0	0.0	0.518868	0	C|0.974;T|0.026	0.026	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.G849A	p.L283L	GTTCCTCAGGGTA	.	PASS	Atlas-SNP
ST7L	54879	hgsc.bcm.edu	37	1	113068651	113068651	+	Missense_Mutation	SNP	C	C	T	rs12069022	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	38.0	61.0	0.0	0.520548	0	C|0.963;T|0.037	0.037	strong	.	ST7L	31	.	NM_017744	exon15	c.G1712A	p.G571D	CTCAAACCTAGGT	.	PASS	Atlas-SNP
OSBPL6	114880	hgsc.bcm.edu	37	2	179226431	179226431	+	Silent	SNP	A	A	G	rs145291582	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	289.0	144.0	290.0	0.0	0.49827	0	A|0.995;G|0.005	0.005	strong	OSBPL6,NS,carcinoma,+1,1	OSBPL6	178	1	NM_001201480	exon14	c.A1251G	p.A417A	GTCTGCATTTAAT	.	PASS	Atlas-SNP
CD33	945	hgsc.bcm.edu	37	19	51742839	51742839	+	Missense_Mutation	SNP	A	A	G	rs35632246	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	116.0	57.0	133.0	0.0	0.491379	0	A|0.986;G|0.014	0.014	strong	.	CD33	55	.	NM_001772	exon7	c.A991G	p.T331A	GCCCCTACTGTGG	.	PASS	Atlas-SNP
EPS8	2059	hgsc.bcm.edu	37	12	15776095	15776095	+	Silent	SNP	C	C	T	rs1126786	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	76.0	148.0	0.0	0.481013	0	T|0.130;G|0.153;C|0.674;A|0.042	0.130	strong	.	EPS8	70	.	NM_004447	exon20	c.G2352A	p.L784L	TACCTCCAATGCA	.	PASS	Atlas-SNP
TRAF2	7186	hgsc.bcm.edu	37	9	139814931	139814931	+	Silent	SNP	G	G	T	rs17244166	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	29.0	61.0	0.0	0.376623	0	G|0.989;T|0.011	0.011	strong	.	TRAF2	46	.	NM_021138	exon8	c.G924T	p.R308R	GCACCGGCTGGAC	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10464474	10464474	+	Silent	SNP	G	G	T	rs113172380	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	46.0	56.0	0.0	0.676471	0	G|0.996;T|0.004	0.004	strong	RP1L1,NS,carcinoma,-2,1	RP1L1	453	1	NM_178857	exon4	c.C7134A	p.L2378L	ACTTCCGAGTGCC	.	PASS	Atlas-SNP
LCN15	389812	hgsc.bcm.edu	37	9	139657900	139657900	+	Silent	SNP	C	C	G	rs11145872	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	32.0	20.0	36.0	0.0	0.625	0	C|0.994;G|0.006	0.006	strong	.	LCN15	11	.	NM_203347	exon4	c.G327C	p.V109V	GATGCGCACGTCC	.	PASS	Atlas-SNP
OR13C5	138799	hgsc.bcm.edu	37	9	107361009	107361009	+	Missense_Mutation	SNP	C	C	G	rs73508187	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	132.0	183.0	0.0	0.628571	0	C|0.990;G|0.010	0.010	strong	.	OR13C5	60	.	NM_001004482	exon1	c.G686C	p.S229T	GAAGAGCTAATTT	.	PASS	Atlas-SNP
AQP2	359	hgsc.bcm.edu	37	12	50344958	50344958	+	Silent	SNP	C	C	T	rs60629501	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	43.0	69.0	0.0	0.518072	0	C|0.988;T|0.012	0.012	strong	.	AQP2	34	.	NM_000486	exon1	c.C345T	p.D115D	CGGGGACCTGGCT	.	PASS	Atlas-SNP
RPL31	6160	hgsc.bcm.edu	37	2	101619211	101619211	+	Silent	SNP	C	C	T	rs141007382	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	114.0	183.0	0.0	0.520548	0	C|0.999;T|0.001	0.001	strong	.	RPL31	12	.	NM_001098577	exon2	c.C48T	p.A16A	TTCTGCCATCAAC	.	PASS	Atlas-SNP
MOK	5891	hgsc.bcm.edu	37	14	102700028	102700028	+	Missense_Mutation	SNP	T	T	C	rs34965156	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	225.0	113.0	216.0	0.0	0.502222	0	T|0.940;C|0.060	0.060	strong	.	.	.	.	NM_014226	exon8	c.A689G	p.K230R	TACTGTTTGAACT	.	PASS	Atlas-SNP
FHL2	2274	hgsc.bcm.edu	37	2	106002854	106002854	+	Silent	SNP	G	G	A	rs11537578	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	72.0	116.0	0.0	0.521739	0	G|0.989;A|0.011	0.011	strong	.	FHL2	18	.	NM_001039492	exon3	c.C120T	p.C40C	CTCCTCGCAGGTG	.	PASS	Atlas-SNP
AK8	158067	hgsc.bcm.edu	37	9	135601126	135601126	+	Silent	SNP	G	G	A	rs28477720	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	89.0	127.0	0.0	0.760684	0	G|0.966;A|0.034	0.034	strong	.	AK8	45	.	NM_152572	exon13	c.C1389T	p.F463F	GTATTCGAAGACT	.	PASS	Atlas-SNP
MIP	4284	hgsc.bcm.edu	37	12	56847384	56847384	+	Silent	SNP	G	G	A	rs36032520	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	40.0	85.0	0.0	0.47619	0	G|0.998;A|0.002	0.002	strong	.	MIP	39	.	NM_012064	exon2	c.C516T	p.H172H	AAAGAGGTGCCCC	.	PASS	Atlas-SNP
ARNTL2	56938	hgsc.bcm.edu	37	12	27543141	27543141	+	Missense_Mutation	SNP	G	G	C	rs74988383	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	43.0	100.0	0.0	0.518072	0	G|0.991;C|0.009	0.009	strong	.	ARNTL2	54	.	NM_020183	exon9	c.G888C	p.E296D	AGAAGAGCATGGA	.	PASS	Atlas-SNP
CAPZA1	829	hgsc.bcm.edu	37	1	113202386	113202386	+	Silent	SNP	C	C	T	rs12074157	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	35.0	77.0	0.0	0.406977	0	C|0.968;T|0.032	0.032	strong	CAPZA1,colon,carcinoma,0,1	CAPZA1	16	1	NM_006135	exon7	c.C570T	p.G190G	GGTTGGCGTGCTT	.	PASS	Atlas-SNP
WWOX	51741	hgsc.bcm.edu	37	16	78458807	78458807	+	Missense_Mutation	SNP	C	C	G	rs7201683	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	196.0	100.0	176.0	0.0	0.510204	0	C|0.956;G|0.044	0.044	strong	.	WWOX	98	.	NM_016373	exon7	c.C646G	p.L216V	TTTGCTCTACCCT	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74524757	74524757	+	Silent	SNP	T	T	G	rs58562849	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	33.0	73.0	0.0	0.589286	0	T|0.971;G|0.029	0.029	strong	.	CD109	170	.	NM_133493	exon30	c.T3822G	p.S1274S	AAGATCTATCCAA	.	PASS	Atlas-SNP
FHOD1	29109	hgsc.bcm.edu	37	16	67266065	67266065	+	Silent	SNP	T	T	C	rs34888644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	452.0	223.0	418.0	1.0	0.493363	0.00239234	T|0.919;C|0.081	0.081	strong	.	FHOD1	86	.	NM_013241	exon14	c.A2079G	p.T693T	CAGCACTGTGGTC	.	PASS	Atlas-SNP
RHBDD1	84236	hgsc.bcm.edu	37	2	227860232	227860232	+	Silent	SNP	C	C	T	rs61745917	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	95.0	179.0	0.0	0.505319	0	C|0.996;T|0.004	0.004	strong	.	RHBDD1	34	.	NM_001167608	exon9	c.C942T	p.S314S	CGATAGCCAGTGA	.	PASS	Atlas-SNP
C1orf112	55732	hgsc.bcm.edu	37	1	169796197	169796197	+	Missense_Mutation	SNP	T	T	C	rs142988055	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	125.0	242.0	0.0	0.516529	0	T|0.984;C|0.016	0.016	strong	.	C1orf112	74	.	NM_018186	exon11	c.T854C	p.F285S	GCAAGTTTCCTCC	.	PASS	Atlas-SNP
BCAR1	9564	hgsc.bcm.edu	37	16	75269730	75269730	+	Missense_Mutation	SNP	G	G	A	rs61729593	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	15.0	22.0	0.0	0.454545	0	G|0.991;A|0.009	0.009	strong	.	BCAR1	184	.	NM_001170714	exon6	c.C1205T	p.P402L	GCCGGCGGGGAGT	.	PASS	Atlas-SNP
OR10H4	126541	hgsc.bcm.edu	37	19	16060453	16060453	+	Silent	SNP	T	T	C	rs115548355	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	390.0	196.0	389.0	1.0	0.502564	0.00257069	T|0.988;C|0.012	0.012	strong	.	OR10H4	48	.	NM_001004465	exon1	c.T636C	p.C212C	AGGCTGTTTATTC	.	PASS	Atlas-SNP
ZNF254	9534	hgsc.bcm.edu	37	19	24310074	24310074	+	Silent	SNP	T	T	C	rs61737179	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	28.0	59.0	0.0	0.411765	0	T|0.979;C|0.021	0.021	strong	.	ZNF254	88	.	NM_203282	exon4	c.T1272C	p.H424H	TACACATAAGATA	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324190	39324190	+	Missense_Mutation	SNP	A	A	G	rs377224840		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	73.0	392.0	1.0	0.439759	0.00255102	.	.	weak	.	KRTAP4-3	40	.	NM_033187	exon1	c.T235C	p.C79R	TGCAGCAACTGGA	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12443312	12443312	+	Missense_Mutation	SNP	C	C	T	rs139879021	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	28.0	14.0	14.0	0.0	0.5	0	C|0.996;T|0.004	0.004	strong	.	VWDE	123	.	NM_001135924	exon1	c.G31A	p.A11T	TCAGCGCGATCAC	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32046832	32046832	+	Silent	SNP	C	C	T	rs61998180	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	71.0	86.0	0.0	0.518248	0	C|0.987;T|0.013	0.013	weak	TNXB_ENST00000375247,NS,carcinoma,0,1	TNXB	553	1	NM_019105	exon11	c.G4353A	p.P1451P	GGACACCGGGCCC	.	PASS	Atlas-SNP
INTS3	65123	hgsc.bcm.edu	37	1	153740285	153740285	+	Silent	SNP	G	G	A	rs61736048	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	38.0	74.0	0.0	0.5	0	G|0.983;A|0.017	0.017	strong	.	INTS3	83	.	NM_023015	exon21	c.G2226A	p.T742T	CCTCACGCCCTCC	.	PASS	Atlas-SNP
PTRF	284119	hgsc.bcm.edu	37	17	40556951	40556951	+	Silent	SNP	C	C	T	rs112332573	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	92.0	135.0	0.0	0.534884	0	C|0.981;T|0.019	0.019	strong	.	PTRF	48	.	NM_012232	exon2	c.G927A	p.A309A	GGAGCGCGCGTAC	.	PASS	Atlas-SNP
TTC16	158248	hgsc.bcm.edu	37	9	130485476	130485476	+	Missense_Mutation	SNP	A	A	C	rs115363266	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	62.0	118.0	0.0	0.62	0	A|0.962;C|0.038	0.038	strong	.	TTC16	55	.	NM_144965	exon7	c.A736C	p.K246Q	CTCCAGAAGATGG	.	PASS	Atlas-SNP
TAS1R3	83756	hgsc.bcm.edu	37	1	1269488	1269488	+	Missense_Mutation	SNP	G	G	A	rs112507608	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	29.0	71.0	0.0	0.47541	0	G|0.933;A|0.067	0.067	strong	.	TAS1R3	39	.	NM_152228	exon6	c.G2203A	p.A735T	GCGCACGCCACCA	.	PASS	Atlas-SNP
PABPC1	26986	hgsc.bcm.edu	37	8	101721705	101721705	+	Missense_Mutation	SNP	G	G	T	rs201017624	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	264.0	48.0	200.0	0.0	0.181818	0	G|0.944;T|0.057	0.057	strong	.	PABPC1	76	.	NM_002568	exon8	c.C1227A	p.F409L	TGCCATGAAGTAA	.	PASS	Atlas-SNP
RFX4	5992	hgsc.bcm.edu	37	12	107114548	107114548	+	Silent	SNP	G	G	A	rs73391388	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	66.0	165.0	0.0	0.423077	0	G|0.988;A|0.012	0.012	strong	.	RFX4	218	.	NM_001206691	exon13	c.G1272A	p.K424K	TGCCAAGAGACAA	.	PASS	Atlas-SNP
SUPV3L1	6832	hgsc.bcm.edu	37	10	70940052	70940052	+	Missense_Mutation	SNP	C	C	T	rs33998366	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	24.0	52.0	0.0	0.461538	0	C|0.961;T|0.039	0.039	strong	.	SUPV3L1	61	.	NM_003171	exon1	c.C5T	p.S2F	CGATGTCCTTCTC	.	PASS	Atlas-SNP
BAIAP3	8938	hgsc.bcm.edu	37	16	1391419	1391419	+	Silent	SNP	T	T	C	rs73485660	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	65.0	124.0	0.0	0.515873	0	T|0.989;C|0.011	0.011	strong	.	BAIAP3	88	.	NM_003933	exon8	c.T765C	p.P255P	CCTGCCTGCCAAG	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	10792	10792	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	9.0	9.0	6.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.A33G	p.L11L	TATATTACTACCA	.	PASS	Atlas-SNP
KCNK15	60598	hgsc.bcm.edu	37	20	43374694	43374694	+	Missense_Mutation	SNP	T	T	C	rs144556326	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	15.0	41.0	0.0	0.405405	0	T|0.981;C|0.019	0.019	strong	.	KCNK15	19	.	NM_022358	exon1	c.T143C	p.L48P	GCGCTCTCCGGAG	.	PASS	Atlas-SNP
ZNF286B	729288	hgsc.bcm.edu	37	17	18565915	18565915	+	Missense_Mutation	SNP	G	G	A	rs73291461	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	299.0	130.0	330.0	0.0	0.434783	0	G|0.943;A|0.057	0.057	strong	.	ZNF286B	75	.	NM_001145045	exon5	c.C904T	p.R302C	ATTCACGGCATTC	.	PASS	Atlas-SNP
UBXN6	80700	hgsc.bcm.edu	37	19	4446164	4446164	+	Missense_Mutation	SNP	G	G	A	rs34179017	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	50.0	97.0	0.0	0.490196	0	G|0.992;A|0.008	0.008	strong	.	UBXN6	27	.	NM_025241	exon10	c.C1082T	p.A361V	TACACCGCCCCCA	.	PASS	Atlas-SNP
OR51F1	256892	hgsc.bcm.edu	37	11	4791012	4791012	+	Missense_Mutation	SNP	C	C	T	rs146706676	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	34.0	80.0	0.0	0.453333	0	C|0.999;T|0.001	0.001	strong	.	OR51F1	60	.	NM_001004752	exon1	c.G136A	p.V46M	GGATCACGCTGTT	.	PASS	Atlas-SNP
KIRREL2	84063	hgsc.bcm.edu	37	19	36349721	36349721	+	Silent	SNP	G	G	A	rs57079408	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	104.0	246.0	1.0	0.483721	0.00406504	G|0.994;A|0.006	0.006	strong	.	KIRREL2	170	.	NM_199180	exon4	c.G477A	p.L159L	ATTGCTGTGGTTC	.	PASS	Atlas-SNP
MBOAT2	129642	hgsc.bcm.edu	37	2	9013424	9013424	+	Missense_Mutation	SNP	C	C	T	rs34573615	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	61.0	97.0	0.0	0.642105	0	C|0.994;T|0.006	0.006	strong	.	MBOAT2	36	.	NM_138799	exon8	c.G697A	p.V233I	GAACAACCGCAGT	.	PASS	Atlas-SNP
SMARCA2	6595	hgsc.bcm.edu	37	9	2029196	2029196	+	Silent	SNP	G	G	A	rs10964470	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	56.0	91.0	0.0	0.504505	0	G|0.950;A|0.050	0.050	strong	.	SMARCA2	313	.	NM_139045	exon2	c.G174A	p.P58P	TATGCCGACGATG	.	PASS	Atlas-SNP
IRF4	3662	hgsc.bcm.edu	37	6	393330	393330	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	31.0	69.0	0.0	0.413333	0	.	.	none	IRF4_ENST00000380956,NS,lymphoid_neoplasm,-2,2	IRF4	65	2	NM_001195286	exon2	c.C178A	p.Q60K	GGCAAGCAGGACT	.	PASS	Atlas-SNP
ACOT1	641371	hgsc.bcm.edu	37	14	74008304	74008304	+	Missense_Mutation	SNP	G	G	A	rs146335256	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	258.0	257.0	241.0	0.0	0.996124	0	G|0.989;A|0.011	0.011	strong	.	ACOT1	12	.	NM_001037161	exon2	c.G565A	p.A189T	GCTCTGGCTTACT	.	PASS	Atlas-SNP
SIGLEC9	27180	hgsc.bcm.edu	37	19	51628622	51628622	+	Missense_Mutation	SNP	A	A	C	rs16988910	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	28.0	60.0	0.0	0.518519	0	A|0.895;C|0.105	0.105	strong	.	SIGLEC9	85	.	NM_001198558	exon1	c.A391C	p.K131Q	AATTATAAACATC	.	PASS	Atlas-SNP
RSBN1L	222194	hgsc.bcm.edu	37	7	77325919	77325919	+	Missense_Mutation	SNP	G	G	A	rs79095281	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	39.0	60.0	0.0	0.58209	0	G|0.973;A|0.027	0.027	strong	.	RSBN1L	74	.	NM_198467	exon1	c.G133A	p.V45I	AAGAAGGTCCGGA	.	PASS	Atlas-SNP
LRPPRC	10128	hgsc.bcm.edu	37	2	44172496	44172496	+	Silent	SNP	T	T	C	rs145963884	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	54.0	96.0	0.0	0.415385	0	T|0.999;C|0.001	0.001	strong	.	LRPPRC	105	.	NM_133259	exon22	c.A2271G	p.V757V	TGCCAATACTCTT	.	PASS	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	37	19	12805525	12805525	+	Silent	SNP	G	G	C	rs10416965	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	41.0	70.0	0.0	0.5	0	G|0.921;C|0.079	0.079	strong	.	FBXW9	30	.	NM_032301	exon3	c.C561G	p.L187L	CAGACAGAGTGAC	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	37	8	2050564	2050564	+	Silent	SNP	G	G	A	rs34460811	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	21.0	53.0	0.0	0.396226	0	G|0.991;A|0.009	0.009	strong	.	MYOM2	251	.	NM_003970	exon21	c.G2727A	p.A909A	AGAGGCGAGACCA	.	PASS	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	37	8	24184088	24184088	+	Silent	SNP	G	G	T	rs113950884	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	106.0	217.0	0.0	0.490741	0	G|0.998;T|0.002	0.002	strong	.	ADAM28	100	.	NM_014265	exon10	c.G912T	p.T304T	TGGAACGACTGTG	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1255206	1255206	+	Silent	SNP	C	C	T	rs28365123	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	38.0	67.0	0.0	0.584615	0	C|0.953;T|0.047	0.047	strong	.	CACNA1H	317	.	NM_021098	exon11	c.C2544T	p.G848G	CTGCGGCCCTCTG	.	PASS	Atlas-SNP
EPHA7	2045	hgsc.bcm.edu	37	6	93982100	93982100	+	Silent	SNP	C	C	T	rs34302170	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	92.0	224.0	0.0	0.528736	0	C|0.963;T|0.037	0.037	strong	.	EPHA7	251	.	NM_004440	exon6	c.G1365A	p.L455L	CCGCTGCAGTACT	.	PASS	Atlas-SNP
TREML1	340205	hgsc.bcm.edu	37	6	41117586	41117586	+	Missense_Mutation	SNP	T	T	G	rs34254490	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	77.0	138.0	0.0	0.52027	0	T|0.975;G|0.025	0.025	strong	.	TREML1	20	.	NM_178174	exon6	c.A692C	p.H231P	CTAATGTGTGGTA	.	PASS	Atlas-SNP
CCT8L2	150160	hgsc.bcm.edu	37	22	17071899	17071899	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	173.0	94.0	148.0	0.0	0.543353	0	.	.	none	CCT8L2,NS,carcinoma,-2,2	CCT8L2	150	2	NM_014406	exon1	c.C1542T	p.L514L	AGTCACGAGCTGT	.	PASS	Atlas-SNP
ZNF354C	30832	hgsc.bcm.edu	37	5	178505831	178505831	+	Missense_Mutation	SNP	A	A	G	rs57271258	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	99.0	187.0	0.0	0.553073	0	A|0.974;G|0.026	0.026	strong	ZNF354C,caecum,carcinoma,0,1	ZNF354C	77	1	NM_014594	exon5	c.A398G	p.E133G	AGAGCGAGATAGA	.	PASS	Atlas-SNP
ZNF444	55311	hgsc.bcm.edu	37	19	56671359	56671359	+	Missense_Mutation	SNP	C	C	G	rs145075834	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	6.0	6.0	21.0	0.0	1	0	C|0.987;G|0.013	0.013	strong	.	ZNF444	15	.	NM_018337	exon5	c.C773G	p.T258S	GCAAGACCTTCTA	.	PASS	Atlas-SNP
C16orf88	400506	hgsc.bcm.edu	37	16	19726124	19726124	+	Silent	SNP	G	G	A	rs58543897	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	54.0	91.0	0.0	0.504673	0	G|0.972;A|0.028	0.028	strong	.	C16orf88	41	.	NM_001012991	exon2	c.C234T	p.C78C	CTCCTCGCAAAGG	.	PASS	Atlas-SNP
TDP1	55775	hgsc.bcm.edu	37	14	90429858	90429858	+	Missense_Mutation	SNP	G	G	A	rs28365054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	54.0	80.0	0.0	0.545455	0	G|0.892;A|0.108	0.108	strong	.	TDP1	47	.	NM_018319	exon3	c.G400A	p.A134T	GCTCCCGCCTGCC	.	PASS	Atlas-SNP
HOXD9	3235	hgsc.bcm.edu	37	2	176988765	176988765	+	Silent	SNP	C	C	T	rs35649704	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	170.0	86.0	162.0	0.0	0.505882	0	C|0.987;T|0.013	0.013	strong	.	HOXD9	49	.	NM_014213	exon2	c.C921T	p.N307N	CTTCAACATGTAC	.	PASS	Atlas-SNP
CR1L	1379	hgsc.bcm.edu	37	1	207890818	207890818	+	Missense_Mutation	SNP	G	G	A	rs113806677	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	210.0	112.0	262.0	0.0	0.533333	0	G|0.976;A|0.024	0.024	strong	CR1L_ENST00000508064,NS,carcinoma,-1,1	CR1L	97	1	NM_175710	exon11	c.G1424A	p.C475Y	TCTTTTGTCCAAA	.	PASS	Atlas-SNP
C1orf168	199920	hgsc.bcm.edu	37	1	57186000	57186000	+	Silent	SNP	G	G	A	rs76493848	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	41.0	103.0	0.0	0.476744	0	G|0.987;A|0.013	0.013	strong	.	C1orf168	102	.	NM_001004303	exon18	c.C1977T	p.Y659Y	TTTGTCGTACTGA	.	PASS	Atlas-SNP
SRP68	6730	hgsc.bcm.edu	37	17	74060168	74060168	+	Silent	SNP	T	T	C	rs58471646	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	273.0	115.0	222.0	1.0	0.421245	0.0045045	T|0.925;C|0.075	0.075	strong	SRP68,rectum,carcinoma,-1,1	SRP68	61	1	NM_014230	exon4	c.A450G	p.R150R	CCGTTTTCGGGGT	.	scavenged	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1079968	1079968	+	Silent	SNP	G	G	A	rs34047143	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	42.0	78.0	0.0	0.5	0	G|0.962;A|0.038	0.038	strong	.	HMHA1	78	.	NM_001258328	exon13	c.G1602A	p.A534A	GACGGCGCCGCTG	.	PASS	Atlas-SNP
GNMT	27232	hgsc.bcm.edu	37	6	42930877	42930877	+	Silent	SNP	G	G	A	rs147291064	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	39.0	65.0	0.0	0.47561	0	G|0.993;A|0.007	0.007	strong	.	GNMT	13	.	NM_018960	exon4	c.G519A	p.L173L	CCTACTGGTCATT	.	PASS	Atlas-SNP
LPP	4026	hgsc.bcm.edu	37	3	188327555	188327555	+	Missense_Mutation	SNP	T	T	C	rs7645635	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	52.0	116.0	0.0	0.468468	0	T|0.786;C|0.214	0.214	strong	.	LPP	72	.	NM_005578	exon6	c.T1036C	p.Y346H	GGGATGTATCCAG	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128378009	128378009	+	Missense_Mutation	SNP	G	G	A	rs199900811	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	236.0	120.0	205.0	0.0	0.508475	0	G|0.997;A|0.003	0.003	strong	.	MYO7B	359	.	NM_001080527	exon26	c.G3415A	p.G1139S	TGCCTCGGCTGCT	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158623092	158623092	+	Missense_Mutation	SNP	T	T	A	rs145054175	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	62.0	137.0	2.0	0.5	0.0145985	T|0.996;A|0.004	0.004	strong	SPTA1,NS,carcinoma,+1,1	SPTA1	720	1	NM_003126	exon22	c.A3160T	p.T1054S	GCTGGGTGATGTT	.	scavenged	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	37	19	51994926	51994926	+	Missense_Mutation	SNP	T	T	C	rs7245807	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	71.0	113.0	0.0	0.572581	0	T|0.956;C|0.044	0.044	strong	.	SIGLEC12	243	.	NM_053003	exon8	c.A1757G	p.Y586C	TACTCATAGCCGA	.	PASS	Atlas-SNP
PTGFR	5737	hgsc.bcm.edu	37	1	78959081	78959081	+	Missense_Mutation	SNP	T	T	C	rs115994459	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	61.0	126.0	0.0	0.429577	0	T|0.995;C|0.005	0.005	strong	.	PTGFR	121	.	NM_000959	exon2	c.T653C	p.L218S	CATTGTTGTGCAA	.	PASS	Atlas-SNP
CEMP1	752014	hgsc.bcm.edu	37	16	2580912	2580912	+	Missense_Mutation	SNP	T	T	C	rs13331643	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	85.0	79.0	0.0	1	0	T|0.955;C|0.045	0.045	strong	.	CEMP1	17	.	NM_001048212	exon1	c.A163G	p.K55E	ACCCCTTAGGAAG	.	PASS	Atlas-SNP
CGN	57530	hgsc.bcm.edu	37	1	151496718	151496718	+	Missense_Mutation	SNP	C	C	T	rs16833336	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	34.0	67.0	0.0	0.4	0	C|0.961;T|0.039	0.039	strong	CGN,colon,carcinoma,-1,2	CGN	106	2	NM_020770	exon7	c.C1285T	p.R429C	ATGAAGCGCCTCT	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74521948	74521948	+	Silent	SNP	G	G	T	rs61063525	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	84.0	187.0	0.0	0.435233	0	G|0.971;T|0.029	0.029	strong	.	CD109	170	.	NM_133493	exon29	c.G3723T	p.T1241T	GCCAACGGCAGTT	.	PASS	Atlas-SNP
OGT	8473	hgsc.bcm.edu	37	X	70777435	70777435	+	Silent	SNP	G	G	A	rs34739713	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	90.0	156.0	0.0	0.486486	0	G|0.947;A|0.053	0.053	strong	.	OGT	207	.	NM_181672	exon12	c.G1515A	p.V505V	TTCTGTGCATCCT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276603	152276603	+	Missense_Mutation	SNP	C	C	T	rs111939167		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	581.0	297.0	609.0	0.0	0.511188	0	T|1.000;|0.000	1.000	weak	FLG,NS,carcinoma,0,1	FLG	900	1	NM_002016	exon3	c.G10759A	p.G3587S	CGTGACCGGCTCT	.	PASS	Atlas-SNP
BRD4	23476	hgsc.bcm.edu	37	19	15355540	15355540	+	Missense_Mutation	SNP	G	G	A	rs149185763	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	71.0	107.0	0.0	0.5	0	A|0.001;G|0.999	0.001	strong	.	BRD4	172	.	NM_058243	exon12	c.C2192T	p.P731L	CTCCCGGGGTGCC	.	PASS	Atlas-SNP
CSMD2	114784	hgsc.bcm.edu	37	1	34174737	34174737	+	Silent	SNP	A	A	G	rs10914765	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	52.0	94.0	0.0	0.495238	0	A|0.972;G|0.028	0.028	strong	.	CSMD2	946	.	NM_052896	exon22	c.T3408C	p.I1136I	CAGCTGAATTCCC	.	PASS	Atlas-SNP
CYP2C8	1558	hgsc.bcm.edu	37	10	96818106	96818106	+	Missense_Mutation	SNP	T	T	A	rs11572103	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	73.0	138.0	0.0	0.536765	0	T|0.950;A|0.050	0.050	strong	.	CYP2C8	73	.	NM_000770	exon5	c.A805T	p.I269F	TTTTGATCAGGAA	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7231736	7231736	+	Missense_Mutation	SNP	G	G	T	rs116295722	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	58.0	104.0	0.0	0.527273	0	G|0.997;T|0.003	0.003	strong	.	RREB1	242	.	NM_001003700	exon10	c.G3404T	p.S1135I	CCAGCAGCCCAGA	.	PASS	Atlas-SNP
SCARB2	950	hgsc.bcm.edu	37	4	77102148	77102148	+	Missense_Mutation	SNP	G	G	C	rs143558324	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	61.0	33.0	61.0	0.0	0.540984	0	G|0.999;C|0.001	0.001	strong	.	SCARB2	47	.	NM_005506	exon3	c.C382G	p.P128A	TTTTAGGGTCTCC	.	PASS	Atlas-SNP
TCHHL1	126637	hgsc.bcm.edu	37	1	152060495	152060495	+	Missense_Mutation	SNP	C	C	T	rs76137589	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	51.0	127.0	0.0	0.425	0	C|0.985;T|0.015	0.015	strong	.	TCHHL1	132	.	NM_001008536	exon2	c.G125A	p.G42E	AAGTCCCCAAACT	.	PASS	Atlas-SNP
GPATCH4	54865	hgsc.bcm.edu	37	1	156565389	156565389	+	Silent	SNP	C	C	T	rs145851878	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	284.0	130.0	237.0	0.0	0.457746	0	C|0.988;T|0.012	0.012	strong	.	GPATCH4	34	.	NM_015590	exon8	c.G744A	p.K248K	CCTTTTCTTCTTC	.	PASS	Atlas-SNP
TRIB1	10221	hgsc.bcm.edu	37	8	126448674	126448674	+	Missense_Mutation	SNP	G	G	T	rs16900603	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	75.0	114.0	0.0	0.559702	0	G|0.974;T|0.026	0.026	strong	.	TRIB1	73	.	NM_025195	exon3	c.G1080T	p.E360D	TCCAGAGTACCAG	.	PASS	Atlas-SNP
NAPG	8774	hgsc.bcm.edu	37	18	10539774	10539774	+	Missense_Mutation	SNP	C	C	T	rs2228300	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	48.0	132.0	0.0	0.417391	0	C|0.965;T|0.035	0.035	strong	.	NAPG	18	.	NM_003826	exon6	c.C274T	p.P92S	AAACTACCAGAGG	.	PASS	Atlas-SNP
GPRASP2	114928	hgsc.bcm.edu	37	X	101970662	101970662	+	Missense_Mutation	SNP	A	A	G	rs113336462	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	64.0	130.0	0.0	0.407643	0	A|0.986;G|0.014	0.014	strong	.	GPRASP2	89	.	NM_138437	exon4	c.A865G	p.S289G	GAGGCCAGCAACC	.	PASS	Atlas-SNP
ADCY7	113	hgsc.bcm.edu	37	16	50344627	50344627	+	Silent	SNP	C	C	T	rs140505854		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	142.0	71.0	127.0	0.0	0.5	0	C|1.000;T|0.000	0.000	weak	.	ADCY7	90	.	NM_001114	exon18	c.C2190T	p.F730F	GGGCTTCATCGCC	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305775	39305775	+	Missense_Mutation	SNP	T	T	C	rs141265645	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	53.0	137.0	0.0	0.609195	0	.	.	weak	KRTAP4-5,NS,carcinoma,+1,1	KRTAP4-5	34	1	NM_033188	exon1	c.A245G	p.Q82R	GTGGTCTGGCAGC	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890066	55890066	+	Missense_Mutation	SNP	G	G	A	rs61732941		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	390.0	160.0	368.0	0.0	0.410256	0	G|0.986;A|0.014	0.014	weak	.	OR8H3	92	.	NM_001005201	exon1	c.G218A	p.S73N	ACCTCAGTTACTC	.	PASS	Atlas-SNP
JAK1	3716	hgsc.bcm.edu	37	1	65300305	65300305	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	78.0	142.0	0.0	0.46988	0	.	.	none	.	JAK1	209	.	NM_002227	exon25	c.A3405G	p.Q1135Q	GGATGGTTGGAAT	.	PASS	Atlas-SNP
ARHGAP23	57636	hgsc.bcm.edu	37	17	36623157	36623157	+	Silent	SNP	G	G	A	rs12326006	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	74.0	70.0	0.0	1	0	G|0.964;A|0.036	0.036	strong	.	ARHGAP23	48	.	NM_001199417	exon7	c.G1233A	p.L411L	GGGCCTGGATGAC	.	PASS	Atlas-SNP
PRR25	388199	hgsc.bcm.edu	37	16	855732	855732	+	Missense_Mutation	SNP	C	C	T	rs115484509	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	68.0	53.0	0.0	1	0	C|0.977;T|0.023	0.023	strong	PRR25,NS,carcinoma,+1,1	PRR25	27	1	NM_001013638	exon1	c.C290T	p.A97V	GAACAGCGCAGCC	.	PASS	Atlas-SNP
CTSG	1511	hgsc.bcm.edu	37	14	25045386	25045386	+	Missense_Mutation	SNP	C	C	G	rs61737123	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	37.0	77.0	0.0	0.445783	0	C|0.969;G|0.031	0.031	strong	.	CTSG	63	.	NM_001911	exon1	c.G44C	p.G15A	TCAGCCCCAGTGG	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39264083	39264083	+	Missense_Mutation	SNP	C	C	G	rs7329939	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	64.0	112.0	0.0	0.561404	0	C|0.947;G|0.053	0.053	strong	.	FREM2	385	.	NM_207361	exon1	c.C2602G	p.L868V	TTCACTCTCACTC	.	PASS	Atlas-SNP
OR8B2	26595	hgsc.bcm.edu	37	11	124253042	124253042	+	Silent	SNP	G	G	A	rs79763748		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	87.0	242.0	0.0	0.497143	0	.	.	weak	.	OR8B2	42	.	NM_001005468	exon1	c.C198T	p.L66L	GAAGGAGAGATTG	.	PASS	Atlas-SNP
RHBDF1	64285	hgsc.bcm.edu	37	16	113027	113027	+	Missense_Mutation	SNP	G	G	A	rs78541046	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	140.0	80.0	96.0	0.0	0.571429	0	G|0.996;A|0.004	0.004	strong	.	RHBDF1	54	.	NM_022450	exon5	c.C616T	p.R206C	GCTTGCGCCGCCG	.	PASS	Atlas-SNP
OR51V1	283111	hgsc.bcm.edu	37	11	5221132	5221132	+	Missense_Mutation	SNP	G	G	A	rs61736992	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	58.0	117.0	0.0	0.557692	0	G|0.975;A|0.025	0.025	strong	.	OR51V1	77	.	NM_001004760	exon1	c.C799T	p.L267F	TTGTGAGGCTAAT	.	PASS	Atlas-SNP
UBE2L3	7332	hgsc.bcm.edu	37	22	21965298	21965298	+	Silent	SNP	C	C	G	rs61133050	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	459.0	203.0	446.0	0.0	0.442266	0	C|0.964;G|0.036	0.036	strong	.	UBE2L3	11	.	NM_001256355	exon3	c.C450G	p.A150A	TAGTGCCGAAAAC	.	PASS	Atlas-SNP
CYP11B1	1584	hgsc.bcm.edu	37	8	143958291	143958291	+	Silent	SNP	C	C	T	rs6419	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	24.0	140.0	1.0	0.130435	0.00714286	C|0.025;T|0.975	0.975	strong	CYP11B1,right_lower_lobe,carcinoma,0,1	CYP11B1	128	1	NM_000497	exon4	c.G606A	p.L202L	AAGAGCCAAGTTG	.	scavenged	Atlas-SNP
RNF151	146310	hgsc.bcm.edu	37	16	2018580	2018580	+	Missense_Mutation	SNP	G	G	A	rs62038784	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	44.0	73.0	0.0	0.571429	0	G|0.970;A|0.030	0.030	strong	.	RNF151	12	.	NM_174903	exon4	c.G392A	p.R131Q	AGCACCGGCAGCA	.	PASS	Atlas-SNP
DNAI2	64446	hgsc.bcm.edu	37	17	72306239	72306239	+	Silent	SNP	C	C	G	rs144035254	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	30.0	69.0	0.0	0.416667	0	C|0.996;G|0.004	0.004	strong	.	DNAI2	102	.	NM_023036	exon11	c.C1431G	p.T477T	AACCACCCTGCTG	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1245062	1245062	+	Silent	SNP	C	C	T	rs59794024	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	34.0	80.0	0.0	0.441558	0	C|0.967;T|0.033	0.033	strong	.	CACNA1H	317	.	NM_021098	exon3	c.C390T	p.S130S	CGGCTCCGAGCGC	.	PASS	Atlas-SNP
GPR176	11245	hgsc.bcm.edu	37	15	40094431	40094431	+	Silent	SNP	C	C	T	rs76578471	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	21.0	39.0	0.0	0.446809	0	C|0.989;T|0.011	0.011	strong	.	GPR176	41	.	NM_007223	exon3	c.G450A	p.L150L	CCTCTCCAGTGGA	.	PASS	Atlas-SNP
DHRS1	115817	hgsc.bcm.edu	37	14	24768220	24768220	+	Silent	SNP	G	G	T	rs150092528		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	25.0	59.0	0.0	0.362319	0	G|1.000;T|0.000	0.000	weak	.	DHRS1	21	.	NM_138452	exon2	c.C93A	p.G31G	TGTGGCGCCTGCT	.	PASS	Atlas-SNP
FER	2241	hgsc.bcm.edu	37	5	108281862	108281862	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	4.0	77.0	0.0	0.0571429	0	.	.	none	.	FER	100	.	NM_005246	exon11	c.C1268T	p.S423F	TTGAATCTATTCG	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	37	2	37454998	37454998	+	Silent	SNP	A	A	G	rs1803251	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	36.0	61.0	0.0	0.529412	0	A|0.912;G|0.088	0.088	strong	.	CEBPZ	68	.	NM_005760	exon2	c.T1338C	p.N446N	CATTTGATTTAAA	.	PASS	Atlas-SNP
NELFA	7469	hgsc.bcm.edu	37	4	1985668	1985668	+	Silent	SNP	G	G	A	rs2234574	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	66.0	70.0	0.0	0.52381	0	G|0.977;A|0.023	0.023	strong	.	.	.	.	NM_005663	exon9	c.C1242T	p.V414V	AGGGGCGACAGCC	.	PASS	Atlas-SNP
CLDN23	137075	hgsc.bcm.edu	37	8	8559917	8559917	+	Silent	SNP	G	G	A	rs61754917	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	7.0	6.0	6.0	0.0	0.857143	0	G|0.995;A|0.005	0.005	strong	.	CLDN23	5	.	NM_194284	exon1	c.G9A	p.T3T	GCGGACGCCGGTG	.	PASS	Atlas-SNP
ELP2	55250	hgsc.bcm.edu	37	18	33744465	33744465	+	Missense_Mutation	SNP	A	A	G	rs73428967	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	80.0	143.0	0.0	0.454545	0	A|0.997;G|0.003	0.003	strong	.	ELP2	70	.	NM_001242875	exon19	c.A1984G	p.I662V	GCTATCATTCTTT	.	PASS	Atlas-SNP
SHC2	25759	hgsc.bcm.edu	37	19	422229	422229	+	Missense_Mutation	SNP	C	C	T	rs61750917	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	136.0	62.0	128.0	0.0	0.455882	0	C|0.981;T|0.019	0.019	strong	SHC2,colon,carcinoma,0,1	SHC2	47	1	NM_012435	exon11	c.G1537A	p.V513I	TGGTGACGCTGTC	.	PASS	Atlas-SNP
DCAF4L2	138009	hgsc.bcm.edu	37	8	88885256	88885256	+	Missense_Mutation	SNP	G	G	A	rs146716352	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	87.0	199.0	0.0	0.47027	0	G|0.997;A|0.003	0.003	strong	.	DCAF4L2	187	.	NM_152418	exon1	c.C944T	p.S315F	TAGGCGGAGTTAT	.	PASS	Atlas-SNP
KIAA1671	85379	hgsc.bcm.edu	37	22	25570285	25570285	+	Silent	SNP	C	C	T	rs56351192	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	156.0	155.0	184.0	0.0	0.99359	0	C|0.981;T|0.019	0.019	strong	.	KIAA1671	28	.	NM_001145206	exon6	c.C4728T	p.S1576S	TCTGTCCTCCCAA	.	PASS	Atlas-SNP
DDX24	57062	hgsc.bcm.edu	37	14	94526812	94526812	+	Silent	SNP	C	C	T	rs11845400	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	118.0	197.0	0.0	0.517544	0	C|0.952;T|0.048	0.048	strong	.	DDX24	82	.	NM_020414	exon5	c.G1545A	p.Q515Q	AGGAGCCTGATGC	.	PASS	Atlas-SNP
NCOA3	8202	hgsc.bcm.edu	37	20	46264805	46264805	+	Missense_Mutation	SNP	C	C	T	rs2230781	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	87.0	134.0	0.0	0.56129	0	C|0.981;T|0.019	0.019	strong	.	NCOA3	156	.	NM_001174088	exon12	c.C1705T	p.P569S	ACCCAACCAAGTA	.	PASS	Atlas-SNP
LGALS16	148003	hgsc.bcm.edu	37	19	40148584	40148584	+	Missense_Mutation	SNP	T	T	C	rs10403702	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	71.0	107.0	0.0	0.577236	0	T|0.912;C|0.088	0.088	strong	.	LGALS16	6	.	NM_001190441	exon2	c.T77C	p.L26P	GGACACTGATCGA	.	PASS	Atlas-SNP
ANKRD24	170961	hgsc.bcm.edu	37	19	4216829	4216829	+	Missense_Mutation	SNP	G	G	A	rs61738959	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	14.0	35.0	0.0	0.482759	0	G|0.982;A|0.018	0.018	strong	.	ANKRD24	180	.	NM_133475	exon18	c.G1672A	p.G558R	GTTAACGGAGCCG	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	37	20	55027509	55027509	+	Missense_Mutation	SNP	C	C	T	rs34899200	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	45.0	82.0	0.0	0.517241	0	C|0.984;T|0.016	0.016	strong	CASS4,rectum,adenoma,-1,1	CASS4	121	1	NM_020356	exon5	c.C1277T	p.S426L	CTTCCTCGGAGGA	.	PASS	Atlas-SNP
ARNTL2	56938	hgsc.bcm.edu	37	12	27543028	27543028	+	Splice_Site	SNP	G	G	A	rs113615248	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	78.0	172.0	0.0	0.516556	0	G|0.991;A|0.009	0.009	strong	.	ARNTL2	54	.	NM_001248005	exon7	c.665-1G>A	.	ACGAAAGCTGGTT	.	PASS	Atlas-SNP
PELI2	57161	hgsc.bcm.edu	37	14	56763743	56763743	+	Silent	SNP	G	G	T	rs112097284	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	34.0	76.0	0.0	0.478873	0	G|0.979;T|0.021	0.021	strong	.	PELI2	55	.	NM_021255	exon6	c.G1122T	p.S374S	GTGCTCGGAGAAG	.	PASS	Atlas-SNP
OR10T2	128360	hgsc.bcm.edu	37	1	158369025	158369025	+	Missense_Mutation	SNP	T	T	C	rs6662597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	53.0	96.0	0.0	0.582418	0	T|0.985;C|0.015	0.015	strong	.	OR10T2	76	.	NM_001004475	exon1	c.A232G	p.I78V	GGATGATGACAAA	.	PASS	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	37	12	25672945	25672945	+	Missense_Mutation	SNP	T	T	C	rs34326830	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	81.0	169.0	0.0	0.522581	0	T|0.980;C|0.020	0.020	strong	.	IFLTD1	121	.	NM_001145728	exon7	c.A863G	p.E288G	TTAAATTCAACGT	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15793238	15793238	+	Silent	SNP	C	C	T	rs144258147	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	342.0	74.0	270.0	0.0	0.216374	0	C|0.990;T|0.010	0.010	strong	.	CYP4F12	89	.	NM_023944	exon6	c.C565T	p.L189L	AGTTGTCTGGACA	.	PASS	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58152182	58152182	+	Missense_Mutation	SNP	G	G	A	rs34897843	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	242.0	115.0	251.0	0.0	0.475207	0	G|0.991;A|0.009	0.009	strong	.	ZNF211	78	.	NM_001265597	exon5	c.G523A	p.D175N	AATGCCGACTCCT	.	PASS	Atlas-SNP
CDH19	28513	hgsc.bcm.edu	37	18	64235877	64235877	+	Missense_Mutation	SNP	G	G	A	rs114375304	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	49.0	107.0	0.0	0.457944	0	G|0.980;A|0.020	0.020	strong	CDH19,NS,carcinoma,-1,1	CDH19	141	1	NM_021153	exon3	c.C266T	p.T89I	ATAAAAGTACTTC	.	PASS	Atlas-SNP
ADD1	118	hgsc.bcm.edu	37	4	2896419	2896419	+	Silent	SNP	G	G	A	rs112813723	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	294.0	148.0	240.0	0.0	0.503401	0	G|0.988;A|0.012	0.012	strong	.	ADD1	56	.	NM_014190	exon6	c.G702A	p.V234V	GGACGTGAAGTGC	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76447617	76447617	+	Silent	SNP	A	A	G	rs34002770	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	267.0	125.0	237.0	0.0	0.468165	0	A|0.969;G|0.031	0.031	strong	.	DNAH17	347	.	NM_173628	exon66	c.T10668C	p.D3556D	GAGTCCATCCCTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515726	195515726	+	Missense_Mutation	SNP	G	G	C	rs55697302	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	275.0	136.0	226.0	0.0	0.494545	0	G|0.942;C|0.058	0.058	strong	.	MUC4	1505	.	NM_018406	exon2	c.C2725G	p.Q909E	GAGTCTGGGCCAT	.	PASS	Atlas-SNP
ZNF230	7773	hgsc.bcm.edu	37	19	44514859	44514859	+	Missense_Mutation	SNP	C	C	T	rs147553354	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	50.0	110.0	0.0	0.416667	0	C|0.998;T|0.002	0.002	strong	.	ZNF230	44	.	NM_006300	exon5	c.C668T	p.P223L	AGAAACCATTCAA	.	PASS	Atlas-SNP
OR4D9	390199	hgsc.bcm.edu	37	11	59282960	59282960	+	Missense_Mutation	SNP	C	C	G	rs113146895	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	169.0	82.0	176.0	0.0	0.485207	0	C|0.979;G|0.021	0.021	strong	.	OR4D9	47	.	NM_001004711	exon1	c.C575G	p.T192S	CTGACACCTTCAC	.	PASS	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12919145	12919145	+	Missense_Mutation	SNP	G	G	A	rs149655365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	195.0	100.0	156.0	0.0	0.512821	0	G|0.957;A|0.043	0.043	strong	.	PRAMEF2	85	.	NM_023014	exon2	c.G281A	p.R94H	AGGATCGCCCCAG	.	PASS	Atlas-SNP
SEPT9	10801	hgsc.bcm.edu	37	17	75471762	75471762	+	Silent	SNP	G	G	A	rs312821	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	44.0	66.0	0.0	0.53012	0	G|0.937;A|0.063	0.063	strong	.	SEPT9	105	.	NM_001113495	exon1	c.G162A	p.T54T	GCCCACGCTGGGC	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92616006	92616006	+	Silent	SNP	C	C	T	rs58474174	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	47.0	140.0	0.0	0.408696	0	C|0.976;T|0.024	0.024	strong	.	FAT3	1822	.	NM_001008781	exon23	c.C12384T	p.Y4128Y	GGGCTACGTGGGC	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73551088	73551088	+	Silent	SNP	G	G	A	rs55964031	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	90.0	44.0	80.0	1.0	0.488889	0.0125	G|0.974;A|0.026	0.026	strong	CDH23,NS,carcinoma,0,1	CDH23	365	1	NM_022124	exon45	c.G6249A	p.P2083P	CTGCCCGCCTGGT	.	scavenged	Atlas-SNP
LPA	4018	hgsc.bcm.edu	37	6	160977167	160977167	+	Silent	SNP	G	G	T	rs375904594		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	361.0	33.0	342.0	2.0	0.0914127	0.00584795	.	.	weak	LPA,right_upper_lobe,carcinoma,-1,1	LPA	237	1	NM_005577	exon31	c.C4863A	p.G1621G	ACTCTGGCCATTA	.	scavenged	Atlas-SNP
APTX	54840	hgsc.bcm.edu	37	9	32984803	32984803	+	Missense_Mutation	SNP	C	C	T	rs150886026	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	63.0	108.0	0.0	0.5625	0	C|0.994;T|0.006	0.006	strong	.	APTX	44	.	NM_001195248	exon6	c.G638A	p.R213H	TGGTAACGGGCCT	.	PASS	Atlas-SNP
SMTN	6525	hgsc.bcm.edu	37	22	31478942	31478942	+	Silent	SNP	G	G	A	rs73408133	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	38.0	76.0	0.0	0.38	0	G|0.963;A|0.037	0.037	strong	.	SMTN	219	.	NM_001207017	exon1	c.G36A	p.A12A	ACTGGCGGCCAAG	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81242184	81242184	+	Silent	SNP	T	T	C	rs9927930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	21.0	37.0	0.0	0.446809	0	T|0.951;C|0.049	0.049	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.A672G	p.S224S	CTGGCATGACTGT	.	PASS	Atlas-SNP
AIP	9049	hgsc.bcm.edu	37	11	67258362	67258362	+	Silent	SNP	C	C	A	rs35665586	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	70.0	149.0	0.0	0.472973	0	C|0.995;A|0.005	0.005	strong	.	AIP	26	.	NM_003977	exon6	c.C891A	p.A297A	CCCAGCCCTGGCG	.	PASS	Atlas-SNP
OR52E2	119678	hgsc.bcm.edu	37	11	5080523	5080523	+	Missense_Mutation	SNP	A	A	G	rs144077173	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	47.0	87.0	0.0	0.516484	0	A|0.999;G|0.001	0.001	strong	.	OR52E2	63	.	NM_001005164	exon1	c.T335C	p.M112T	GACTCCATAAGTG	.	PASS	Atlas-SNP
ANKRD45	339416	hgsc.bcm.edu	37	1	173596257	173596257	+	Missense_Mutation	SNP	A	A	T	rs12059066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	53.0	67.0	0.0	0.981481	0	A|0.814;T|0.186	0.186	strong	.	ANKRD45	36	.	NM_198493	exon4	c.T538A	p.L180I	CAGCTAAAGAGAC	.	PASS	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3672746	3672746	+	Silent	SNP	G	G	A	rs34921899	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	41.0	22.0	39.0	0.0	0.536585	0	G|0.979;A|0.021	0.021	strong	.	SIGLEC1	210	.	NM_023068	exon16	c.C4134T	p.A1378A	AGATAGGGCCAGC	.	PASS	Atlas-SNP
KDM1A	23028	hgsc.bcm.edu	37	1	23395037	23395037	+	Silent	SNP	T	T	C	rs145865107	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	71.0	98.0	0.0	0.546154	0	T|0.998;C|0.002	0.002	strong	.	KDM1A	49	.	NM_001009999	exon11	c.T1185C	p.P395P	GGTTCCTAAAGAG	.	PASS	Atlas-SNP
CCDC157	550631	hgsc.bcm.edu	37	22	30765502	30765502	+	Silent	SNP	G	G	C	rs5749080	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	107.0	69.0	96.0	0.0	0.64486	0	A|0.198;C|0.000;G|0.802	0.000	strong	.	CCDC157	86	.	NM_001017437	exon4	c.G330C	p.A110A	GGCTGCGGGGCCC	.	PASS	Atlas-SNP
ZDHHC20	253832	hgsc.bcm.edu	37	13	21987823	21987823	+	Missense_Mutation	SNP	G	G	A	rs151151710	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	25.0	58.0	0.0	0.490196	0	G|0.994;A|0.006	0.006	strong	ZDHHC20_ENST00000382466,NS,carcinoma,0,2	ZDHHC20	36	2	NM_153251	exon4	c.C338T	p.A113V	GGTAAAGCTCTTG	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20873695	20873695	+	Missense_Mutation	SNP	A	A	G	rs148090256	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	57.0	29.0	64.0	0.0	0.508772	0	A|0.994;G|0.006	0.006	strong	TEP1,caecum,carcinoma,0,1	TEP1	224	1	NM_007110	exon4	c.T785C	p.M262T	TTGTTCATGTTTA	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38377417	38377417	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	74.0	11.0	82.0	0.0	0.148649	0	.	.	none	.	WDR87	191	.	NM_031951	exon6	c.G6777A	p.E2259E	CTCCTCCTCCTCC	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77660550	77660550	+	Silent	SNP	T	T	C	rs61745983	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	58.0	136.0	0.0	0.439394	0	T|0.978;C|0.022	0.022	strong	.	SHROOM3	134	.	NM_020859	exon5	c.T1224C	p.D408D	CCTTGATCAGAAA	.	PASS	Atlas-SNP
TRAPPC12	51112	hgsc.bcm.edu	37	2	3425731	3425731	+	Missense_Mutation	SNP	G	G	A	rs35775829	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	176.0	87.0	133.0	0.0	0.494318	0	G|0.992;A|0.008	0.008	strong	.	.	.	.	NM_016030	exon4	c.G1244A	p.G415E	AGAGCGGGCTGCT	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124288213	124288213	+	Missense_Mutation	SNP	G	G	A	rs77726895	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	23.0	61.0	0.0	0.621622	0	G|0.980;A|0.020	0.020	strong	.	DNAH10	888	.	NM_207437	exon16	c.G2266A	p.G756S	GGTATCGGTGACT	.	PASS	Atlas-SNP
LZTS1	11178	hgsc.bcm.edu	37	8	20107325	20107325	+	Missense_Mutation	SNP	G	G	C	rs114929298	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	71.0	135.0	0.0	0.586777	0	G|0.995;C|0.005	0.005	strong	.	LZTS1	72	.	NM_021020	exon3	c.C1699G	p.L567V	GTGCCAGCTGCTG	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	37	22	32756807	32756807	+	Silent	SNP	G	G	C	rs78565810	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	86.0	198.0	0.0	0.398148	0	G|0.978;C|0.022	0.022	strong	.	RFPL3	91	.	NM_001098535	exon2	c.G942C	p.G314G	TCCTGGGGAGGCC	.	PASS	Atlas-SNP
RGS8	85397	hgsc.bcm.edu	37	1	182640848	182640848	+	Silent	SNP	G	G	A	rs115960776	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	215.0	80.0	286.0	0.0	0.372093	0	G|0.981;A|0.019	0.019	strong	.	RGS8	51	.	NM_033345	exon2	c.C24T	p.S8S	AGAGAGGCTTCGG	.	PASS	Atlas-SNP
HERC6	55008	hgsc.bcm.edu	37	4	89338691	89338691	+	Missense_Mutation	SNP	A	A	G	rs190243300	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	24.0	53.0	0.0	0.40678	0	A|0.998;G|0.002	0.002	strong	.	HERC6	104	.	NM_017912	exon13	c.A1673G	p.N558S	ACTGTAATGTTAA	.	PASS	Atlas-SNP
SERPINB3	6317	hgsc.bcm.edu	37	18	61323228	61323228	+	Missense_Mutation	SNP	C	C	G	rs61748838	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	230.0	121.0	232.0	0.0	0.526087	0	C|0.940;G|0.060	0.060	strong	SERPINB3,caecum,carcinoma,0,1	SERPINB3	90	1	NM_006919	exon8	c.G836C	p.R279P	TCGACACGTGTCT	.	PASS	Atlas-SNP
UGGT1	56886	hgsc.bcm.edu	37	2	128870784	128870784	+	Silent	SNP	A	A	G	rs149605444	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	290.0	132.0	243.0	0.0	0.455172	0	A|0.995;G|0.005	0.005	strong	.	UGGT1	126	.	NM_020120	exon6	c.A648G	p.S216S	TATATCAAAAAGC	.	PASS	Atlas-SNP
AGL	178	hgsc.bcm.edu	37	1	100353654	100353654	+	Silent	SNP	A	A	C	rs34230588	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	21.0	61.0	0.0	0.42	0	A|0.994;C|0.006	0.006	strong	.	AGL	137	.	NM_000644	exon21	c.A2802C	p.A934A	ATATGCAGGTCTT	.	PASS	Atlas-SNP
LAIR2	3904	hgsc.bcm.edu	37	19	55019379	55019379	+	Missense_Mutation	SNP	T	T	A	rs34429135	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	55.0	107.0	0.0	0.433071	0	T|0.943;A|0.057	0.057	strong	.	LAIR2	30	.	NM_002288	exon3	c.T344A	p.F115Y	GTGACTTCCTGGA	.	PASS	Atlas-SNP
PRKAR2B	5577	hgsc.bcm.edu	37	7	106791447	106791447	+	Silent	SNP	G	G	A	rs3729878	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	209.0	95.0	201.0	0.0	0.454545	0	G|0.953;A|0.047	0.047	strong	.	PRKAR2B	34	.	NM_002736	exon7	c.G822A	p.L274L	GTCACTGCCATTC	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71234960	71234960	+	Missense_Mutation	SNP	A	A	G	rs9455142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	22.0	65.0	0.0	0.366667	0	A|0.974;G|0.026	0.026	strong	.	FAM135A	181	.	NM_001162529	exon13	c.A2173G	p.I725V	CTTTCTATTGGAG	.	PASS	Atlas-SNP
PANX1	24145	hgsc.bcm.edu	37	11	93913392	93913392	+	Missense_Mutation	SNP	G	G	T	rs74549886	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	129.0	56.0	136.0	0.0	0.434109	0	G|0.968;T|0.032	0.032	strong	.	PANX1	38	.	NM_015368	exon4	c.G1170T	p.E390D	GAGAGAGGAGCAG	.	PASS	Atlas-SNP
ILDR1	286676	hgsc.bcm.edu	37	3	121712271	121712271	+	Missense_Mutation	SNP	C	C	T	rs34883204	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	56.0	85.0	1.0	0.54902	0.0117647	C|0.960;T|0.040	0.040	strong	ILDR1_ENST00000344209,colon,carcinoma,-1,2	ILDR1	120	2	NM_001199799	exon7	c.G1325A	p.R442H	TGACAGCGGCTCC	.	scavenged	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158623103	158623103	+	Missense_Mutation	SNP	G	G	A	rs116297260	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	65.0	134.0	0.0	0.5	0	G|0.995;A|0.005	0.005	strong	.	SPTA1	720	.	NM_003126	exon22	c.C3149T	p.P1050L	TTTCCTGGCTCTT	.	PASS	Atlas-SNP
SEMA6A	57556	hgsc.bcm.edu	37	5	115827506	115827506	+	Silent	SNP	G	G	A	rs34096390	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	91.0	153.0	1.0	0.399123	0.00653595	G|0.979;A|0.021	0.021	strong	SEMA6A,NS,carcinoma,-2,1	SEMA6A	93	1	NM_020796	exon7	c.C465T	p.F155F	ATCCCCGAATGGT	.	scavenged	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160735775	160735775	+	Missense_Mutation	SNP	C	C	T	rs77761086	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	35.0	117.0	0.0	0.380435	0	C|0.994;T|0.006	0.006	strong	.	LY75	151	.	NM_002349	exon9	c.G1510A	p.D504N	CCTCATCTGGAGG	.	PASS	Atlas-SNP
KRT7	3855	hgsc.bcm.edu	37	12	52636843	52636843	+	Silent	SNP	G	G	A	rs10564	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	44.0	95.0	0.0	0.517647	0	G|0.964;A|0.036	0.036	strong	KRT7,colon,carcinoma,+1,1	KRT7	48	1	NM_005556	exon6	c.G906A	p.R302R	CCTCCGGAATACC	.	PASS	Atlas-SNP
DIS3L2	129563	hgsc.bcm.edu	37	2	232995462	232995462	+	Silent	SNP	A	A	G	rs75061164	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	72.0	121.0	0.0	0.533333	0	A|0.984;G|0.016	0.016	strong	.	DIS3L2	77	.	NM_001257282	exon7	c.A735G	p.Q245Q	TGTCCAAATGGCT	.	PASS	Atlas-SNP
DROSHA	29102	hgsc.bcm.edu	37	5	31526531	31526531	+	Missense_Mutation	SNP	G	G	A	rs77034974	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	228.0	103.0	200.0	0.0	0.451754	0	G|0.974;A|0.026	0.026	strong	.	DROSHA	130	.	NM_013235	exon4	c.C509T	p.P170L	TAGCCCGGAGGGT	.	PASS	Atlas-SNP
PPL	5493	hgsc.bcm.edu	37	16	4952511	4952511	+	Missense_Mutation	SNP	C	C	T	rs115478590	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	160.0	90.0	128.0	0.0	0.5625	0	C|0.996;T|0.004	0.004	strong	.	PPL	168	.	NM_002705	exon4	c.G334A	p.E112K	CACGCTCCTTCAG	.	PASS	Atlas-SNP
PCDH7	5099	hgsc.bcm.edu	37	4	31144189	31144189	+	Silent	SNP	C	C	T	rs148629328	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	54.0	102.0	0.0	0.473684	0	C|0.997;T|0.003	0.003	strong	.	PCDH7	215	.	NM_001173523	exon3	c.C3486T	p.R1162R	GGTCCGCACTTCT	.	PASS	Atlas-SNP
ROCK2	9475	hgsc.bcm.edu	37	2	11484212	11484212	+	Silent	SNP	C	C	A	rs368832806		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	35.0	28.0	0.0	0.660377	0	.	.	weak	ROCK2_ENST00000315872,NS,carcinoma,-2,2	ROCK2	224	2	NM_004850	exon1	c.G51T	p.A17A	CCCCGGCGCGGTC	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92538351	92538351	+	Silent	SNP	C	C	T	rs56843577	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	178.0	81.0	172.0	0.0	0.455056	0	C|0.988;T|0.012	0.012	strong	.	FAT3	1822	.	NM_001008781	exon10	c.C8929T	p.L2977L	CTGGGCCTGGTGC	.	PASS	Atlas-SNP
CCDC40	55036	hgsc.bcm.edu	37	17	78032677	78032677	+	Silent	SNP	C	C	T	rs61734950	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	60.0	122.0	0.0	0.582524	0	C|0.972;T|0.028	0.028	strong	.	CCDC40	198	.	NM_017950	exon9	c.C1338T	p.L446L	CCAGCTCACCACT	.	PASS	Atlas-SNP
NEURL4	84461	hgsc.bcm.edu	37	17	7226082	7226082	+	Silent	SNP	G	G	A	rs116452797	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	52.0	72.0	0.0	0.52	0	G|0.999;A|0.001	0.001	strong	.	NEURL4	192	.	NM_032442	exon16	c.C2697T	p.T899T	CTTCTCGGTGGCA	.	PASS	Atlas-SNP
RDX	5962	hgsc.bcm.edu	37	11	110118459	110118459	+	Silent	SNP	T	T	C	rs139953187	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	99.0	193.0	0.0	0.607362	0	T|0.989;C|0.011	0.011	strong	.	RDX	59	.	NM_001260493	exon10	c.A1059G	p.Q353Q	TTCAATTTGTTTT	.	PASS	Atlas-SNP
CP	1356	hgsc.bcm.edu	37	3	148901300	148901300	+	Missense_Mutation	SNP	C	C	T	rs115552500	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	35.0	83.0	0.0	0.522388	0	C|0.987;T|0.013	0.013	strong	.	CP	112	.	NM_000096	exon13	c.G2378A	p.R793H	GGAACACGGAATG	.	PASS	Atlas-SNP
MRPL46	26589	hgsc.bcm.edu	37	15	89002888	89002888	+	Missense_Mutation	SNP	G	G	T	rs146290179		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	53.0	114.0	0.0	0.434426	0	G|1.000;T|0.000	0.000	weak	.	MRPL46	13	.	NM_022163	exon4	c.C796A	p.P266T	ATTTTGGTTTCAA	.	PASS	Atlas-SNP
MASP2	10747	hgsc.bcm.edu	37	1	11106648	11106648	+	Missense_Mutation	SNP	G	G	A	rs56392418	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	130.0	50.0	109.0	0.0	0.384615	0	G|0.964;A|0.036	0.036	strong	.	MASP2	71	.	NM_139208	exon3	c.C377T	p.P126L	GTGAACGGCTTCT	.	PASS	Atlas-SNP
TCF7L1	83439	hgsc.bcm.edu	37	2	85510654	85510654	+	Missense_Mutation	SNP	T	T	A	rs115942112	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	131.0	57.0	106.0	0.0	0.435115	0	T|0.989;A|0.011	0.011	strong	.	TCF7L1	44	.	NM_031283	exon4	c.T478A	p.S160T	GTCCCCTCCAGCG	.	PASS	Atlas-SNP
RNF207	388591	hgsc.bcm.edu	37	1	6267523	6267523	+	Silent	SNP	C	C	T	rs58587405	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	294.0	152.0	214.0	0.0	0.517007	0	C|0.966;T|0.034	0.034	strong	.	RNF207	45	.	NM_207396	exon3	c.C276T	p.G92G	GGATGGCGTGGAG	.	PASS	Atlas-SNP
CCDC92	80212	hgsc.bcm.edu	37	12	124421764	124421764	+	Silent	SNP	C	C	T	rs34241686	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	22.0	10.0	13.0	0.0	0.454545	0	C|0.996;T|0.004	0.004	strong	.	CCDC92	18	.	NM_025140	exon5	c.G837A	p.P279P	GCGGGCCGGGCTG	.	PASS	Atlas-SNP
MICALL1	85377	hgsc.bcm.edu	37	22	38302469	38302469	+	Missense_Mutation	SNP	C	C	T	rs146549351	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	4.0	4.0	5.0	0.0	1	0	C|0.942;T|0.058	0.058	strong	.	MICALL1	53	.	NM_033386	exon1	c.C40T	p.R14C	TGCCGCCGCCAGT	.	PASS	Atlas-SNP
IGLL1	3543	hgsc.bcm.edu	37	22	23917176	23917176	+	Silent	SNP	G	G	A	rs115303391	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	72.0	110.0	0.0	0.467532	0	G|0.965;A|0.035	0.035	strong	.	IGLL1	27	.	NM_020070	exon2	c.C300T	p.S100S	GGTCCCGCTGCCA	.	PASS	Atlas-SNP
MED14	9282	hgsc.bcm.edu	37	X	40551993	40551993	+	Silent	SNP	G	G	A	rs10127014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	236.0	128.0	178.0	0.0	0.542373	0	G|0.966;A|0.034	0.034	strong	.	MED14	108	.	NM_004229	exon14	c.C1812T	p.T604T	TTTCCCGGTTTTT	.	PASS	Atlas-SNP
HAPLN2	60484	hgsc.bcm.edu	37	1	156593928	156593928	+	Missense_Mutation	SNP	G	G	T	rs149573918	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	99.0	170.0	0.0	0.464789	0	G|0.986;T|0.014	0.014	strong	.	HAPLN2	20	.	NM_021817	exon4	c.G415T	p.V139L	GAGAGCGTGGCGC	.	PASS	Atlas-SNP
GUCA1C	9626	hgsc.bcm.edu	37	3	108627024	108627024	+	Missense_Mutation	SNP	T	T	C	rs16854916	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	52.0	101.0	0.0	0.452174	0	T|0.982;C|0.018	0.018	strong	.	GUCA1C	39	.	NM_005459	exon4	c.A475G	p.M159V	TTGCCATGCCATT	.	PASS	Atlas-SNP
C16orf82	162083	hgsc.bcm.edu	37	16	27078547	27078547	+	Silent	SNP	G	G	C	rs114049498	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	28.0	61.0	0.0	0.424242	0	G|0.968;C|0.032	0.032	strong	.	.	.	.	NM_001145545	exon1	c.G231C	p.P77P	GCACCCGAGGCCA	.	PASS	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	37	1	227348245	227348245	+	Missense_Mutation	SNP	G	G	A	rs34614709	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	305.0	136.0	311.0	0.0	0.445902	0	G|0.995;A|0.005	0.005	strong	.	CDC42BPA	528	.	NM_003607	exon6	c.C692T	p.T231M	TTTACCGTTCCAT	.	PASS	Atlas-SNP
PRRC2C	23215	hgsc.bcm.edu	37	1	171553209	171553209	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	272.0	133.0	254.0	0.0	0.488971	0	.	.	none	.	.	.	.	NM_015172	exon29	c.C7518T	p.S2506S	ACAATCCGGTCTT	.	PASS	Atlas-SNP
EFCAB12	90288	hgsc.bcm.edu	37	3	129137245	129137245	+	Missense_Mutation	SNP	T	T	G	rs116798859	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	41.0	72.0	0.0	0.602941	0	T|0.975;G|0.025	0.025	strong	.	.	.	.	NM_207307	exon3	c.A533C	p.Q178P	TGGAGCTGGGGCA	.	PASS	Atlas-SNP
ZCCHC18	644353	hgsc.bcm.edu	37	X	103359334	103359334	+	Missense_Mutation	SNP	C	C	T	rs61745269	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	148.0	314.0	0.0	0.571429	0	C|0.962;T|0.038	0.038	strong	.	.	.	.	NM_001143978	exon3	c.C532T	p.L178F	CAACAGCTTCTTT	.	PASS	Atlas-SNP
PPFIBP1	8496	hgsc.bcm.edu	37	12	27842052	27842052	+	Silent	SNP	G	G	A	rs61730962	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	84.0	137.0	0.0	0.502994	0	G|0.949;A|0.051	0.051	strong	.	PPFIBP1	153	.	NM_177444	exon26	c.G2619A	p.L873L	CCTTCTGATTGGG	.	PASS	Atlas-SNP
ARMC1	55156	hgsc.bcm.edu	37	8	66517549	66517549	+	Silent	SNP	T	T	C	rs16932266	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	193.0	103.0	190.0	0.0	0.533679	0	T|0.984;C|0.016	0.016	strong	.	ARMC1	22	.	NM_018120	exon6	c.A606G	p.S202S	CTTGGTTGATGCT	.	PASS	Atlas-SNP
UBR3	130507	hgsc.bcm.edu	37	2	170684548	170684548	+	Silent	SNP	G	G	A	rs79036304	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	16.0	9.0	26.0	0.0	0.5625	0	G|0.940;A|0.060	0.060	strong	.	UBR3	182	.	NM_172070	exon1	c.G531A	p.V177V	CAACGTGATGCGG	.	PASS	Atlas-SNP
HSPA8	3312	hgsc.bcm.edu	37	11	122931337	122931337	+	Silent	SNP	T	T	C	rs147610984	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	56.0	118.0	0.0	0.424242	0	T|0.989;C|0.011	0.011	strong	.	HSPA8	168	.	NM_006597	exon3	c.A375G	p.T125T	CATCTTTGTCAGA	.	PASS	Atlas-SNP
ZNF433	163059	hgsc.bcm.edu	37	19	12127370	12127370	+	Silent	SNP	G	G	A	rs79787738	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	72.0	167.0	0.0	0.447205	0	G|0.994;A|0.006	0.006	strong	.	ZNF433	49	.	NM_001080411	exon4	c.C312T	p.C104C	GCTTTCGCATGAT	.	PASS	Atlas-SNP
ZNF585B	92285	hgsc.bcm.edu	37	19	37697988	37697988	+	Missense_Mutation	SNP	T	T	C	rs145040657	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	39.0	76.0	0.0	0.506494	0	T|1.000;C|0.000	0.000	strong	.	ZNF585B	91	.	NM_152279	exon2	c.A26G	p.Q9R	GATTTCTGGGGTG	.	PASS	Atlas-SNP
EOMES	8320	hgsc.bcm.edu	37	3	27758756	27758756	+	Silent	SNP	G	G	A	rs6783101	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	212.0	99.0	197.0	0.0	0.466981	0	G|0.963;A|0.037	0.037	strong	.	EOMES	65	.	NM_005442	exon6	c.C1866T	p.P622P	GGAAGGGGGTGTC	.	PASS	Atlas-SNP
COG7	91949	hgsc.bcm.edu	37	16	23403744	23403744	+	Silent	SNP	A	A	G	rs8057712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	59.0	127.0	0.0	0.44697	0	A|0.910;G|0.090	0.090	strong	COG7,NS,malignant_melanoma,-2,1	COG7	62	1	NM_153603	exon16	c.T2103C	p.P701P	CAGCTCAGGGATC	.	PASS	Atlas-SNP
PPIAL4G	644591	hgsc.bcm.edu	37	1	143767730	143767730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	1225.0	155.0	1116.0	0.0	0.126531	0	.	.	none	.	PPIAL4G	22	.	NM_001123068	exon1	c.G119A	p.S40N	CCAGTGCTCAGAG	.	PASS	Atlas-SNP
GRM8	2918	hgsc.bcm.edu	37	7	126173902	126173902	+	Missense_Mutation	SNP	G	G	C	rs61753365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	54.0	99.0	1.0	0.486486	0.010101	G|0.968;C|0.032	0.032	strong	GRM8,NS,carcinoma,+2,1	GRM8	377	1	NM_000845	exon8	c.C1534G	p.P512A	ACGCCGGGTGAGT	.	scavenged	Atlas-SNP
TMEM64	169200	hgsc.bcm.edu	37	8	91638019	91638019	+	Silent	SNP	T	T	C	rs61741096	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	151.0	68.0	156.0	0.0	0.450331	0	T|0.996;C|0.004	0.004	strong	.	TMEM64	31	.	NM_001008495	exon3	c.A1023G	p.V341V	ACAAGCTACAATA	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	37	16	3640893	3640893	+	Missense_Mutation	SNP	C	C	A	rs79448721	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	343.0	168.0	308.0	0.0	0.489796	0	C|0.990;A|0.010	0.010	strong	.	SLX4	173	.	NM_032444	exon12	c.G2746T	p.A916S	TGGCGGCCTCATC	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73377069	73377069	+	Silent	SNP	C	C	T	rs7903475	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	52.0	112.0	0.0	0.481481	0	C|0.932;T|0.068	0.068	strong	.	CDH23	365	.	NM_052836	exon11	c.C1053T	p.S351S	CAGCTCCGAGTAC	.	PASS	Atlas-SNP
STARD8	9754	hgsc.bcm.edu	37	X	67938392	67938392	+	Missense_Mutation	SNP	C	C	T	rs58255923	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	75.0	156.0	0.0	0.510204	0	C|0.955;T|0.045	0.045	strong	.	STARD8	282	.	NM_001142503	exon6	c.C1636T	p.P546S	GCGGGGCCCCTGG	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149526071	149526071	+	Missense_Mutation	SNP	G	G	A	rs142321773	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	56.0	129.0	0.0	0.491228	0	G|0.997;A|0.003	0.003	strong	.	.	.	.	NM_198455	exon107	c.G15125A	p.R5042H	CTTGCCGCAGGGA	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85435742	85435742	+	Silent	SNP	C	C	T	rs146372321	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	117.0	47.0	117.0	0.0	0.401709	0	C|0.995;T|0.005	0.005	strong	.	SYTL2	231	.	NM_206927	exon1	c.G1758A	p.K586K	CTCGGCCTTTTCT	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18368748	18368748	+	Missense_Mutation	SNP	C	C	T	rs61740685	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	40.0	99.0	0.0	0.47619	0	C|0.999;T|0.001	0.001	strong	.	KIAA1683	190	.	NM_001145304	exon4	c.G3346A	p.A1116T	TCACTGCGAGGAT	.	PASS	Atlas-SNP
FAM47C	442444	hgsc.bcm.edu	37	X	37028762	37028762	+	Missense_Mutation	SNP	C	C	G	rs61730910	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	80.0	123.0	0.0	0.533333	0	C|0.993;G|0.007	0.007	strong	.	FAM47C	267	.	NM_001013736	exon1	c.C2279G	p.S760C	GCGTATCTCATCT	.	PASS	Atlas-SNP
CAP1	10487	hgsc.bcm.edu	37	1	40535945	40535945	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	82.0	128.0	0.0	0.532468	0	.	.	none	.	CAP1	38	.	NM_006367	exon10	c.A1108G	p.I370V	AACTCCATTACAG	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249532	71249532	+	Missense_Mutation	SNP	C	C	G	rs11234084		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	222.0	9.0	158.0	0.0	0.0405405	0	.	.	weak	.	KRTAP5-8	28	.	NM_021046	exon1	c.C431G	p.S144C	GCTGTTCCCAGTC	.	PASS	Atlas-SNP
SLA2	84174	hgsc.bcm.edu	37	20	35242745	35242745	+	Missense_Mutation	SNP	C	C	T	rs34834764	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	105.0	176.0	0.0	0.512195	0	C|0.968;T|0.032	0.032	strong	.	SLA2	12	.	NM_032214	exon7	c.G628A	p.V210M	TCTGCACAGTCAC	.	PASS	Atlas-SNP
ACP5	54	hgsc.bcm.edu	37	19	11685948	11685948	+	Silent	SNP	A	A	G	rs77911902	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	158.0	80.0	163.0	0.0	0.506329	0	A|0.967;G|0.033	0.033	strong	.	ACP5	30	.	NM_001111034	exon6	c.T855C	p.T285T	GTCTTCAGTCCCA	.	PASS	Atlas-SNP
TSPEAR	54084	hgsc.bcm.edu	37	21	45929192	45929192	+	Silent	SNP	G	G	A	rs115847549	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	97.0	133.0	0.0	0.527174	0	G|0.988;A|0.012	0.012	strong	.	TSPEAR	110	.	NM_144991	exon10	c.C1644T	p.Y548Y	CACATCGTAGCTG	.	PASS	Atlas-SNP
WNT9A	7483	hgsc.bcm.edu	37	1	228109696	228109696	+	Silent	SNP	G	G	A	rs112703157	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	84.0	30.0	69.0	0.0	0.357143	0	G|0.977;A|0.023	0.023	strong	.	WNT9A	39	.	NM_003395	exon4	c.C621T	p.I207I	AGCCTTGATCACC	.	PASS	Atlas-SNP
MAST4	375449	hgsc.bcm.edu	37	5	66461583	66461583	+	Silent	SNP	C	C	T	rs56201012	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	40.0	75.0	0.0	0.449438	0	C|0.990;T|0.010	0.010	strong	.	MAST4	218	.	NM_001164664	exon29	c.C6576T	p.H2192H	CAGCCACAAGCCC	.	PASS	Atlas-SNP
PCDHA1	56147	hgsc.bcm.edu	37	5	140167520	140167520	+	Missense_Mutation	SNP	G	G	A	rs61743799	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	60.0	81.0	0.0	0.5	0	G|0.961;A|0.039	0.039	strong	.	PCDHA1	387	.	NM_031410	exon1	c.G1645A	p.V549M	AGCAACGTGACGC	.	PASS	Atlas-SNP
SUPT20HL2	170067	hgsc.bcm.edu	37	X	24329793	24329793	+	Missense_Mutation	SNP	C	C	T	rs139232512	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	223.0	129.0	194.0	0.0	0.578475	0	C|0.963;T|0.037	0.037	strong	.	.	.	.	NM_001136233	exon1	c.G1640A	p.R547H	GGACGGCGCCTGC	.	PASS	Atlas-SNP
BCAN	63827	hgsc.bcm.edu	37	1	156621251	156621251	+	Missense_Mutation	SNP	C	C	T	rs12065791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	26.0	35.0	0.0	0.52	0	C|0.949;T|0.051	0.051	strong	.	BCAN	174	.	NM_198427	exon7	c.C1067T	p.S356L	CAGACTCGGCCCA	.	PASS	Atlas-SNP
RGS3	5998	hgsc.bcm.edu	37	9	116224452	116224452	+	Missense_Mutation	SNP	G	G	A	rs16933949	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	72.0	95.0	0.0	0.685714	0	G|0.957;A|0.043	0.043	strong	.	RGS3	251	.	NM_144488	exon4	c.G386A	p.R129K	GGAAGAGGATCAC	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737419	248737419	+	Missense_Mutation	SNP	T	T	C	rs145854970		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	17.0	307.0	0.0	0.0825243	0	.	.	weak	OR2T34,NS,carcinoma,+1,2	OR2T34	72	2	NM_001001821	exon1	c.A640G	p.T214A	TGGGGGTGAGAAG	.	scavenged	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116958283	116958283	+	Silent	SNP	G	G	A	rs10982098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	27.0	78.0	0.0	0.350649	0	G|0.993;A|0.007	0.007	strong	.	COL27A1	200	.	NM_032888	exon7	c.G2115A	p.P705P	ACCTCCGGGACGA	.	PASS	Atlas-SNP
RECQL4	9401	hgsc.bcm.edu	37	8	145740622	145740622	+	Silent	SNP	C	C	T	rs34948955	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	49.0	111.0	1.0	0.426087	0.00900901	C|0.997;T|0.003	0.003	strong	RECQL4,brain,glioma,0,2	RECQL4	75	2	NM_004260	exon8	c.G1395A	p.T465T	AGCCGGCGTCTCT	.	scavenged	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011415	46011415	+	Silent	SNP	G	G	A	rs145570198	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	261.0	58.0	358.0	0.0	0.222222	0	G|0.976;A|0.024	0.024	strong	.	KRTAP10-6	57	.	NM_198688	exon1	c.C951T	p.C317C	GGGCACGCAGCAG	.	PASS	Atlas-SNP
LILRB2	10288	hgsc.bcm.edu	37	19	54782173	54782173	+	Missense_Mutation	SNP	A	A	C	rs4993130	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	172.0	77.0	199.0	0.0	0.447674	0	A|1.000;C|0.000	0.000	weak	.	LILRB2	94	.	NM_005874	exon7	c.T1199G	p.L400R	GAGTTGAGTGAGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507684	195507684	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	24.0	203.0	0.0	0.470588	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-2,1	MUC4	1505	1	NM_018406	exon2	c.C10767T	p.D3589D	GGAAGCGTCGGTG	.	scavenged	Atlas-SNP
CEACAM4	1089	hgsc.bcm.edu	37	19	42125709	42125709	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	54.0	100.0	0.0	0.473684	0	.	.	none	CEACAM4,NS,neuroblastoma,0,1	CEACAM4	42	1	NM_001817	exon7	c.C729T	p.V243V	CTAAGAGACCACA	.	PASS	Atlas-SNP
GAS2	2620	hgsc.bcm.edu	37	11	22770669	22770669	+	Silent	SNP	T	T	C	rs7122835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	121.0	56.0	116.0	0.0	0.46281	0	T|0.988;C|0.012	0.012	strong	.	GAS2	46	.	NM_177553	exon6	c.T477C	p.Y159Y	AAGGTATGGTGTG	.	PASS	Atlas-SNP
SLC24A1	9187	hgsc.bcm.edu	37	15	65917349	65917349	+	Missense_Mutation	SNP	G	G	C	rs34363823	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	17.0	39.0	0.0	0.435897	0	G|0.990;C|0.010	0.010	strong	.	SLC24A1	58	.	NM_004727	exon2	c.G931C	p.V311L	GGAACAGTCCTGT	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324237	39324237	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	110.0	18.0	420.0	0.0	0.163636	0	.	.	none	KRTAP4-3,NS,carcinoma,-1,1	KRTAP4-3	40	1	NM_033187	exon1	c.G188C	p.S63T	CAGCAGCTGGGTT	.	scavenged	Atlas-SNP
GALK2	2585	hgsc.bcm.edu	37	15	49574223	49574223	+	Missense_Mutation	SNP	A	A	G	rs35507772	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	75.0	133.0	0.0	0.559702	0	A|0.992;G|0.008	0.008	strong	.	GALK2	78	.	NM_002044	exon6	c.A544G	p.I182V	CGTTACATTGGCA	.	PASS	Atlas-SNP
NADK	65220	hgsc.bcm.edu	37	1	1688719	1688719	+	Silent	SNP	C	C	A	rs78921781	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	73.0	39.0	71.0	0.0	0.534247	0	C|0.995;A|0.005	0.005	strong	.	NADK	79	.	NM_001198994	exon6	c.G606T	p.L202L	CCACGTCAGCCGC	.	PASS	Atlas-SNP
OR4A5	81318	hgsc.bcm.edu	37	11	51411817	51411817	+	Silent	SNP	G	G	A	rs144502772	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	58.0	88.0	0.0	0.552381	0	G|0.993;A|0.007	0.007	strong	.	OR4A5	116	.	NM_001005272	exon1	c.C579T	p.G193G	AGTGAGGCCTATA	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105417777	105417777	+	Silent	SNP	C	C	T	rs1960092	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	255.0	254.0	374.0	0.0	0.996078	0	C|0.959;T|0.041	0.041	strong	.	AHNAK2	719	.	NM_138420	exon7	c.G4011A	p.S1337S	CCCGAACGACGGC	.	PASS	Atlas-SNP
OR10K1	391109	hgsc.bcm.edu	37	1	158435572	158435572	+	Missense_Mutation	SNP	C	C	T	rs78779179	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	474.0	204.0	490.0	0.0	0.43038	0	C|0.966;T|0.034	0.034	strong	.	OR10K1	80	.	NM_001004473	exon1	c.C221T	p.T74I	GCTATACCTTTGT	.	PASS	Atlas-SNP
OTUD7B	56957	hgsc.bcm.edu	37	1	149916584	149916584	+	Silent	SNP	C	C	G	rs200362140	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	39.0	63.0	0.0	0.557143	0	C|0.999;G|0.001	0.001	strong	.	OTUD7B	76	.	NM_020205	exon12	c.G1704C	p.G568G	CCCATCCCCAGCT	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149506195	149506195	+	Missense_Mutation	SNP	C	C	T	rs73727627	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	292.0	154.0	259.0	1.0	0.527397	0.003861	C|0.978;T|0.022	0.022	strong	.	.	.	.	NM_198455	exon63	c.C9187T	p.R3063C	AGGAACCGCACCC	.	PASS	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	37	11	108380609	108380609	+	Silent	SNP	C	C	T	rs115867994	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	74.0	150.0	0.0	0.471338	0	C|0.986;T|0.014	0.014	strong	.	EXPH5	193	.	NM_015065	exon6	c.G5625A	p.R1875R	TGCAGACCTGGGA	.	PASS	Atlas-SNP
DLG5	9231	hgsc.bcm.edu	37	10	79616520	79616520	+	Silent	SNP	G	G	C	rs12243930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	95.0	206.0	0.0	0.479798	0	G|0.857;C|0.143	0.143	strong	.	DLG5	154	.	NM_004747	exon3	c.C504G	p.A168A	AGCAAAGGCCAGG	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	37	20	34091624	34091624	+	Silent	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	41.0	57.0	0.0	0.482353	0	.	.	none	.	CEP250	141	.	NM_007186	exon30	c.G5427A	p.Q1809Q	GGCCCAGAGAGCC	.	PASS	Atlas-SNP
B3GNT2	10678	hgsc.bcm.edu	37	2	62449664	62449664	+	Silent	SNP	G	G	A	rs72893877	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	76.0	106.0	0.0	0.575758	0	G|0.996;A|0.004	0.004	strong	.	B3GNT2	34	.	NM_006577	exon2	c.G309A	p.T103T	GGTCACGTCGGTG	.	PASS	Atlas-SNP
ENAM	10117	hgsc.bcm.edu	37	4	71510368	71510368	+	Silent	SNP	C	C	T	rs61737041	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	266.0	127.0	254.0	0.0	0.477444	0	C|0.993;T|0.007	0.007	strong	.	ENAM	140	.	NM_031889	exon9	c.C3225T	p.S1075S	ATCTAGCGATGGA	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36002488	36002488	+	Missense_Mutation	SNP	C	C	A	rs57760262	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	40.0	82.0	0.0	0.526316	0	C|0.967;A|0.033	0.033	strong	DMKN,NS,carcinoma,+1,1	DMKN	116	1	NM_001126058	exon5	c.G743T	p.S248I	GAGCCGCTGCCTC	.	PASS	Atlas-SNP
TMEM232	642987	hgsc.bcm.edu	37	5	109961032	109961032	+	Missense_Mutation	SNP	C	C	T	rs61730863	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	168.0	89.0	153.0	0.0	0.529762	0	C|0.975;T|0.025	0.025	strong	.	TMEM232	57	.	NM_001039763	exon7	c.G704A	p.R235H	TCAGAACGGAGTT	.	PASS	Atlas-SNP
KRTAP4-4	84616	hgsc.bcm.edu	37	17	39316870	39316870	+	Missense_Mutation	SNP	T	T	C	rs385055	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	134.0	188.0	1.0	1	0.00531915	T|0.890;C|0.110	0.110	strong	KRTAP4-4,NS,carcinoma,-1,1	KRTAP4-4	21	1	NM_032524	exon1	c.A74G	p.Y25C	TGGCAGTAGCTGG	.	PASS	Atlas-SNP
SLC26A10	65012	hgsc.bcm.edu	37	12	58019388	58019388	+	Missense_Mutation	SNP	C	C	T	rs114079678	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	35.0	81.0	0.0	0.426829	0	C|0.999;T|0.001	0.001	strong	.	SLC26A10	89	.	NM_133489	exon14	c.C1552T	p.R518W	CTGACCCGGGTAG	.	PASS	Atlas-SNP
ITPKC	80271	hgsc.bcm.edu	37	19	41223387	41223387	+	Missense_Mutation	SNP	A	A	T	rs145275994	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	44.0	53.0	0.0	0.463158	0	A|0.997;T|0.003	0.003	strong	.	ITPKC	36	.	NM_025194	exon1	c.A347T	p.D116V	AGCCAGACAGGTC	.	PASS	Atlas-SNP
EMC1	23065	hgsc.bcm.edu	37	1	19549250	19549250	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	199.0	105.0	191.0	0.0	0.527638	0	.	.	none	.	.	.	.	NM_015047	exon20	c.G2455A	p.A819T	CGGTGGCGTTGTA	.	PASS	Atlas-SNP
OR52L1	338751	hgsc.bcm.edu	37	11	6007992	6007992	+	Silent	SNP	A	A	G	rs115266467	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	74.0	135.0	0.0	0.453988	0	A|0.989;G|0.011	0.011	strong	.	OR52L1	100	.	NM_001005173	exon1	c.T169C	p.L57L	CCACTAAAGCAAG	.	PASS	Atlas-SNP
SLC25A42	284439	hgsc.bcm.edu	37	19	19217081	19217081	+	Silent	SNP	C	C	A	rs61740506	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	43.0	113.0	0.0	0.472527	0	C|0.976;A|0.024	0.024	strong	.	SLC25A42	18	.	NM_178526	exon6	c.C384A	p.A128A	CAGAGCCCTGCCC	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74524724	74524724	+	Silent	SNP	G	G	A	rs59555720	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	36.0	67.0	0.0	0.545455	0	G|0.971;A|0.029	0.029	strong	.	CD109	170	.	NM_133493	exon30	c.G3789A	p.V1263V	TAATGTGAAGGCT	.	PASS	Atlas-SNP
LMNB2	84823	hgsc.bcm.edu	37	19	2432450	2432450	+	Silent	SNP	C	C	G	rs11882908	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	34.0	104.0	1.0	0.43038	0.00961538	C|0.960;G|0.040	0.040	strong	LMNB2,NS,carcinoma,0,2	LMNB2	40	2	NM_032737	exon9	c.G1554C	p.T518T	CTTGGGCGTGAAC	.	scavenged	Atlas-SNP
CCDC158	339965	hgsc.bcm.edu	37	4	77288833	77288833	+	Missense_Mutation	SNP	C	C	T	rs17001824	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	58.0	98.0	0.0	0.456693	0	C|0.981;T|0.019	0.019	strong	.	CCDC158	114	.	NM_001042784	exon11	c.G1444A	p.E482K	ACTCTTCTACTAC	.	PASS	Atlas-SNP
KIAA0020	9933	hgsc.bcm.edu	37	9	2837218	2837218	+	Missense_Mutation	SNP	T	T	C	rs112185565	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	246.0	110.0	196.0	0.0	0.447154	0	T|0.999;C|0.001	0.001	strong	.	KIAA0020	56	.	NM_014878	exon3	c.A266G	p.N89S	TTCTTGTTGAATT	.	PASS	Atlas-SNP
ACTA1	58	hgsc.bcm.edu	37	1	229567384	229567384	+	Silent	SNP	G	G	T	rs74897770	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	99.0	43.0	119.0	0.0	0.434343	0	G|0.982;T|0.018	0.018	strong	.	ACTA1	65	.	NM_001100	exon7	c.C996A	p.I332I	CGGGGCGATGATC	.	PASS	Atlas-SNP
ETAA1	54465	hgsc.bcm.edu	37	2	67631541	67631541	+	Missense_Mutation	SNP	T	T	C	rs145096592	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	56.0	106.0	0.0	0.518519	0	T|0.999;C|0.001	0.001	strong	.	ETAA1	88	.	NM_019002	exon5	c.T1727C	p.F576S	GTTCTTTCTTTGA	.	PASS	Atlas-SNP
GANC	2595	hgsc.bcm.edu	37	15	42644235	42644235	+	Silent	SNP	A	A	G	rs145163630	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	85.0	141.0	0.0	0.442708	0	A|0.999;G|0.001	0.001	strong	.	GANC	57	.	NM_198141	exon24	c.A2643G	p.K881K	TGGTAAAGATCAG	.	PASS	Atlas-SNP
KLHL20	27252	hgsc.bcm.edu	37	1	173725101	173725101	+	Silent	SNP	G	G	A	rs16846395	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	60.0	125.0	0.0	0.504202	0	G|0.899;A|0.101	0.101	strong	.	KLHL20	54	.	NM_014458	exon6	c.G891A	p.P297P	ATTGCCGCAAGAA	.	PASS	Atlas-SNP
KDM2B	84678	hgsc.bcm.edu	37	12	121877739	121877739	+	Silent	SNP	G	G	A	rs35674891	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	54.0	105.0	0.0	0.442623	0	G|0.990;A|0.010	0.010	strong	.	KDM2B	218	.	NM_032590	exon22	c.C3750T	p.H1250H	GGTGACGTGGTTA	.	PASS	Atlas-SNP
XPR1	9213	hgsc.bcm.edu	37	1	180772708	180772708	+	Silent	SNP	T	T	C	rs12078050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	36.0	70.0	0.0	0.529412	0	T|0.942;C|0.058	0.058	strong	.	XPR1	76	.	NM_004736	exon4	c.T408C	p.S136S	CTTCAGTGAGTTC	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186026366	186026366	+	Missense_Mutation	SNP	C	C	T	rs140744695	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	41.0	74.0	0.0	0.450549	0	C|0.999;T|0.001	0.001	strong	.	HMCN1	797	.	NM_031935	exon46	c.C7145T	p.A2382V	TTACAGCTCCTCC	.	PASS	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	37	1	209797061	209797061	+	Missense_Mutation	SNP	C	C	T	rs114174766	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	37.0	101.0	0.0	0.493333	0	C|0.998;T|0.002	0.002	strong	.	LAMB3	136	.	NM_000228	exon16	c.G2147A	p.R716Q	AGCATCCGGAAGG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144873983	144873983	+	Silent	SNP	T	T	C	rs148165371	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	418.0	111.0	355.0	0.0	0.26555	0	T|0.999;C|0.001	0.001	strong	.	PDE4DIP	817	.	NM_014644	exon31	c.A4974G	p.P1658P	TGATGATGGTTTA	.	PASS	Atlas-SNP
SNX18	112574	hgsc.bcm.edu	37	5	53814736	53814736	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	15.0	143.0	0.0	0.108696	0	.	.	none	.	SNX18	102	.	NM_052870	exon1	c.G954C	p.W318C	CGACTGGCTGTAC	.	PASS	Atlas-SNP
DPPA4	55211	hgsc.bcm.edu	37	3	109049507	109049507	+	Silent	SNP	A	A	G	rs16834356	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	204.0	207.0	1.0	1	0.00483092	A|0.991;G|0.009	0.009	strong	.	DPPA4	56	.	NM_018189	exon5	c.T543C	p.N181N	AGTGGAATTTTCC	.	PASS	Atlas-SNP
VWA2	340706	hgsc.bcm.edu	37	10	116049199	116049199	+	Silent	SNP	C	C	T	rs148020287	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	93.0	139.0	0.0	0.574074	0	C|0.994;T|0.006	0.006	strong	VWA2,caecum,carcinoma,0,1	VWA2	64	1	NM_001272046	exon12	c.C2073T	p.Y691Y	AGCTTACGCCGAC	.	PASS	Atlas-SNP
NMT2	9397	hgsc.bcm.edu	37	10	15170387	15170387	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	149.0	6.0	97.0	0.0	0.0402685	0	.	.	none	.	NMT2	44	.	NM_004808	exon8	c.A961G	p.T321A	GTAAAGTCATATT	.	PASS	Atlas-SNP
ECI2	10455	hgsc.bcm.edu	37	6	4119492	4119492	+	Silent	SNP	T	T	C	rs10708	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	27.0	80.0	0.0	0.482143	0	T|0.962;C|0.038	0.038	strong	.	ECI2	59	.	NM_206836	exon8	c.A813G	p.P271P	ACTAAATGGTGTA	.	PASS	Atlas-SNP
POLE	5426	hgsc.bcm.edu	37	12	133201327	133201327	+	Missense_Mutation	SNP	T	T	A	rs73481453	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	72.0	169.0	0.0	0.467532	0	T|0.995;A|0.005	0.005	strong	.	POLE	416	.	NM_006231	exon49	c.A6817T	p.T2273S	CCAGGGTCTCCAG	.	PASS	Atlas-SNP
FOCAD	54914	hgsc.bcm.edu	37	9	20978439	20978439	+	Missense_Mutation	SNP	A	A	C	rs149031092	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	152.0	80.0	138.0	0.0	0.526316	0	A|1.000;C|0.000	0.000	strong	.	.	.	.	NM_017794	exon39	c.A4363C	p.I1455L	CCACTGATCCACA	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117103900	117103900	+	Missense_Mutation	SNP	T	T	C	rs2787344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	126.0	40.0	103.0	0.0	0.31746	0	T|0.919;C|0.081	0.081	strong	.	AKNA	119	.	NM_030767	exon21	c.A3980G	p.Y1327C	GCCAGATACCACA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179613962	179613962	+	Missense_Mutation	SNP	C	C	T	rs72648903	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	28.0	74.0	0.0	0.337349	0	C|0.980;T|0.020	0.020	strong	TTN_ENST00000360870,rectum,carcinoma,+1,1	TTN	18412	1	NM_133379	exon46	c.G13165A	p.V4389I	TAGTGACATCACT	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167142979	167142979	+	Missense_Mutation	SNP	C	C	T	rs58022607	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	181.0	168.0	0.0	1	0	C|0.964;T|0.036	0.036	strong	.	SCN9A	296	.	NM_002977	exon11	c.G1469A	p.S490N	TCTCCACTGGAGA	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105417286	105417286	+	Missense_Mutation	SNP	G	G	A	rs149840830	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	355.0	337.0	370.0	0.0	0.949296	0	G|0.966;A|0.034	0.034	strong	AHNAK2_ENST00000333244,colon,carcinoma,0,1	AHNAK2	719	1	NM_138420	exon7	c.C4502T	p.P1501L	AACGACGGCATCT	.	PASS	Atlas-SNP
NRIP1	8204	hgsc.bcm.edu	37	21	16337538	16337538	+	Silent	SNP	G	G	A	rs28587162	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	69.0	127.0	0.0	0.482517	0	G|0.979;A|0.021	0.021	strong	.	NRIP1	103	.	NM_003489	exon4	c.C2976T	p.S992S	GCAACTGCTGGGC	.	PASS	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	37	19	22155434	22155434	+	Missense_Mutation	SNP	T	T	C	rs139351235	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	16.0	21.0	0.0	0.615385	0	T|0.972;C|0.028	0.028	strong	.	ZNF208	817	.	NM_007153	exon4	c.A2402G	p.D801G	TTCTCATCAGTAT	.	PASS	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	37	11	117329597	117329597	+	Silent	SNP	G	G	C	rs115831160	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	48.0	100.0	0.0	0.40678	0	G|0.999;C|0.001	0.001	strong	.	DSCAML1	286	.	NM_020693	exon19	c.C3621G	p.T1207T	CCGCGTGGTGGTG	.	PASS	Atlas-SNP
GCOM1	145781	hgsc.bcm.edu	37	15	57925873	57925873	+	Missense_Mutation	SNP	G	G	C	rs148672365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	79.0	170.0	0.0	0.487654	0	G|0.994;C|0.006	0.006	strong	.	GCOM1	66	.	NM_001018090	exon8	c.G867C	p.E289D	AGCAGAGATCAGC	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160019901	160019901	+	Missense_Mutation	SNP	C	C	T	rs55929944	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	278.0	165.0	280.0	0.0	0.593525	0	C|0.971;T|0.029	0.029	strong	.	TANC1	157	.	NM_033394	exon8	c.C790T	p.R264C	CATGACCGCAGGG	.	PASS	Atlas-SNP
MTSS1	9788	hgsc.bcm.edu	37	8	125575047	125575047	+	Silent	SNP	G	G	T	rs16899702	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	93.0	50.0	88.0	0.0	0.537634	0	G|0.936;T|0.064	0.064	strong	.	MTSS1	79	.	NM_014751	exon10	c.C1011A	p.P337P	CGGCATGGGGGAT	.	PASS	Atlas-SNP
MED26	9441	hgsc.bcm.edu	37	19	16687870	16687870	+	Silent	SNP	G	G	A	rs61734286	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	89.0	41.0	106.0	0.0	0.460674	0	G|0.967;A|0.033	0.033	strong	.	MED26	25	.	NM_004831	exon3	c.C771T	p.D257D	AGTCTCGTCCACC	.	PASS	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	37	5	140256275	140256275	+	Silent	SNP	G	G	A	rs73793508	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	312.0	151.0	307.0	1.0	0.483974	0.00325733	G|0.990;A|0.010	0.010	strong	PCDHA12,NS,carcinoma,+1,1	PCDHA12	196	1	NM_018903	exon1	c.G1218A	p.S406S	CTACTCGTTGGTG	.	PASS	Atlas-SNP
GNG12	55970	hgsc.bcm.edu	37	1	68171215	68171215	+	Silent	SNP	A	A	G	rs17130202	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	42.0	102.0	0.0	0.407767	0	A|0.991;G|0.009	0.009	strong	.	GNG12	11	.	NM_018841	exon4	c.T138C	p.H46H	CCTGGCATGTTCC	.	PASS	Atlas-SNP
OR10G8	219869	hgsc.bcm.edu	37	11	123900968	123900968	+	Missense_Mutation	SNP	A	A	G	rs146815262	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	406.0	224.0	437.0	0.0	0.551724	0	A|0.999;G|0.001	0.001	strong	.	OR10G8	132	.	NM_001004464	exon1	c.A639G	p.I213M	CCTGATAGTGCTG	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46761135	46761135	+	Silent	SNP	G	G	T	rs9627424	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	28.0	75.0	0.0	0.509091	0	G|0.911;T|0.089	0.089	strong	.	CELSR1	242	.	NM_014246	exon32	c.C8547A	p.T2849T	TTTGGGGGTGCTG	.	PASS	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68650913	68650913	+	Silent	SNP	G	G	A	rs61729771	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	74.0	74.0	0.0	0.986667	0	G|0.956;A|0.044	0.044	strong	.	ITGA11	110	.	NM_001004439	exon6	c.C483T	p.T161T	CATGTAGGTCTGG	.	PASS	Atlas-SNP
GBP7	388646	hgsc.bcm.edu	37	1	89615023	89615023	+	Missense_Mutation	SNP	C	C	G	rs74098339	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	235.0	120.0	202.0	1.0	0.510638	0.00495049	C|0.988;G|0.012	0.012	strong	.	GBP7	57	.	NM_207398	exon7	c.G1104C	p.M368I	GTACTCCATGAAG	.	PASS	Atlas-SNP
GDPGP1	390637	hgsc.bcm.edu	37	15	90784862	90784862	+	Missense_Mutation	SNP	G	G	A	rs75296384	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	18.0	48.0	0.0	0.36	0	G|0.962;A|0.038	0.038	strong	.	.	.	.	NM_001013657	exon4	c.G722A	p.G241E	ACCCTGGAGGCCA	.	PASS	Atlas-SNP
NPTN	27020	hgsc.bcm.edu	37	15	73862606	73862606	+	Silent	SNP	C	C	T	rs35100473	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	103.0	160.0	0.0	0.550802	0	C|0.988;G|0.000;T|0.012	0.012	strong	.	NPTN	35	.	NM_001161363	exon6	c.G999A	p.V333V	GCTCCGCACCCTG	.	PASS	Atlas-SNP
CCDC160	347475	hgsc.bcm.edu	37	X	133378851	133378851	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	146.0	91.0	149.0	0.0	0.623288	0	.	.	none	.	CCDC160	38	.	NM_001101357	exon2	c.C21T	p.H7H	AAAACACTGGAAG	.	PASS	Atlas-SNP
ZNF442	79973	hgsc.bcm.edu	37	19	12462873	12462873	+	Nonsense_Mutation	SNP	C	C	A	rs73507958	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	61.0	133.0	0.0	0.516949	0	C|0.993;A|0.007	0.007	strong	.	ZNF442	102	.	NM_030824	exon5	c.G217T	p.E73X	TGTCTTCCCATTT	.	PASS	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	94562	94562	+	Silent	SNP	G	G	A	rs145350711	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	62.0	107.0	0.0	0.558559	0	G|0.999;A|0.001	0.001	strong	.	TUBB8	62	.	NM_177987	exon3	c.C270T	p.F90F	GAAGATGAAGTTG	.	PASS	Atlas-SNP
HSPBAP1	79663	hgsc.bcm.edu	37	3	122496628	122496628	+	Missense_Mutation	SNP	A	A	C	rs16833517	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	346.0	191.0	275.0	0.0	0.552023	0	A|0.951;C|0.049	0.049	strong	HSPBAP1,NS,carcinoma,+1,1	HSPBAP1	32	1	NM_024610	exon2	c.T190G	p.S64A	CCTGCGAAAGGTA	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011544	46011544	+	Silent	SNP	G	G	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	327.0	33.0	257.0	0.0	0.100917	0	.	.	none	.	KRTAP10-6	57	.	NM_198688	exon1	c.C822G	p.V274V	AGAGCAGACGGGC	.	PASS	Atlas-SNP
GOLPH3	64083	hgsc.bcm.edu	37	5	32126441	32126441	+	Silent	SNP	G	G	A	rs34212503	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	65.0	136.0	0.0	0.460993	0	G|0.966;A|0.034	0.034	strong	.	GOLPH3	25	.	NM_022130	exon4	c.C774T	p.D258D	CTGCTCGTCCAGA	.	PASS	Atlas-SNP
PRPF4	9128	hgsc.bcm.edu	37	9	116041316	116041316	+	Silent	SNP	T	T	C	rs146246780	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	57.0	76.0	0.0	0.587629	0	T|0.999;C|0.001	0.001	strong	.	PRPF4	56	.	NM_004697	exon3	c.T300C	p.N100N	GATCAATGTTTCC	.	PASS	Atlas-SNP
CNTN5	53942	hgsc.bcm.edu	37	11	100226900	100226900	+	Silent	SNP	G	G	A	rs34539243	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	56.0	115.0	0.0	0.595745	0	G|0.988;A|0.012	0.012	strong	.	CNTN5	324	.	NM_001243270	exon24	c.G3252A	p.S1084S	ATCTTCGTCATCA	.	PASS	Atlas-SNP
LEFTY1	10637	hgsc.bcm.edu	37	1	226074436	226074436	+	Silent	SNP	G	G	C	rs35684337	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	109.0	182.0	0.0	0.550505	0	G|0.963;C|0.037	0.037	strong	.	LEFTY1	30	.	NM_020997	exon4	c.C1092G	p.L364L	TGGCTGGAGCCTC	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38770198	38770198	+	Missense_Mutation	SNP	T	T	G	rs146028829	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	347.0	160.0	324.0	0.0	0.461095	0	T|0.999;G|0.001	0.001	strong	SCN10A,NS,carcinoma,0,2	SCN10A	359	2	NM_006514	exon15	c.A2475C	p.E825D	CCAGTCTTCATGG	.	PASS	Atlas-SNP
MTFR2	113115	hgsc.bcm.edu	37	6	136560948	136560948	+	Silent	SNP	G	G	A	rs10484485	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	37.0	56.0	0.0	0.493333	0	G|0.939;A|0.061	0.061	strong	.	.	.	.	NM_138419	exon6	c.C525T	p.G175G	ACTCAAGCCAAAG	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113662508	113662508	+	Silent	SNP	A	A	G	rs7839690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	90.0	225.0	0.0	0.410959	0	A|0.972;G|0.028	0.028	strong	CSMD3_ENST00000343508,colon,carcinoma,-2,2	CSMD3	2325	2	NM_198123	exon19	c.T3075C	p.D1025D	GGAGAAATCATGA	.	PASS	Atlas-SNP
SLC35E4	339665	hgsc.bcm.edu	37	22	31032881	31032881	+	Silent	SNP	G	G	A	rs8136373	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	39.0	38.0	46.0	0.0	0.974359	0	G|0.900;A|0.100	0.100	strong	.	SLC35E4	22	.	NM_001001479	exon1	c.G444A	p.L148L	CACCCTGGCCCTG	.	PASS	Atlas-SNP
CAPN9	10753	hgsc.bcm.edu	37	1	230916057	230916057	+	Missense_Mutation	SNP	T	T	G	rs79844715	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	71.0	136.0	0.0	0.47973	0	T|0.998;G|0.002	0.002	strong	.	CAPN9	116	.	NM_006615	exon10	c.T1247G	p.L416R	ATGTGCTGACAAT	.	PASS	Atlas-SNP
ZNF678	339500	hgsc.bcm.edu	37	1	227842516	227842516	+	Missense_Mutation	SNP	G	G	C	rs61744724	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	60.0	30.0	56.0	0.0	0.5	0	G|0.987;C|0.013	0.013	strong	.	ZNF678	137	.	NM_178549	exon4	c.G730C	p.V244L	GACAAAGTTTTTA	.	PASS	Atlas-SNP
SNAP91	9892	hgsc.bcm.edu	37	6	84303273	84303273	+	Silent	SNP	G	G	A	rs181491904	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	105.0	57.0	96.0	0.0	0.542857	0	G|0.995;A|0.005	0.005	strong	.	SNAP91	199	.	NM_001242792	exon17	c.C1620T	p.T540T	AGCGGCGGTGGCA	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	37	10	116056779	116056779	+	Silent	SNP	C	C	T	rs62641713	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	337.0	337.0	297.0	1.0	1	0.003367	C|0.953;T|0.047	0.047	strong	.	AFAP1L2	90	.	NM_001001936	exon18	c.G2388A	p.S796S	CACGACCGAGAGA	.	PASS	Atlas-SNP
KANK2	25959	hgsc.bcm.edu	37	19	11289073	11289073	+	Missense_Mutation	SNP	C	C	T	rs115473443	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	45.0	81.0	0.0	0.441176	0	C|0.985;T|0.015	0.015	strong	.	KANK2	47	.	NM_015493	exon4	c.G1492A	p.A498T	GGTCTGCAACCTC	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29416750	29416750	+	Silent	SNP	A	A	G	rs55772745	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	133.0	78.0	146.0	0.0	0.586466	0	A|0.979;G|0.021	0.021	strong	.	ALK	533	.	NM_004304	exon29	c.T4203C	p.Y1401Y	TGGACCATATTCT	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2162810	2162810	+	Missense_Mutation	SNP	G	G	A	rs147910505	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	11.0	27.0	0.0	0.423077	0	G|0.999;A|0.001	0.001	strong	.	PKD1	184	.	NM_000296	exon13	c.C3140T	p.S1047L	ACGGCCGAGTCCA	.	PASS	Atlas-SNP
CRELD1	78987	hgsc.bcm.edu	37	3	9984855	9984855	+	Silent	SNP	C	C	T	rs79223485	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	102.0	43.0	107.0	0.0	0.421569	0	C|0.975;T|0.025	0.025	strong	.	CRELD1	48	.	NM_001077415	exon9	c.C912T	p.L304L	GTGTCTCGGTGAG	.	PASS	Atlas-SNP
ANKRD36B	57730	hgsc.bcm.edu	37	2	98197010	98197010	+	Missense_Mutation	SNP	G	G	A	rs2922614	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	517.0	223.0	533.0	0.0	0.431335	0	G|0.984;A|0.016	0.016	strong	.	.	.	.	NM_025190	exon4	c.C472T	p.L158F	CAGCAAGTAACAG	.	PASS	Atlas-SNP
EPM2AIP1	9852	hgsc.bcm.edu	37	3	37033348	37033348	+	Silent	SNP	A	A	G	rs200289425	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	135.0	65.0	144.0	0.0	0.481481	0	A|0.999;G|0.001	0.001	strong	.	EPM2AIP1	47	.	NM_014805	exon1	c.T1221C	p.A407A	AAAGGCAGCAGCA	.	PASS	Atlas-SNP
NET1	10276	hgsc.bcm.edu	37	10	5498102	5498102	+	Missense_Mutation	SNP	C	C	T	rs34658946	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	20.0	65.0	0.0	0.363636	0	C|0.984;T|0.016	0.016	strong	.	NET1	82	.	NM_001047160	exon11	c.C1250T	p.T417I	CCGTCACACGGAA	.	PASS	Atlas-SNP
SYNPO2	171024	hgsc.bcm.edu	37	4	119952589	119952589	+	Missense_Mutation	SNP	G	G	A	rs115012720	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	83.0	42.0	53.0	0.0	0.506024	0	G|0.993;A|0.007	0.007	strong	.	SYNPO2	353	.	NM_001128934	exon4	c.G2659A	p.V887M	AAGTATGTGGTCG	.	PASS	Atlas-SNP
LUZP1	7798	hgsc.bcm.edu	37	1	23419914	23419914	+	Missense_Mutation	SNP	G	G	A	rs142425004	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	313.0	147.0	341.0	0.0	0.469649	0	G|0.999;A|0.001	0.001	strong	LUZP1,NS,carcinoma,+1,1	LUZP1	83	1	NM_033631	exon4	c.C841T	p.R281C	GATTGCGGTTCTT	.	PASS	Atlas-SNP
C16orf89	146556	hgsc.bcm.edu	37	16	5115811	5115811	+	Silent	SNP	G	G	A	rs35751409	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	61.0	127.0	0.0	0.426573	0	G|0.990;A|0.010	0.010	strong	.	C16orf89	64	.	NM_001098514	exon1	c.C99T	p.A33A	AATGGTGGCTTTA	.	PASS	Atlas-SNP
CDK2AP1	8099	hgsc.bcm.edu	37	12	123749834	123749834	+	Silent	SNP	G	G	A	rs76783415	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	77.0	147.0	0.0	0.52027	0	G|0.970;A|0.030	0.030	strong	.	CDK2AP1	8	.	NM_004642	exon3	c.C189T	p.Y63Y	CTCCGCGTATTTG	.	PASS	Atlas-SNP
BSPRY	54836	hgsc.bcm.edu	37	9	116131916	116131916	+	Missense_Mutation	SNP	G	G	A	rs377189582	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	50.0	59.0	0.0	0.746269	0	.	.	alt	.	BSPRY	21	.	NM_017688	exon6	c.G703A	p.D235N	CGGATCGATGAGA	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43524188	43524188	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	47.0	7.0	49.0	0.0	0.148936	0	.	.	none	.	UMODL1	186	.	NM_173568	exon9	c.C1510T	p.R504C	GGGACACGCGTGC	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95921722	95921722	+	Missense_Mutation	SNP	G	G	A	rs74079986	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	45.0	79.0	0.0	0.6	0	G|0.988;A|0.012	0.012	strong	.	SYNE3	130	.	NM_152592	exon5	c.C1129T	p.R377C	AGTAGCGTCTCCA	.	PASS	Atlas-SNP
DSC1	1823	hgsc.bcm.edu	37	18	28712639	28712639	+	Silent	SNP	T	T	C	rs16961338	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	50.0	144.0	0.0	0.480769	0	T|0.959;C|0.041	0.041	strong	.	DSC1	240	.	NM_004948	exon14	c.A2130G	p.T710T	GAAACATGTAAAC	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33457328	33457328	+	Silent	SNP	C	C	T	rs150504912		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	50.0	75.0	1.0	0.531915	0.0133333	C|1.000;T|0.000	0.000	weak	CEP89,caecum,carcinoma,0,1	CEP89	82	1	NM_032816	exon2	c.G84A	p.P28P	TGCCTTCGGAGCA	.	scavenged	Atlas-SNP
KCNQ2	3785	hgsc.bcm.edu	37	20	62078184	62078184	+	Silent	SNP	G	G	C	rs145415996	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	39.0	114.0	0.0	0.428571	0	G|0.998;C|0.002	0.002	strong	.	KCNQ2	201	.	NM_172106	exon2	c.C303G	p.L101L	AACCAGGAGGAAC	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111854859	111854859	+	Missense_Mutation	SNP	C	C	T	rs61752461	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	197.0	92.0	188.0	0.0	0.467005	0	C|0.988;T|0.012	0.012	strong	CHIA_ENST00000369740,NS,carcinoma,-2,1	CHIA	115	1	NM_201653	exon4	c.C103T	p.R35W	CAGTACCGGCCAG	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56369668	56369668	+	Silent	SNP	C	C	T	rs112565033	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	143.0	78.0	174.0	0.0	0.545455	0	C|0.994;T|0.006	0.006	strong	.	NLRP4	331	.	NM_134444	exon3	c.C909T	p.N303N	ATTCAACGAGAGT	.	PASS	Atlas-SNP
CCDC151	115948	hgsc.bcm.edu	37	19	11537006	11537006	+	Silent	SNP	G	G	A	rs61739937	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	43.0	19.0	52.0	0.0	0.44186	0	G|0.986;A|0.014	0.014	strong	.	CCDC151	44	.	NM_145045	exon7	c.C921T	p.R307R	CTCGGCGCGCTTC	.	PASS	Atlas-SNP
EDIL3	10085	hgsc.bcm.edu	37	5	83433087	83433087	+	Silent	SNP	G	G	A	rs58219060	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	35.0	59.0	0.0	0.522388	0	G|0.965;A|0.035	0.035	strong	.	EDIL3	94	.	NM_005711	exon5	c.C441T	p.G147G	AAATTCGCCTGGG	.	PASS	Atlas-SNP
XPA	7507	hgsc.bcm.edu	37	9	100449436	100449436	+	Missense_Mutation	SNP	A	A	G	rs143374902	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	55.0	76.0	0.0	0.774648	0	A|0.996;G|0.004	0.004	strong	.	XPA	21	.	NM_000380	exon4	c.T497C	p.V166A	TTCTTCACAATAA	.	PASS	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	37	12	25672877	25672877	+	Missense_Mutation	SNP	C	C	T	rs34074522	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	50.0	159.0	0.0	0.420168	0	C|0.980;T|0.020	0.020	strong	IFLTD1_ENST00000458174,NS,carcinoma,+1,2	IFLTD1	121	2	NM_001145728	exon7	c.G931A	p.A311T	TTGTAGCTGTAGA	.	PASS	Atlas-SNP
SLC5A2	6524	hgsc.bcm.edu	37	16	31501642	31501642	+	Missense_Mutation	SNP	C	C	T	rs61746400	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	31.0	84.0	0.0	0.413333	0	C|0.992;T|0.008	0.008	strong	.	SLC5A2	58	.	NM_003041	exon14	c.C1805T	p.P602L	AGGCCCCGGCACC	.	PASS	Atlas-SNP
OR13C5	138799	hgsc.bcm.edu	37	9	107361038	107361038	+	Silent	SNP	C	C	T	rs75872480	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	212.0	134.0	173.0	0.0	0.632075	0	C|0.998;T|0.002	0.002	strong	OR13C5,NS,haematopoietic_neoplasm,-1,1	OR13C5	60	1	NM_001004482	exon1	c.G657A	p.T219T	GATTAACGTGTAA	.	PASS	Atlas-SNP
EPHB2	2048	hgsc.bcm.edu	37	1	23222008	23222008	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	59.0	103.0	0.0	0.513043	0	.	.	none	.	EPHB2	257	.	NM_004442	exon8	c.C1635T	p.I545I	CATCATCGGCTCC	.	PASS	Atlas-SNP
UAP1	6675	hgsc.bcm.edu	37	1	162560209	162560209	+	Silent	SNP	G	G	A	rs61743694	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	88.0	167.0	0.0	0.54321	0	G|0.969;A|0.031	0.031	strong	.	UAP1	47	.	NM_003115	exon8	c.G1266A	p.R422R	TGCAAGGCATGCT	.	PASS	Atlas-SNP
CHAF1B	8208	hgsc.bcm.edu	37	21	37787615	37787615	+	Missense_Mutation	SNP	A	A	C	rs74900401	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	20.0	38.0	0.0	0.4	0	A|0.984;C|0.016;T|0.000	0.016	strong	.	CHAF1B	47	.	NM_005441	exon13	c.A1516C	p.K506Q	CCCTTAAAGACGG	.	PASS	Atlas-SNP
TMEM254	80195	hgsc.bcm.edu	37	10	81838864	81838864	+	Missense_Mutation	SNP	A	A	G	rs61748824	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	232.0	120.0	193.0	0.0	0.517241	0	A|0.988;G|0.012	0.012	strong	.	TMEM254	1	.	NM_001270368	exon1	c.A83G	p.N28S	CCAGCAATGCGGC	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8171068	8171068	+	Silent	SNP	G	G	A	rs7258713	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	42.0	69.0	0.0	0.512195	0	G|0.925;A|0.075	0.075	strong	.	FBN3	300	.	NM_032447	exon37	c.C4737T	p.C1579C	GTTGACGCAGTCA	.	PASS	Atlas-SNP
BUB1B	701	hgsc.bcm.edu	37	15	40512906	40512906	+	Silent	SNP	A	A	G	rs35611758	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	137.0	73.0	151.0	0.0	0.532847	0	A|0.915;G|0.085	0.085	strong	.	BUB1B	71	.	NM_001211	exon23	c.A3099G	p.K1033K	GAACAAAGCCTTA	.	PASS	Atlas-SNP
C5orf45	51149	hgsc.bcm.edu	37	5	179285781	179285781	+	Missense_Mutation	SNP	G	G	A	rs199537217	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	27.0	59.0	0.0	0.54	0	G|0.999;A|0.001	0.001	strong	.	C5orf45	23	.	NM_016175	exon1	c.C16T	p.R6C	GAGAACGCTGAAG	.	PASS	Atlas-SNP
ATP6V1G3	127124	hgsc.bcm.edu	37	1	198498234	198498234	+	Missense_Mutation	SNP	C	C	G	rs16843254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	58.0	66.0	0.0	0.58	0	C|0.959;G|0.041	0.041	strong	.	ATP6V1G3	26	.	NM_133262	exon3	c.G160C	p.E54Q	GAAACTCTTTATC	.	PASS	Atlas-SNP
CXXC11	285093	hgsc.bcm.edu	37	2	242814778	242814778	+	Silent	SNP	C	C	T	rs7597435	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	88.0	182.0	0.0	0.444444	0	C|0.963;T|0.037	0.037	strong	.	.	.	.	NM_173821	exon2	c.C1071T	p.T357T	GCCCACCGATGGC	.	PASS	Atlas-SNP
REG4	83998	hgsc.bcm.edu	37	1	120341193	120341193	+	Missense_Mutation	SNP	C	C	T	rs75358916	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	225.0	120.0	203.0	1.0	0.533333	0.00492611	C|0.991;T|0.009	0.009	strong	.	REG4	36	.	NM_032044	exon5	c.G336A	p.M112I	CAGATACATGGCC	.	PASS	Atlas-SNP
C19orf45	374877	hgsc.bcm.edu	37	19	7573225	7573225	+	Missense_Mutation	SNP	C	C	T	rs141790796	bycluster;alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	10.0	124.0	0.0	0.0719424	0	C|1.000;A|0.000	.	alt	.	C19orf45	36	.	NM_198534	exon9	c.C1427T	p.P476L	TCGTGCCCCTGGG	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37182940	37182940	+	Silent	SNP	T	T	A	rs73750949	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	41.0	79.0	0.0	0.525641	0	T|0.973;A|0.027	0.027	strong	.	C5orf42	422	.	NM_023073	exon26	c.A5343T	p.T1781T	GGCAGCTGTAGAG	.	PASS	Atlas-SNP
TXK	7294	hgsc.bcm.edu	37	4	48096101	48096101	+	Silent	SNP	A	A	G	rs73151620	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	92.0	92.0	87.0	0.0	1	0	A|0.959;G|0.041	0.041	strong	.	TXK	58	.	NM_003328	exon8	c.T702C	p.N234N	GGCTGCATTGTGC	.	PASS	Atlas-SNP
CPNE7	27132	hgsc.bcm.edu	37	16	89655120	89655120	+	Missense_Mutation	SNP	G	G	A	rs28568523	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	41.0	66.0	0.0	0.706897	0	G|0.992;A|0.008	0.008	strong	.	CPNE7	56	.	NM_014427	exon12	c.G1190A	p.R397Q	ACCCGCGGAACAG	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36856579	36856579	+	Silent	SNP	G	G	A	rs74723843	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	27.0	12.0	37.0	0.0	0.444444	0	G|0.974;A|0.026	0.026	strong	.	KIAA1755	145	.	NM_001029864	exon6	c.C1935T	p.P645P	CAGACCGGGCTGT	.	PASS	Atlas-SNP
PCDHB2	56133	hgsc.bcm.edu	37	5	140475958	140475958	+	Silent	SNP	G	G	T	rs371176940	alternate_allele	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	10.0	209.0	0.0	0.0487805	0	.	.	alt	.	PCDHB2	163	.	NM_018936	exon1	c.G1584T	p.A528A	GCAGGCGTTCGAG	.	PASS	Atlas-SNP
CC2D2B	387707	hgsc.bcm.edu	37	10	97779510	97779510	+	Missense_Mutation	SNP	T	T	C	rs9943393	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	288.0	127.0	271.0	0.0	0.440972	0	T|0.988;C|0.012	0.012	strong	.	CC2D2B	46	.	NM_001001732	exon8	c.T709C	p.Y237H	TTTGACTATTCAA	.	PASS	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	37	1	54060107	54060107	+	Missense_Mutation	SNP	A	A	G	rs34961060	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	63.0	31.0	68.0	0.0	0.492063	0	A|0.968;G|0.032	0.032	strong	.	GLIS1	52	.	NM_147193	exon3	c.T469C	p.F157L	GCCCAAAGAGCTC	.	PASS	Atlas-SNP
DNAJC17	55192	hgsc.bcm.edu	37	15	41068409	41068409	+	Missense_Mutation	SNP	C	C	T	rs73398528	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	46.0	88.0	0.0	0.446602	0	C|0.947;T|0.053	0.053	strong	.	DNAJC17	18	.	NM_018163	exon6	c.G463A	p.D155N	TCTGGTCACGCTC	.	PASS	Atlas-SNP
SMYD2	56950	hgsc.bcm.edu	37	1	214507580	214507580	+	Missense_Mutation	SNP	A	A	G	rs34259050	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	86.0	133.0	0.0	0.480447	0	A|0.983;G|0.017	0.017	strong	.	SMYD2	40	.	NM_020197	exon11	c.A1150G	p.M384V	GCCTCCATGTGGT	.	PASS	Atlas-SNP
COL1A1	1277	hgsc.bcm.edu	37	17	48263786	48263786	+	Silent	SNP	G	G	A	rs34940368	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	63.0	134.0	1.0	0.446809	0.00746269	G|0.994;A|0.006	0.006	strong	COL1A1,rectum,carcinoma,0,1	COL1A1	158	1	NM_000088	exon49	c.C3897T	p.C1299C	GTACACGCAGGTC	.	scavenged	Atlas-SNP
EPC2	26122	hgsc.bcm.edu	37	2	149528738	149528738	+	Missense_Mutation	SNP	A	A	G	rs34444151	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	181.0	96.0	216.0	0.0	0.530387	0	A|0.992;G|0.008	0.008	strong	.	EPC2	57	.	NM_015630	exon10	c.A1502G	p.N501S	GGACCAATGCTTC	.	PASS	Atlas-SNP
TRIM72	493829	hgsc.bcm.edu	37	16	31235548	31235548	+	Silent	SNP	G	G	C	rs58585879	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	33.0	10.0	25.0	0.0	0.30303	0	G|0.966;C|0.034	0.034	strong	.	TRIM72	32	.	NM_001008274	exon7	c.G906C	p.L302L	GAGCCTGGTGGTG	.	PASS	Atlas-SNP
KCNQ1	3784	hgsc.bcm.edu	37	11	2683252	2683252	+	Silent	SNP	C	C	T	rs17215465	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	83.0	133.0	0.0	0.553333	0	C|0.983;T|0.017	0.017	strong	.	KCNQ1	60	.	NM_000218	exon11	c.C1455T	p.F485F	CAGCTTCGCCGAG	.	PASS	Atlas-SNP
ZNF708	7562	hgsc.bcm.edu	37	19	21476912	21476912	+	Missense_Mutation	SNP	C	C	T	rs112819776	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	23.0	9.0	31.0	0.0	0.391304	0	C|0.994;T|0.006	0.006	strong	ZNF708,NS,carcinoma,0,1	ZNF708	66	1	NM_021269	exon4	c.G856A	p.G286S	CTTTGCCACATTC	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225393828	225393828	+	Missense_Mutation	SNP	A	A	G	rs143058170	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	19.0	62.0	0.0	0.395833	0	A|0.993;G|0.007	0.007	strong	.	DNAH14	300	.	NM_001373	exon39	c.A6067G	p.N2023D	GTGGACAATCTCT	.	PASS	Atlas-SNP
C13orf35	400165	hgsc.bcm.edu	37	13	113333809	113333809	+	Missense_Mutation	SNP	G	G	A	rs114091399	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	51.0	94.0	0.0	0.472222	0	G|0.985;A|0.015	0.015	strong	.	C13orf35	13	.	NM_207440	exon2	c.G116A	p.G39D	CGGCAGGTCTGGA	.	PASS	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	37	19	39227889	39227889	+	Silent	SNP	C	C	T	rs202082771	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	35.0	20.0	28.0	0.0	0.571429	0	.	.	weak	.	CAPN12	43	.	NM_144691	exon10	c.G1269A	p.K423K	CGTGCACTTGGGC	.	PASS	Atlas-SNP
BHLHB9	80823	hgsc.bcm.edu	37	X	102005371	102005371	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	429.0	59.0	438.0	0.0	0.137529	0	.	.	none	.	BHLHB9	60	.	NM_001142530	exon2	c.A1448T	p.N483I	TGATCAATATGAA	.	PASS	Atlas-SNP
OR8G5	219865	hgsc.bcm.edu	37	11	124135143	124135143	+	Missense_Mutation	SNP	G	G	A	rs200012972	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	258.0	127.0	332.0	0.0	0.492248	0	.	.	weak	.	.	.	.	NM_001005198	exon1	c.G421A	p.V141I	TTCCTCGTTTTTG	.	PASS	Atlas-SNP
NDUFV2	4729	hgsc.bcm.edu	37	18	9117899	9117899	+	Missense_Mutation	SNP	G	G	A	rs75362221	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	52.0	126.0	0.0	0.422764	0	G|0.996;A|0.004	0.004	strong	.	NDUFV2	17	.	NM_021074	exon2	c.G118A	p.V40M	TTATTTGTGGTAA	.	PASS	Atlas-SNP
NFATC3	4775	hgsc.bcm.edu	37	16	68225197	68225197	+	Silent	SNP	C	C	T	rs140991156	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	251.0	125.0	243.0	1.0	0.498008	0.00411523	C|1.000;T|0.000	0.000	strong	.	NFATC3	190	.	NM_173163	exon9	c.C2625T	p.T875T	GCATACCCTGCCT	.	PASS	Atlas-SNP
CEACAM8	1088	hgsc.bcm.edu	37	19	43087428	43087428	+	Missense_Mutation	SNP	A	A	C	rs8103051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	318.0	157.0	323.0	0.0	0.493711	0	A|0.937;C|0.063	0.063	strong	.	CEACAM8	44	.	NM_001816	exon5	c.T1020G	p.I340M	TACTCCAATCATG	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26374571	26374571	+	Silent	SNP	G	G	A	rs115820857	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	216.0	96.0	215.0	0.0	0.444444	0	G|0.988;A|0.012	0.012	strong	.	BTN3A2	44	.	NM_001197246	exon7	c.G981A	p.S327S	GTCTTCGTCCGAT	.	PASS	Atlas-SNP
PRUNE	58497	hgsc.bcm.edu	37	1	150997155	150997155	+	Missense_Mutation	SNP	G	G	A	rs56805474	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	33.0	106.0	0.0	0.33	0	G|0.965;A|0.035	0.035	strong	.	PRUNE	40	.	NM_021222	exon4	c.G404A	p.C135Y	AACACTGCCCTCC	.	PASS	Atlas-SNP
TMEM8B	51754	hgsc.bcm.edu	37	9	35845998	35845998	+	Silent	SNP	G	G	C	rs34807292	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	50.0	24.0	65.0	0.0	0.48	0	G|0.969;C|0.031	0.031	strong	.	TMEM8B	53	.	NM_001042590	exon7	c.G306C	p.T102T	CGTGACGGTGTTT	.	PASS	Atlas-SNP
ZNF843	283933	hgsc.bcm.edu	37	16	31448168	31448168	+	Missense_Mutation	SNP	C	C	T	rs150789330	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	37.0	55.0	0.0	0.578125	0	C|0.999;T|0.001	0.001	strong	.	ZNF843	14	.	NM_001136509	exon2	c.G3A	p.M1I	GCTTCTCATGAGC	.	PASS	Atlas-SNP
RAB40AL	282808	hgsc.bcm.edu	37	X	102192372	102192372	+	Silent	SNP	G	G	A	rs61745023	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	455.0	145.0	507.0	0.0	0.318681	0	G|0.981;A|0.019	0.019	strong	.	RAB40AL	33	.	NM_001031834	exon1	c.G126A	p.P42P	GTCCCCGTACAGT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093228	1093228	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	66.0	13.0	60.0	0.0	0.19697	0	.	.	none	.	MUC2	614	.	NM_002457	exon30	c.A5047G	p.T1683A	ACCACTACGGTGA	.	PASS	Atlas-SNP
JSRP1	126306	hgsc.bcm.edu	37	19	2253641	2253641	+	Silent	SNP	G	G	T	rs200918439	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	24.0	15.0	31.0	0.0	0.625	0	G|0.996;T|0.004	0.004	strong	.	JSRP1	18	.	NM_144616	exon5	c.C414A	p.G138G	AGCCGAGCCCAGC	.	PASS	Atlas-SNP
SPANXN1	494118	hgsc.bcm.edu	37	X	144337286	144337286	+	Silent	SNP	G	G	A	rs75090998	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	365.0	363.0	374.0	0.0	0.994521	0	G|0.919;A|0.081	0.081	strong	.	SPANXN1	23	.	NM_001009614	exon2	c.G171A	p.R57R	CTACAGGAAAGCT	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158631106	158631106	+	Missense_Mutation	SNP	G	G	C	rs35121052	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	338.0	165.0	311.0	0.0	0.488166	0	G|0.933;C|0.067	0.067	strong	.	SPTA1	720	.	NM_003126	exon18	c.C2558G	p.T853R	CTTTCTGTTATCT	.	PASS	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	37	12	122618417	122618417	+	Missense_Mutation	SNP	G	G	T	rs34702867	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	14.0	55.0	0.0	0.368421	0	G|0.973;T|0.027	0.027	strong	.	MLXIP	46	.	NM_014938	exon9	c.G1615T	p.V539L	ACTTTTGTGCACC	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241404914	241404914	+	Silent	SNP	C	C	T	rs2228329	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	115.0	54.0	117.0	0.0	0.469565	0	C|0.991;T|0.009	0.009	strong	.	GPC1	32	.	NM_002081	exon8	c.C1293T	p.D431D	GGGTGACGGCCTG	.	PASS	Atlas-SNP
CPT1A	1374	hgsc.bcm.edu	37	11	68529027	68529027	+	Silent	SNP	A	A	G	rs2228503	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	51.0	119.0	0.0	0.459459	0	A|0.991;G|0.009	0.009	strong	CPT1A,colon,carcinoma,0,1	CPT1A	89	1	NM_001876	exon16	c.T2004C	p.A668A	CTCCACAGCGAGA	.	PASS	Atlas-SNP
SYT2	127833	hgsc.bcm.edu	37	1	202569555	202569555	+	Silent	SNP	C	C	T	rs907699	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	55.0	87.0	0.0	0.518868	0	C|0.917;T|0.083	0.083	strong	.	SYT2	51	.	NM_177402	exon7	c.G849A	p.T283T	CCCGGCCGTGGGC	.	PASS	Atlas-SNP
CXorf36	79742	hgsc.bcm.edu	37	X	45011018	45011018	+	Missense_Mutation	SNP	C	C	A	rs143817529	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	108.0	121.0	0.0	0.990826	0	C|0.970;A|0.030	0.030	strong	.	CXorf36	53	.	NM_176819	exon5	c.G1181T	p.R394L	TCTGGGCGGATGC	.	PASS	Atlas-SNP
WBSCR27	155368	hgsc.bcm.edu	37	7	73254871	73254871	+	Silent	SNP	A	A	G	rs61741292	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	95.0	95.0	111.0	0.0	1	0	A|0.974;G|0.026	0.026	strong	.	WBSCR27	21	.	NM_152559	exon4	c.T261C	p.A87A	GCCTGGAGCCCGC	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118634297	118634297	+	Missense_Mutation	SNP	A	A	C	rs150596428	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	145.0	59.0	145.0	0.0	0.406897	0	A|0.997;C|0.003	0.003	strong	.	SPAG17	263	.	NM_206996	exon10	c.T1291G	p.Y431D	GCAAATAATTGTA	.	PASS	Atlas-SNP
FTSJ2	29960	hgsc.bcm.edu	37	7	2275177	2275177	+	Silent	SNP	G	G	A	rs11547272	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	29.0	35.0	0.0	0.690476	0	G|0.982;C|0.000;A|0.018	0.018	strong	.	FTSJ2	22	.	NM_013393	exon3	c.C321T	p.F107F	AAGCACGAAGCCA	.	PASS	Atlas-SNP
SPHK2	56848	hgsc.bcm.edu	37	19	49133020	49133020	+	Missense_Mutation	SNP	G	G	A	rs11881285	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	165.0	150.0	1.0	1	0.00666667	G|0.942;A|0.058	0.058	strong	.	SPHK2	62	.	NM_020126	exon7	c.G1955A	p.R652Q	CGGGGCGGGAGCC	.	PASS	Atlas-SNP
DGKA	1606	hgsc.bcm.edu	37	12	56346891	56346891	+	Silent	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	108.0	48.0	123.0	0.0	0.444444	0	.	.	none	.	DGKA	70	.	NM_201554	exon22	c.C2010T	p.T670T	CTATACCAAGCTC	.	PASS	Atlas-SNP
BRSK1	84446	hgsc.bcm.edu	37	19	55815072	55815072	+	Silent	SNP	C	C	T	rs17851414	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	60.0	158.0	0.0	0.491803	0	C|0.969;T|0.031	0.031	strong	.	BRSK1	192	.	NM_032430	exon12	c.C1164T	p.S388S	GCTGAGCCGTCAC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81208348	81208348	+	Missense_Mutation	SNP	G	G	T	rs745211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	67.0	115.0	0.0	0.567797	0	G|0.924;T|0.076	0.076	strong	.	PKD1L2	361	.	NM_001076780	exon16	c.C2755A	p.L919M	TGCTCAGTGACTG	.	PASS	Atlas-SNP
PSMF1	9491	hgsc.bcm.edu	37	20	1106143	1106143	+	Silent	SNP	G	G	A	rs35517343	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	52.0	90.0	0.0	0.490566	0	G|0.995;A|0.005	0.005	strong	.	PSMF1	27	.	NM_006814	exon2	c.G132A	p.P44P	CCAGCCGGGTCCC	.	PASS	Atlas-SNP
TRAF1	7185	hgsc.bcm.edu	37	9	123671613	123671613	+	Silent	SNP	C	C	T	rs112060909	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	48.0	109.0	0.0	0.377953	0	C|0.983;T|0.017	0.017	strong	.	TRAF1	42	.	NM_005658	exon7	c.G927A	p.L309L	CAGGTACAGCCGC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179610619	179610619	+	Missense_Mutation	SNP	C	C	G	rs16866489	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	66.0	91.0	0.0	0.559322	0	C|0.992;G|0.008	0.008	strong	.	TTN	18412	.	NM_133379	exon46	c.G16508C	p.S5503T	AAAAAACTGTCTG	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	34030767	34030767	+	Silent	SNP	G	G	T	rs115185294	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	59.0	25.0	65.0	0.0	0.423729	0	G|0.994;T|0.006	0.006	strong	.	RYR3	760	.	NM_001243996	exon50	c.G7632T	p.G2544G	CTGGGGGATTTTT	.	PASS	Atlas-SNP
RFFL	117584	hgsc.bcm.edu	37	17	33348541	33348541	+	Missense_Mutation	SNP	C	C	T	rs34747500	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	65.0	132.0	0.0	0.471014	0	C|0.986;T|0.014	0.014	strong	.	RFFL	27	.	NM_001017368	exon3	c.G440A	p.R147H	GAGGCACGAGTCC	.	PASS	Atlas-SNP
RALBP1	10928	hgsc.bcm.edu	37	18	9517221	9517221	+	Missense_Mutation	SNP	G	G	A	rs28552921	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	380.0	179.0	366.0	1.0	0.471053	0.00273224	G|0.996;A|0.004	0.004	strong	.	RALBP1	48	.	NM_006788	exon3	c.G623A	p.R208Q	GCATTCGGCTGCC	.	PASS	Atlas-SNP
OR10G2	26534	hgsc.bcm.edu	37	14	22102315	22102315	+	Silent	SNP	A	A	G	rs61753931	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	356.0	173.0	375.0	0.0	0.485955	0	A|0.983;G|0.017	0.017	strong	.	OR10G2	35	.	NM_001005466	exon1	c.T684C	p.H228H	GATGGCATGGACT	.	PASS	Atlas-SNP
ZC3H13	23091	hgsc.bcm.edu	37	13	46584500	46584500	+	Silent	SNP	G	G	A	rs79878411	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	162.0	70.0	115.0	0.0	0.432099	0	G|0.990;A|0.010	0.010	strong	.	ZC3H13	197	.	NM_015070	exon7	c.C729T	p.P243P	CAACAGGGGAGAA	.	PASS	Atlas-SNP
TRPM2	7226	hgsc.bcm.edu	37	21	45856963	45856963	+	Silent	SNP	T	T	C	rs11910471	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	31.0	45.0	0.0	0.574074	0	T|0.901;C|0.099	0.099	strong	.	TRPM2	196	.	NM_003307	exon29	c.T4080C	p.D1360D	CGAGGATGGAGCC	.	PASS	Atlas-SNP
EXOC3L1	283849	hgsc.bcm.edu	37	16	67221494	67221494	+	Missense_Mutation	SNP	C	C	T	rs79820293	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	75.0	30.0	63.0	0.0	0.4	0	C|0.978;T|0.022	0.022	strong	.	EXOC3L1	52	.	NM_178516	exon5	c.G674A	p.R225H	GCCACACGCACAG	.	PASS	Atlas-SNP
ING1	3621	hgsc.bcm.edu	37	13	111368023	111368023	+	Missense_Mutation	SNP	C	C	G	rs56682720	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	86.0	42.0	70.0	0.0	0.488372	0	C|0.961;G|0.039	0.039	strong	.	ING1	106	.	NM_005537	exon1	c.C233G	p.S78C	GCTCTTCCGCCCT	.	PASS	Atlas-SNP
SPAG4	6676	hgsc.bcm.edu	37	20	34204168	34204168	+	Silent	SNP	G	G	A	rs115161777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	15.0	32.0	0.0	0.375	0	G|0.980;A|0.020	0.020	strong	.	SPAG4	36	.	NM_003116	exon1	c.G243A	p.A81A	GCCAGCGCCTCGG	.	PASS	Atlas-SNP
DCTD	1635	hgsc.bcm.edu	37	4	183814234	183814234	+	Silent	SNP	G	G	A	rs369366826		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	233.0	110.0	215.0	0.0	0.472103	0	.	.	weak	.	DCTD	30	.	NM_001012732	exon5	c.C441T	p.D147D	TGCCTCGTCACTA	.	PASS	Atlas-SNP
RIN1	9610	hgsc.bcm.edu	37	11	66099888	66099888	+	Silent	SNP	C	C	T	rs61547186	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	182.0	181.0	0.0	1	0	C|0.969;T|0.031	0.031	strong	.	RIN1	64	.	NM_004292	exon10	c.G2211A	p.G737G	AGCATCCCCATCT	.	PASS	Atlas-SNP
NCR2	9436	hgsc.bcm.edu	37	6	41318578	41318578	+	Silent	SNP	T	T	C	rs115509322	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	19.0	45.0	0.0	0.452381	0	T|0.990;C|0.010	0.010	strong	.	NCR2	44	.	NM_004828	exon5	c.T807C	p.D269D	AAGCGATGATGAT	.	PASS	Atlas-SNP
PSG6	5675	hgsc.bcm.edu	37	19	43411150	43411150	+	Silent	SNP	G	G	A	rs78024453	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	70.0	199.0	0.0	0.409357	0	G|0.976;A|0.024	0.024	strong	.	PSG6	89	.	NM_001031850	exon5	c.C1164T	p.S388S	GAGCCCGCTATGA	.	PASS	Atlas-SNP
OTOP2	92736	hgsc.bcm.edu	37	17	72926879	72926879	+	Silent	SNP	T	T	C	rs16967162	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	175.0	84.0	147.0	0.0	0.48	0	T|0.925;C|0.075	0.075	strong	.	OTOP2	81	.	NM_178160	exon6	c.T1149C	p.S383S	CATCTCTTACTAC	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12409197	12409197	+	Missense_Mutation	SNP	C	C	G	rs78231473	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	138.0	66.0	166.0	0.0	0.478261	0	C|0.986;G|0.014	0.014	strong	VWDE_ENST00000275358,NS,carcinoma,+1,2	VWDE	123	2	NM_001135924	exon12	c.G2735C	p.S912T	TAGGAACTAAAGC	.	PASS	Atlas-SNP
SREK1IP1	285672	hgsc.bcm.edu	37	5	64020241	64020241	+	Silent	SNP	T	T	C	rs16879016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	90.0	179.0	0.0	0.5	0	T|0.886;C|0.114	0.114	strong	.	SREK1IP1	28	.	NM_173829	exon5	c.A438G	p.T146T	ATTAGGTGTAGAA	.	PASS	Atlas-SNP
LARP6	55323	hgsc.bcm.edu	37	15	71128691	71128691	+	Silent	SNP	G	G	A	rs78188777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	93.0	250.0	0.0	0.451456	0	G|0.984;A|0.016	0.016	strong	.	LARP6	43	.	NM_018357	exon2	c.C354T	p.H118H	CCTCACGTGTTTT	.	PASS	Atlas-SNP
MOGAT2	80168	hgsc.bcm.edu	37	11	75431049	75431049	+	Missense_Mutation	SNP	C	C	T	rs35828061	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	31.0	58.0	0.0	0.449275	0	C|0.974;T|0.026	0.026	strong	MOGAT2,NS,carcinoma,+1,1	MOGAT2	49	1	NM_025098	exon2	c.C104T	p.T35I	TCTGCACTGTGGG	.	PASS	Atlas-SNP
ACOT7	11332	hgsc.bcm.edu	37	1	6324747	6324747	+	Silent	SNP	G	G	A	rs61739537	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	34.0	47.0	0.0	0.435897	0	G|0.972;A|0.028	0.028	strong	ACOT7,NS,carcinoma,0,1	ACOT7	71	1	NM_181864	exon9	c.C1053T	p.T351T	GTCCTCGGTCTCG	.	PASS	Atlas-SNP
CNTN2	6900	hgsc.bcm.edu	37	1	205033518	205033518	+	Missense_Mutation	SNP	C	C	G	rs79431021	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	161.0	82.0	175.0	0.0	0.509317	0	C|0.962;G|0.038	0.038	strong	.	CNTN2	116	.	NM_005076	exon11	c.C1309G	p.L437V	GAGATCCTTATCC	.	PASS	Atlas-SNP
AP5B1	91056	hgsc.bcm.edu	37	11	65547775	65547775	+	Silent	SNP	C	C	T	rs114368095	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	19.0	41.0	0.0	0.372549	0	C|0.975;T|0.025	0.025	strong	.	AP5B1	40	.	NM_138368	exon2	c.G189A	p.Q63Q	CCACAGCTGCGCA	.	PASS	Atlas-SNP
KRTAP13-2	337959	hgsc.bcm.edu	37	21	31744287	31744287	+	Missense_Mutation	SNP	C	C	T	rs113360916	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	182.0	86.0	178.0	0.0	0.472527	0	C|0.990;T|0.010	0.010	strong	.	KRTAP13-2	29	.	NM_181621	exon1	c.G245A	p.R82H	CTGGGGCGGTAGC	.	PASS	Atlas-SNP
FBXO42	54455	hgsc.bcm.edu	37	1	16577948	16577948	+	Silent	SNP	G	G	A	rs61731119	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	159.0	87.0	181.0	0.0	0.54717	0	G|0.973;A|0.027	0.027	strong	.	FBXO42	53	.	NM_018994	exon10	c.C1371T	p.D457D	AGGACTGTCCAAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512603	195512603	+	Missense_Mutation	SNP	T	T	C	rs79969373	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	240.0	60.0	384.0	0.0	0.25	0	T|0.989;C|0.011	0.011	strong	.	MUC4	1505	.	NM_018406	exon2	c.A5848G	p.T1950A	GGGTGGTGTGACC	.	PASS	Atlas-SNP
SARS2	54938	hgsc.bcm.edu	37	19	39416935	39416935	+	Silent	SNP	C	C	T	rs144229840	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	26.0	12.0	39.0	0.0	0.461538	0	C|0.995;T|0.005	0.005	strong	SARS2,rectum,carcinoma,0,1	SARS2	33	1	NM_001145901	exon2	c.G273A	p.S91S	CCATGTCGAGATC	.	PASS	Atlas-SNP
SPTAN1	6709	hgsc.bcm.edu	37	9	131395568	131395568	+	Silent	SNP	C	C	T	rs2228952	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	77.0	52.0	80.0	0.0	0.675325	0	C|0.967;T|0.033	0.033	strong	.	SPTAN1	266	.	NM_001130438	exon57	c.C7389T	p.T2463T	CCCCACCGCGTTC	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	37	19	14006300	14006300	+	Missense_Mutation	SNP	C	C	A	rs58722011	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	174.0	79.0	146.0	0.0	0.454023	0	C|0.974;A|0.026	0.026	strong	.	C19orf57	34	.	NM_024323	exon3	c.G91T	p.D31Y	GGGGGTCCCCATA	.	PASS	Atlas-SNP
HTATSF1	27336	hgsc.bcm.edu	37	X	135593167	135593167	+	Silent	SNP	G	G	A	rs1058376	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	252.0	251.0	260.0	0.0	0.996032	0	0|0.004;A|0.148	0.148	strong	.	HTATSF1	66	.	NM_001163280	exon10	c.G1263A	p.A421A	AATGGCGTTTGAA	.	PASS	Atlas-SNP
DCC	1630	hgsc.bcm.edu	37	18	50976898	50976898	+	Silent	SNP	G	G	A	rs35891220	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	127.0	64.0	117.0	1.0	0.503937	0.00854701	G|0.966;A|0.034	0.034	strong	DCC,colon,carcinoma,0,1	DCC	360	1	NM_005215	exon23	c.G3258A	p.P1086P	CCCCCCGCATGGC	.	scavenged	Atlas-SNP
LILRA1	11024	hgsc.bcm.edu	37	19	55107869	55107869	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	254.0	14.0	200.0	0.0	0.0551181	0	.	.	none	LILRA1,NS,carcinoma,0,2	LILRA1	105	2	NM_006863	exon7	c.T1174G	p.S392A	GCCCACTCGGGGA	.	scavenged	Atlas-SNP
CDAN1	146059	hgsc.bcm.edu	37	15	43028207	43028207	+	Silent	SNP	G	G	C	rs143391538	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	166.0	83.0	184.0	0.0	0.5	0	G|0.998;C|0.002	0.002	strong	.	CDAN1	70	.	NM_138477	exon3	c.C639G	p.T213T	GAAGCAGGTCTTG	.	PASS	Atlas-SNP
ATP6V0A4	50617	hgsc.bcm.edu	37	7	138417682	138417682	+	Silent	SNP	G	G	A	rs143883618	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	124.0	63.0	144.0	0.0	0.508065	0	G|0.995;A|0.005	0.005	strong	.	ATP6V0A4	93	.	NM_130841	exon16	c.C1848T	p.F616F	GTTGATGAAGTGG	.	PASS	Atlas-SNP
KCNV2	169522	hgsc.bcm.edu	37	9	2729705	2729705	+	Missense_Mutation	SNP	T	T	C	rs112673841	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	52.0	93.0	0.0	0.504854	0	T|0.962;C|0.038	0.038	strong	.	KCNV2	72	.	NM_133497	exon2	c.T1616C	p.L539P	CACAGCTCACCCC	.	PASS	Atlas-SNP
ZNF699	374879	hgsc.bcm.edu	37	19	9407468	9407468	+	Silent	SNP	G	G	A	rs189167193	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	153.0	89.0	178.0	0.0	0.581699	0	G|0.998;A|0.002	0.002	strong	.	ZNF699	67	.	NM_198535	exon5	c.C612T	p.F204F	ATCCACGAAGGCC	.	PASS	Atlas-SNP
PEX14	5195	hgsc.bcm.edu	37	1	10684422	10684422	+	Silent	SNP	C	C	A	rs35046754	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	314.0	171.0	311.0	0.0	0.544586	0	C|0.986;A|0.014	0.014	strong	.	PEX14	40	.	NM_004565	exon7	c.C513A	p.A171A	CCTCGCCTCCGTC	.	PASS	Atlas-SNP
TJP2	9414	hgsc.bcm.edu	37	9	71844124	71844124	+	Missense_Mutation	SNP	G	G	A	rs41277901	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	254.0	70.0	228.0	0.0	0.275591	0	G|0.988;A|0.012	0.012	strong	.	TJP2	120	.	NM_001170416	exon10	c.G1571A	p.R524K	CCCCGAGAACTTT	.	PASS	Atlas-SNP
COG2	22796	hgsc.bcm.edu	37	1	230810756	230810756	+	Missense_Mutation	SNP	T	T	A	rs6681346	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	101.0	49.0	104.0	0.0	0.485149	0	T|0.922;A|0.078	0.078	strong	.	COG2	61	.	NM_007357	exon9	c.T912A	p.N304K	AGGCAATACTGTT	.	PASS	Atlas-SNP
IFIH1	64135	hgsc.bcm.edu	37	2	163128883	163128883	+	Silent	SNP	G	G	A	rs13418718	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	188.0	106.0	248.0	0.0	0.56383	0	G|0.888;A|0.112	0.112	strong	.	IFIH1	102	.	NM_022168	exon13	c.C2469T	p.A823A	AGCTCTGGCTCGA	.	PASS	Atlas-SNP
ITIH3	3699	hgsc.bcm.edu	37	3	52840325	52840325	+	Silent	SNP	C	C	T	rs34397833	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	123.0	64.0	125.0	0.0	0.520325	0	C|0.971;T|0.029	0.029	strong	.	ITIH3	132	.	NM_002217	exon18	c.C1959T	p.H653H	TCCCCACTTCATC	.	PASS	Atlas-SNP
VPS33A	65082	hgsc.bcm.edu	37	12	122720423	122720423	+	Silent	SNP	G	G	A	rs34461198	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	253.0	125.0	240.0	0.0	0.494071	0	G|0.944;A|0.056	0.056	strong	.	VPS33A	61	.	NM_022916	exon11	c.C1350T	p.A450A	CAGGCCGGCCTTC	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957721	111957721	+	Missense_Mutation	SNP	C	C	T	rs115512535	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	300.0	134.0	298.0	0.0	0.446667	0	C|0.997;T|0.003	0.003	strong	.	OVGP1	177	.	NM_002557	exon11	c.G1402A	p.G468R	TCTCTCCTAGAGC	.	PASS	Atlas-SNP
LRRIQ1	84125	hgsc.bcm.edu	37	12	85492658	85492658	+	Missense_Mutation	SNP	A	A	C	rs139758674	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	94.0	47.0	92.0	1.0	0.5	0.0108696	A|0.995;C|0.005	0.005	strong	LRRIQ1_ENST00000393217,NS,carcinoma,-1,2	LRRIQ1	512	2	NM_001079910	exon13	c.A3095C	p.E1032A	CCTTGGAGAATCT	.	scavenged	Atlas-SNP
RERE	473	hgsc.bcm.edu	37	1	8415621	8415621	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	36.0	43.0	0.0	0.62069	0	.	.	none	.	RERE	129	.	NM_012102	exon23	c.C4525T	p.P1509S	TGGGGGGTGGGAT	.	PASS	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	37	12	56822690	56822690	+	Silent	SNP	C	C	T	rs11832580	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	54.0	127.0	0.0	0.453782	0	C|0.949;T|0.051	0.051	strong	.	TIMELESS	107	.	NM_003920	exon11	c.G1281A	p.K427K	AGCTTCCTTGCGG	.	PASS	Atlas-SNP
ITIH1	3697	hgsc.bcm.edu	37	3	52823864	52823864	+	Missense_Mutation	SNP	A	A	T	rs61730358	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	29.0	56.0	0.0	0.467742	0	A|0.981;T|0.019	0.019	strong	.	ITIH1	108	.	NM_002215	exon19	c.A2315T	p.Q772L	TGCGGCAGGACGG	.	PASS	Atlas-SNP
SLC39A11	201266	hgsc.bcm.edu	37	17	70645366	70645366	+	Missense_Mutation	SNP	C	C	G	rs115567758	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	47.0	95.0	0.0	0.431193	0	C|0.999;G|0.001	0.001	strong	.	SLC39A11	32	.	NM_001159770	exon8	c.G734C	p.G245A	GCCAGGCCCTCGG	.	PASS	Atlas-SNP
LSG1	55341	hgsc.bcm.edu	37	3	194371925	194371925	+	Silent	SNP	A	A	G	rs35636619	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	184.0	83.0	182.0	0.0	0.451087	0	A|0.999;G|0.001	0.001	strong	.	LSG1	38	.	NM_018385	exon9	c.T1194C	p.G398G	ACTCTTACCAACA	.	PASS	Atlas-SNP
ARNT2	9915	hgsc.bcm.edu	37	15	80843578	80843578	+	Missense_Mutation	SNP	G	G	A	rs150765047	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	23.0	26.0	0.0	0.605263	0	G|0.999;A|0.001	0.001	strong	.	ARNT2	88	.	NM_014862	exon9	c.G916A	p.G306S	GGACAAGGCAGTA	.	PASS	Atlas-SNP
VNN1	8876	hgsc.bcm.edu	37	6	133015257	133015257	+	Missense_Mutation	SNP	C	C	G	rs45610032	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	233.0	115.0	224.0	0.0	0.493562	0	C|0.992;G|0.008	0.008	strong	.	VNN1	69	.	NM_004666	exon3	c.G406C	p.V136L	TTGCCACAACATA	.	PASS	Atlas-SNP
MRPL32	64983	hgsc.bcm.edu	37	7	42971998	42971998	+	Missense_Mutation	SNP	A	A	G	rs111980169	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	51.0	99.0	0.0	0.53125	0	A|0.995;G|0.005	0.005	strong	.	MRPL32	25	.	NM_031903	exon1	c.A13G	p.M5V	CTGGCCATGCTGG	.	PASS	Atlas-SNP
TELO2	9894	hgsc.bcm.edu	37	16	1552107	1552107	+	Missense_Mutation	SNP	C	C	T	rs58099766	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	36.0	63.0	0.0	0.529412	0	C|0.972;T|0.028	0.028	strong	.	TELO2	44	.	NM_016111	exon12	c.C1532T	p.A511V	GCAAGGCTCCTGC	.	PASS	Atlas-SNP
LRFN1	57622	hgsc.bcm.edu	37	19	39805188	39805188	+	Silent	SNP	C	C	T	rs115860908	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	34.0	44.0	0.0	0.666667	0	C|0.971;T|0.029	0.029	strong	.	LRFN1	59	.	NM_020862	exon1	c.G789A	p.L263L	CCGCCGCAGCCAG	.	PASS	Atlas-SNP
MYO1F	4542	hgsc.bcm.edu	37	19	8620636	8620636	+	Silent	SNP	C	C	T	rs73501540	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	122.0	106.0	0.0	1	0	C|0.966;T|0.034	0.034	strong	.	MYO1F	128	.	NM_012335	exon2	c.G48A	p.Q16Q	GCCGCTCTGCTTC	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19166894	19166894	+	Silent	SNP	G	G	A	rs11805253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	63.0	140.0	0.0	0.504	0	G|0.959;A|0.041	0.041	strong	.	TAS1R2	134	.	NM_152232	exon6	c.C1719T	p.A573A	CAGGGCGGCCAGC	.	PASS	Atlas-SNP
ZNF587	84914	hgsc.bcm.edu	37	19	58370744	58370744	+	Missense_Mutation	SNP	G	G	A	rs201869821	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	201.0	63.0	232.0	0.0	0.313433	0	G|0.999;A|0.001	0.001	weak	.	ZNF587	53	.	NM_032828	exon3	c.G964A	p.G322R	GGAGAAGGGCCTT	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	37	11	61730414	61730414	+	Silent	SNP	C	C	A	rs115379107	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	163.0	84.0	201.0	0.0	0.515337	0	C|0.974;A|0.026	0.026	strong	.	BEST1	85	.	NM_001139443	exon9	c.C1608A	p.T536T	CCCCACCCCAGCT	.	PASS	Atlas-SNP
ADCY2	108	hgsc.bcm.edu	37	5	7706989	7706989	+	Silent	SNP	C	C	T	rs75986905	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	248.0	123.0	183.0	0.0	0.495968	0	C|0.985;T|0.015	0.015	strong	.	ADCY2	337	.	NM_020546	exon8	c.C1242T	p.N414N	GGCCAACCACATG	.	PASS	Atlas-SNP
TRMT11	60487	hgsc.bcm.edu	37	6	126319453	126319453	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	48.0	12.0	35.0	0.0	0.25	0	.	.	none	TRMT11,NS,carcinoma,-1,2	TRMT11	43	2	NM_001031712	exon5	c.C379T	p.R127X	ATCAAGCGAATAG	.	PASS	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	37	19	22156470	22156470	+	Missense_Mutation	SNP	C	C	G	rs7255075	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	80.0	36.0	64.0	0.0	0.45	0	C|0.961;G|0.039	0.039	strong	ZNF208_ENST00000428290,NS,carcinoma,+2,3	ZNF208	817	3	NM_007153	exon4	c.G1366C	p.E456Q	ATTCTTCACATTT	.	PASS	Atlas-SNP
LHB	3972	hgsc.bcm.edu	37	19	49519518	49519518	+	Missense_Mutation	SNP	G	G	T	rs116437960	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	48.0	112.0	0.0	0.403361	0	G|0.988;T|0.012	0.012	strong	.	LHB	20	.	NM_000894	exon3	c.C233A	p.T78N	CGGTAGGTGCACA	.	PASS	Atlas-SNP
OR10Q1	219960	hgsc.bcm.edu	37	11	57996289	57996289	+	Missense_Mutation	SNP	G	G	A	rs112800197	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	212.0	103.0	209.0	0.0	0.485849	0	G|0.991;A|0.009	0.009	strong	.	OR10Q1	79	.	NM_001004471	exon1	c.C59T	p.A20V	GTGAACGCACGGA	.	PASS	Atlas-SNP
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346197	39346197	+	Missense_Mutation	SNP	G	G	A	rs139370444	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	72.0	35.0	90.0	0.0	0.486111	0	G|0.992;A|0.008	0.008	strong	.	KRTAP9-1	34	.	NM_001190460	exon1	c.G59A	p.R20K	GCTGCAGGACAAC	.	PASS	Atlas-SNP
PRKACA	5566	hgsc.bcm.edu	37	19	14204527	14204527	+	Silent	SNP	G	G	C	rs3729858	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	165.0	85.0	179.0	0.0	0.515152	0	G|0.995;C|0.005	0.005	strong	.	PRKACA	65	.	NM_002730	exon9	c.C843G	p.R281R	CCCAAAGCGCTTG	.	PASS	Atlas-SNP
IFITM3	10410	hgsc.bcm.edu	37	11	320723	320723	+	Missense_Mutation	SNP	C	C	T	rs56227617		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	4.0	98.0	0.0	0.0412371	0	.	.	weak	IFITM3,brain,glioma,0,1	IFITM3	132	1	NM_021034	exon1	c.G91A	p.V31M	CCAGCACAGCCAC	.	scavenged	Atlas-SNP
GTDC1	79712	hgsc.bcm.edu	37	2	144966208	144966208	+	Silent	SNP	T	T	C	rs16823579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	64.0	41.0	94.0	0.0	0.640625	0	T|0.957;C|0.043	0.043	strong	.	GTDC1	61	.	NM_001006636	exon4	c.A141G	p.L47L	GAAATATAAAGCA	.	PASS	Atlas-SNP
ELK1	2002	hgsc.bcm.edu	37	X	47498400	47498400	+	Missense_Mutation	SNP	C	C	T	rs1059579	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	59.0	186.0	0.0	0.327778	0	C|0.847;T|0.153	0.153	strong	.	ELK1	54	.	NM_001114123	exon4	c.G548A	p.S183N	GCTGCACTGGGGA	.	PASS	Atlas-SNP
SEMA6B	10501	hgsc.bcm.edu	37	19	4558422	4558422	+	Silent	SNP	C	C	A	rs115168835	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	31.0	17.0	17.0	0.0	0.548387	0	C|0.985;A|0.015	0.015	strong	.	SEMA6B	51	.	NM_032108	exon2	c.G48T	p.L16L	CAGCAGCAGAAGC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281136	152281136	+	Missense_Mutation	SNP	C	C	T	rs78125326	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	915.0	460.0	482.0	0.0	0.502732	0	C|0.942;T|0.058	0.058	strong	.	FLG	900	.	NM_002016	exon3	c.G6226A	p.A2076T	CACGTGCGGACTC	.	PASS	Atlas-SNP
CTNNA2	1496	hgsc.bcm.edu	37	2	80620370	80620370	+	Missense_Mutation	SNP	T	T	C	rs61754542	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	227.0	93.0	237.0	0.0	0.409692	0	T|0.992;C|0.008	0.008	strong	.	CTNNA2	462	.	NM_001164883	exon8	c.T1091C	p.I364T	TCAACATTGCGAT	.	PASS	Atlas-SNP
ANKRD45	339416	hgsc.bcm.edu	37	1	173596273	173596273	+	Silent	SNP	A	A	G	rs12059068	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	56.0	56.0	58.0	0.0	1	0	A|0.781;G|0.219	0.219	strong	.	ANKRD45	36	.	NM_198493	exon4	c.T522C	p.Y174Y	TGCAATATATTTT	.	PASS	Atlas-SNP
TCF4	6925	hgsc.bcm.edu	37	18	52901894	52901894	+	Silent	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	46.0	70.0	0.0	0.541176	0	.	.	none	.	TCF4	178	.	NM_001243226	exon17	c.T1677C	p.D559D	CACGCCATCTTCA	.	PASS	Atlas-SNP
RAD17	5884	hgsc.bcm.edu	37	5	68710032	68710032	+	Silent	SNP	G	G	A	rs145547419	bycluster;byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	53.0	113.0	0.0	0.449153	0	G|0.998;A|0.002	0.002	strong	.	RAD17	49	.	NM_133339	exon16	c.G1959A	p.L653L	TGAACTGCCTGCT	.	PASS	Atlas-SNP
PPFIBP2	8495	hgsc.bcm.edu	37	11	7673049	7673049	+	Missense_Mutation	SNP	C	C	G	rs77975665	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	46.0	13.0	53.0	0.0	0.282609	0	C|0.922;G|0.078	0.078	strong	.	PPFIBP2	87	.	NM_003621	exon23	c.C2410G	p.P804A	TACACACCACTGA	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73553177	73553177	+	Silent	SNP	C	C	T	rs41281332	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	120.0	63.0	105.0	0.0	0.525	0	C|0.976;T|0.024	0.024	strong	.	CDH23	365	.	NM_022124	exon46	c.C6492T	p.I2164I	TCTGATCGATGAC	.	PASS	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	37	6	123759243	123759243	+	Missense_Mutation	SNP	C	C	T	rs35766971	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	58.0	29.0	64.0	0.0	0.5	0	C|0.991;T|0.009	0.009	strong	TRDN,posterior_fossa,glioma,0,1	TRDN	88	1	NM_001251987	exon12	c.G1019A	p.S340N	TTCTCACTTTTCT	.	PASS	Atlas-SNP
NCAPD3	23310	hgsc.bcm.edu	37	11	134038949	134038949	+	Missense_Mutation	SNP	G	G	T	rs7927108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	40.0	16.0	45.0	0.0	0.4	0	G|0.966;T|0.034	0.034	strong	.	NCAPD3	141	.	NM_015261	exon25	c.C3102A	p.S1034R	CCCGAAGCTGCAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515026	195515026	+	Missense_Mutation	SNP	G	G	C	rs200763050		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	436.0	20.0	134.0	0.0	0.0458716	0	G|0.998;C|0.002	0.002	weak	MUC4_ENST00000463781,NS,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.C3425G	p.T1142S	GAGGAAGTGTCGG	.	PASS	Atlas-SNP
BRICD5	283870	hgsc.bcm.edu	37	16	2259673	2259673	+	Missense_Mutation	SNP	T	T	C	rs144886139	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	42.0	91.0	0.0	0.494118	0	T|0.993;C|0.007	0.007	strong	C16orf79,NS,carcinoma,+1,1	.	.	1	NM_182563	exon5	c.A473G	p.H158R	GTGTGGTGGGTGT	.	PASS	Atlas-SNP
GNL3L	54552	hgsc.bcm.edu	37	X	54578725	54578725	+	Silent	SNP	C	C	T	rs147602603	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	204.0	93.0	207.0	0.0	0.455882	0	C|0.998;T|0.002	0.002	strong	.	GNL3L	73	.	NM_001184819	exon13	c.C1182T	p.S394S	ATGCAGCGGGAAG	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5353252	5353252	+	Missense_Mutation	SNP	G	G	C	rs58819185	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	66.0	119.0	0.0	0.425806	0	G|0.943;C|0.057	0.057	strong	.	TNRC18	311	.	NM_001080495	exon27	c.C7270G	p.P2424A	GTGCTGGGGCCAG	.	PASS	Atlas-SNP
PAPPA	5069	hgsc.bcm.edu	37	9	118950208	118950208	+	Silent	SNP	G	G	T	rs80284365	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	78.0	52.0	77.0	0.0	0.666667	0	G|0.955;T|0.045	0.045	strong	.	PAPPA	243	.	NM_002581	exon2	c.G1191T	p.V397V	GGACGTGCTGGAG	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	37	18	13056065	13056065	+	Missense_Mutation	SNP	C	C	G	rs61739695	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	68.0	35.0	91.0	0.0	0.514706	0	C|0.986;G|0.014	0.014	strong	.	CEP192	340	.	NM_032142	exon19	c.C3476G	p.P1159R	CAAACCCTGAGGA	.	PASS	Atlas-SNP
GPD1	2819	hgsc.bcm.edu	37	12	50498475	50498475	+	Missense_Mutation	SNP	A	A	G	rs2232202	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	98.0	41.0	130.0	0.0	0.418367	0	A|0.984;G|0.016	0.016	strong	.	GPD1	23	.	NM_005276	exon2	c.A160G	p.I54V	GAGATCATCAACA	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	70954682	70954682	+	Missense_Mutation	SNP	G	G	A	rs143849088	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	88.0	43.0	82.0	0.0	0.488636	0	G|0.996;A|0.004	0.004	strong	.	HYDIN	788	.	NM_001270974	exon46	c.C7597T	p.R2533W	GCTCCCGCTCCGC	.	PASS	Atlas-SNP
ZNF479	90827	hgsc.bcm.edu	37	7	57187997	57187997	+	Missense_Mutation	SNP	A	A	T	rs146543279	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	281.0	143.0	242.0	0.0	0.508897	0	A|0.998;T|0.002	0.002	strong	.	ZNF479	193	.	NM_033273	exon5	c.T1125A	p.H375Q	TCCAGTATGAATT	.	PASS	Atlas-SNP
JMJD7-PLA2G4B	8681	hgsc.bcm.edu	37	15	42137201	42137201	+	Missense_Mutation	SNP	G	G	A	rs34807597	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	79.0	36.0	65.0	0.0	0.455696	0	G|0.984;A|0.016	0.016	strong	.	JMJD7-PLA2G4B	90	.	NM_005090	exon18	c.G1865A	p.R622H	GTGCCCGCTTGGG	.	PASS	Atlas-SNP
SLC38A8	146167	hgsc.bcm.edu	37	16	84050218	84050218	+	Silent	SNP	G	G	A	rs13334006	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	36.0	21.0	46.0	0.0	0.583333	0	G|0.939;A|0.061	0.061	strong	.	SLC38A8	60	.	NM_001080442	exon8	c.C1068T	p.T356T	CGTCACGGTGACC	.	PASS	Atlas-SNP
KBTBD6	89890	hgsc.bcm.edu	37	13	41706450	41706450	+	Silent	SNP	G	G	C	rs147388453	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	40.0	101.0	0.0	0.56338	0	G|0.988;C|0.012	0.012	strong	.	KBTBD6	83	.	NM_152903	exon1	c.C198G	p.T66T	CTCGATGGTCACA	.	PASS	Atlas-SNP
CPNE3	8895	hgsc.bcm.edu	37	8	87558846	87558846	+	Missense_Mutation	SNP	G	G	C	rs41333046	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	270.0	141.0	265.0	0.0	0.522222	0	G|0.888;C|0.112	0.112	strong	CPNE3,NS,carcinoma,0,1	CPNE3	65	1	NM_003909	exon10	c.G756C	p.E252D	AAATGAGAAAAAA	.	PASS	Atlas-SNP
TFRC	7037	hgsc.bcm.edu	37	3	195787102	195787102	+	Silent	SNP	C	C	T	rs111276121	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	164.0	86.0	177.0	0.0	0.52439	0	C|0.997;T|0.003	0.003	strong	.	TFRC	54	.	NM_001128148	exon14	c.G1485A	p.K495K	AGAAACCTTGAAG	.	PASS	Atlas-SNP
ATP10A	57194	hgsc.bcm.edu	37	15	25962057	25962057	+	Silent	SNP	C	C	T	rs115618637	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	113.0	47.0	82.0	0.0	0.415929	0	C|0.998;T|0.002	0.002	strong	.	ATP10A	270	.	NM_024490	exon9	c.G1596A	p.T532T	GTCGGGCGTGATA	.	PASS	Atlas-SNP
USP18	11274	hgsc.bcm.edu	37	22	18644597	18644597	+	Missense_Mutation	SNP	G	G	A	rs3747038	bycluster	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	439.0	127.0	324.0	0.0	0.289294	0	.	.	weak	.	USP18	22	.	NM_017414	exon4	c.G295A	p.V99I	AGAAGCGTCCCTT	.	PASS	Atlas-SNP
ZNF668	79759	hgsc.bcm.edu	37	16	31075439	31075439	+	Silent	SNP	G	G	A	rs34107331	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	14.0	7.0	7.0	0.0	0.5	0	G|0.990;A|0.010	0.010	strong	.	ZNF668	121	.	NM_001172669	exon3	c.C411T	p.C137C	CTCGGGGCACGGA	.	PASS	Atlas-SNP
WDR62	284403	hgsc.bcm.edu	37	19	36594404	36594404	+	Missense_Mutation	SNP	G	G	A	rs61743589	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	119.0	56.0	133.0	0.0	0.470588	0	G|0.981;A|0.019	0.019	strong	.	WDR62	102	.	NM_001083961	exon30	c.G3674A	p.R1225H	GCTCCCGTGCCAG	.	PASS	Atlas-SNP
SDF2	6388	hgsc.bcm.edu	37	17	26988852	26988852	+	Missense_Mutation	SNP	C	C	T	rs35404078	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	97.0	45.0	92.0	0.0	0.463918	0	C|0.990;T|0.010	0.010	strong	.	SDF2	17	.	NM_006923	exon1	c.G43A	p.A15T	CCACAGCGCTCCA	.	PASS	Atlas-SNP
CA6	765	hgsc.bcm.edu	37	1	9009452	9009452	+	Silent	SNP	C	C	T	rs61746465	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	111.0	64.0	102.0	0.0	0.576577	0	C|0.988;T|0.012	0.012	strong	.	CA6	47	.	NM_001270500	exon2	c.C210T	p.G70G	GACAGGCTATGAG	.	PASS	Atlas-SNP
DENND2D	79961	hgsc.bcm.edu	37	1	111738589	111738589	+	Silent	SNP	A	A	T	rs34558744	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	33.0	49.0	0.0	0.471429	0	A|0.988;T|0.012	0.012	strong	.	DENND2D	50	.	NM_024901	exon6	c.T594A	p.A198A	CCCAGGAGCAGGG	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71245978	71245978	+	Silent	SNP	G	G	A	rs9446260	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	82.0	39.0	80.0	0.0	0.47561	0	G|0.972;A|0.028	0.028	strong	.	FAM135A	181	.	NM_001162529	exon17	c.G3981A	p.S1327S	ACATTCGTTGGGC	.	PASS	Atlas-SNP
SLC6A5	9152	hgsc.bcm.edu	37	11	20652291	20652291	+	Silent	SNP	C	C	T	rs143680068	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	298.0	138.0	316.0	1.0	0.463087	0.00316456	C|1.000;T|0.000	0.000	strong	.	SLC6A5	151	.	NM_004211	exon10	c.C1554T	p.F518F	CGGCTTCGTCATC	.	PASS	Atlas-SNP
KIAA1279	26128	hgsc.bcm.edu	37	10	70775329	70775329	+	Silent	SNP	G	G	A	rs16926021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	52.0	24.0	53.0	0.0	0.461538	0	G|0.946;A|0.054	0.054	strong	.	KIAA1279	35	.	NM_015634	exon7	c.G1023A	p.Q341Q	TAAACAGTCTGAA	.	PASS	Atlas-SNP
JMJD7-PLA2G4B	8681	hgsc.bcm.edu	37	15	42139875	42139875	+	Missense_Mutation	SNP	A	A	G	rs34424865	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	91.0	49.0	92.0	0.0	0.538462	0	A|0.984;G|0.016	0.016	strong	.	JMJD7-PLA2G4B	90	.	NM_001198588	exon24	c.A2669G	p.Q890R	GGCGGCAGCTGGG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187542356	187542356	+	Missense_Mutation	SNP	C	C	T	rs56790426	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	150.0	71.0	139.0	0.0	0.473333	0	C|0.993;T|0.007	0.007	strong	.	FAT1	500	.	NM_005245	exon10	c.G5384A	p.R1795Q	GCTGCTCGAATCA	.	PASS	Atlas-SNP
OR14I1	401994	hgsc.bcm.edu	37	1	248844695	248844695	+	Missense_Mutation	SNP	A	A	T	rs114135727	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	24.0	43.0	0.0	0.470588	0	A|0.982;T|0.018	0.018	strong	.	OR14I1	64	.	NM_001004734	exon1	c.T911A	p.V304E	ATCTTCACAAAGA	.	PASS	Atlas-SNP
BLOC1S2	282991	hgsc.bcm.edu	37	10	102046402	102046402	+	Silent	SNP	G	G	C	rs12250221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	53.0	22.0	75.0	0.0	0.415094	0	G|0.949;C|0.051	0.051	strong	.	BLOC1S2	10	.	NM_173809	exon1	c.C15G	p.A5A	GCCCTCGGCTGCC	.	PASS	Atlas-SNP
HSD17B4	3295	hgsc.bcm.edu	37	5	118877677	118877677	+	Silent	SNP	C	C	T	rs12714	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	154.0	79.0	193.0	0.0	0.512987	0	C|0.960;T|0.040	0.040	strong	.	HSD17B4	63	.	NM_001199291	exon25	c.C2274T	p.Y758Y	AGACTACGCCAAG	.	PASS	Atlas-SNP
C4orf40	401137	hgsc.bcm.edu	37	4	71024268	71024268	+	Missense_Mutation	SNP	A	A	G	rs116632053	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	100.0	209.0	0.0	0.469484	0	A|0.986;G|0.014	0.014	strong	.	C4orf40	19	.	NM_214711	exon3	c.A299G	p.N100S	AGTTGAATGTTCC	.	PASS	Atlas-SNP
SLC8A3	6547	hgsc.bcm.edu	37	14	70512964	70512964	+	Silent	SNP	G	G	A	rs144234198	byfrequency	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	148.0	71.0	94.0	0.0	0.47973	0	G|1.000;A|0.000	0.000	strong	SLC8A3_ENST00000357887,colon,carcinoma,0,2	SLC8A3	234	2	NM_183002	exon8	c.C2484T	p.N828N	GACGGCGTTGCTG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179552895	179552895	+	Missense_Mutation	SNP	C	C	T	rs72650028	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	147.0	78.0	157.0	0.0	0.530612	0	C|0.991;T|0.009	0.009	strong	.	TTN	18412	.	NM_001267550	exon127	c.G32254A	p.V10752I	TATAAACTGAAAT	.	PASS	Atlas-SNP
SHCBP1L	81626	hgsc.bcm.edu	37	1	182922003	182922003	+	Missense_Mutation	SNP	G	G	T	rs13373887	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	37.0	28.0	33.0	0.0	0.756757	0	G|0.965;T|0.035	0.035	strong	.	SHCBP1L	64	.	NM_030933	exon1	c.C266A	p.A89E	TCCTCCGCCGCCG	.	PASS	Atlas-SNP
GMFG	9535	hgsc.bcm.edu	37	19	39826131	39826131	+	Missense_Mutation	SNP	G	G	T	rs1801733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	179.0	74.0	165.0	0.0	0.413408	0	G|0.980;T|0.020	0.020	strong	.	GMFG	16	.	NM_004877	exon2	c.C44A	p.T15K	TTTTCTGTTAGCT	.	PASS	Atlas-SNP
KDM1A	23028	hgsc.bcm.edu	37	1	23409803	23409803	+	Silent	SNP	G	G	A	rs150794224	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	69.0	43.0	89.0	0.0	0.623188	0	G|0.997;A|0.003	0.003	strong	.	KDM1A	49	.	NM_001009999	exon21	c.G2577A	p.T859T	GTATACGCTGCCT	.	PASS	Atlas-SNP
FAM129C	199786	hgsc.bcm.edu	37	19	17643125	17643125	+	Silent	SNP	C	C	T	rs73504248	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	219.0	219.0	168.0	0.0	1	0	C|0.976;T|0.024	0.024	strong	.	FAM129C	110	.	NM_001098524	exon4	c.C333T	p.H111H	GGGCCACCCACCC	.	PASS	Atlas-SNP
CCDC65	85478	hgsc.bcm.edu	37	12	49308261	49308261	+	Silent	SNP	C	C	T	rs143088014	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	25.0	62.0	0.0	0.373134	0	C|0.999;T|0.001	0.001	strong	.	CCDC65	41	.	NM_033124	exon3	c.C375T	p.D125D	TGTTGACCAGCTC	.	PASS	Atlas-SNP
FBXL5	26234	hgsc.bcm.edu	37	4	15627092	15627092	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	134.0	6.0	131.0	0.0	0.0447761	0	.	.	none	.	FBXL5	52	.	NM_012161	exon9	c.T1633C	p.Y545H	CACAATACGCAAA	.	PASS	Atlas-SNP
FBXO22	26263	hgsc.bcm.edu	37	15	76205550	76205550	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	20.0	11.0	16.0	0.0	0.55	0	.	.	none	FBXO22_ENST00000453211,NS,carcinoma,0,3	FBXO22	60	3	NM_012170	exon3	c.C286T	p.R96C	AATGTTCGCATCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512734	195512734	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	327.0	27.0	399.0	2.0	0.0825688	0.00501253	.	.	none	MUC4_ENST00000463781,NS,malignant_melanoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A5717C	p.H1906P	GTGACATGAAGAG	.	scavenged	Atlas-SNP
PAPSS1	9061	hgsc.bcm.edu	37	4	108552787	108552787	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	112.0	45.0	100.0	0.0	0.401786	0	.	.	none	.	PAPSS1	57	.	NM_005443	exon11	c.A1736G	p.H579R	ACTTACTGTTCAG	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105416775	105416775	+	Silent	SNP	C	C	A	rs60880494	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	213.0	82.0	316.0	0.0	0.384977	0	A|0.015;C|0.985	0.015	strong	.	AHNAK2	719	.	NM_138420	exon7	c.G5013T	p.S1671S	TGGGGCCGACACC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103398453	103398453	+	Missense_Mutation	SNP	C	C	A	rs141118373	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	206.0	108.0	199.0	0.0	0.524272	0	C|0.991;A|0.009	0.009	strong	.	.	.	.	NM_001146197	exon4	c.G4594T	p.G1532C	AAGGACCCATTTG	.	PASS	Atlas-SNP
PEX19	5824	hgsc.bcm.edu	37	1	160253413	160253413	+	Silent	SNP	G	G	A	rs141911166	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	103.0	53.0	81.0	0.0	0.514563	0	G|1.000;A|0.000	0.000	strong	PEX19,NS,carcinoma,0,3	PEX19	34	3	NM_002857	exon2	c.C87T	p.F29F	TTTATCGAAATCA	.	PASS	Atlas-SNP
KRT16	3868	hgsc.bcm.edu	37	17	39767947	39767947	+	Silent	SNP	C	C	T	rs144914208	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	379.0	169.0	390.0	0.0	0.44591	0	C|0.978;T|0.022	0.022	strong	KRT16,colon,carcinoma,-1,1	KRT16	45	1	NM_005557	exon2	c.G558A	p.A186A	GGGCTGCGCATTC	.	PASS	Atlas-SNP
PUS7L	83448	hgsc.bcm.edu	37	12	44130205	44130205	+	Silent	SNP	G	G	A	rs12309260	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	52.0	72.0	0.0	0.541667	0	G|0.988;A|0.012	0.012	strong	.	PUS7L	73	.	NM_001098614	exon7	c.C1704T	p.D568D	ATTCTCGTCATCA	.	PASS	Atlas-SNP
ATAD3C	219293	hgsc.bcm.edu	37	1	1403894	1403894	+	Missense_Mutation	SNP	A	A	G	rs145079480	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	276.0	108.0	290.0	0.0	0.391304	0	A|0.972;G|0.028	0.028	strong	.	ATAD3C	23	.	NM_001039211	exon12	c.A1220G	p.E407G	AGGACGAGCAACC	.	PASS	Atlas-SNP
RGPD8	727851	hgsc.bcm.edu	37	2	113147751	113147751	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	720.0	230.0	627.0	0.0	0.319444	0	.	.	none	.	RGPD8	81	.	NM_001164463	exon20	c.T2771G	p.F924C	ATGCCAAATTTAA	.	PASS	Atlas-SNP
LRRN4	164312	hgsc.bcm.edu	37	20	6021703	6021703	+	Missense_Mutation	SNP	C	C	T	rs116777692	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	198.0	78.0	177.0	0.0	0.393939	0	C|0.990;T|0.010	0.010	strong	.	LRRN4	54	.	NM_152611	exon5	c.G2188A	p.D730N	AATCATCAAAGGC	.	PASS	Atlas-SNP
MYO19	80179	hgsc.bcm.edu	37	17	34859831	34859831	+	Silent	SNP	G	G	A	rs73276768	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	45.0	19.0	37.0	0.0	0.422222	0	G|0.996;A|0.004	0.004	strong	.	MYO19	130	.	NM_001163735	exon21	c.C1935T	p.L645L	CTCCACGAGGCCA	.	PASS	Atlas-SNP
TMEM140	55281	hgsc.bcm.edu	37	7	134849690	134849690	+	Missense_Mutation	SNP	T	T	C	rs76023601	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	214.0	98.0	146.0	0.0	0.457944	0	T|0.998;C|0.002	0.002	strong	.	TMEM140	18	.	NM_018295	exon2	c.T497C	p.I166T	TGCTTATAGCCAT	.	PASS	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4790304	4790304	+	Missense_Mutation	SNP	C	C	T	rs17137230	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	103.0	156.0	0.0	0.536458	0	C|0.980;T|0.020	0.020	strong	.	C16orf71	46	.	NM_139170	exon4	c.C427T	p.P143S	GAGGAGCCCCCCA	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576623	4576623	+	Silent	SNP	G	G	A	rs191748391	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	194.0	97.0	161.0	0.0	0.5	0	G|0.999;A|0.001	0.001	strong	.	PELP1	102	.	NM_014389	exon15	c.C1767T	p.A589A	AGACGGGGCCAGC	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116340269	116340269	+	Silent	SNP	C	C	T	rs28444388	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	42.0	17.0	36.0	0.0	0.404762	0	C|0.967;T|0.033	0.033	strong	.	MET	412	.	NM_000245	exon2	c.C1131T	p.I377I	CAAGATCGTCAAC	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19467322	19467322	+	Silent	SNP	G	G	A	rs139618268	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	67.0	34.0	57.0	0.0	0.507463	0	G|0.999;A|0.001	0.001	strong	.	UBR4	415	.	NM_020765	exon58	c.C8553T	p.S2851S	CAGAGAGGAAGAG	.	PASS	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27436247	27436247	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	85.0	47.0	80.0	0.0	0.552941	0	.	.	none	.	SLC4A7	119	.	NM_003615	exon20	c.A2852G	p.Y951C	AGGTGATAGCCAG	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46760102	46760102	+	Silent	SNP	C	C	T	rs6008778	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	65.0	34.0	41.0	0.0	0.523077	0	C|0.948;T|0.052	0.052	strong	.	CELSR1	242	.	NM_014246	exon34	c.G8826A	p.T2942T	CTGCTCCGTCAGC	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112176556	112176556	+	Silent	SNP	G	G	A	rs34506289	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	109.0	41.0	114.0	0.0	0.376147	0	G|0.992;A|0.008	0.008	strong	.	APC	4158	.	NM_001127510	exon17	c.G5265A	p.A1755A	ATCTGCGTCTTCT	.	PASS	Atlas-SNP
CREB3L3	84699	hgsc.bcm.edu	37	19	4171825	4171825	+	Silent	SNP	G	G	A	rs115268777	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	125.0	68.0	123.0	0.0	0.544	0	G|0.988;A|0.012	0.012	strong	.	CREB3L3	53	.	NM_032607	exon10	c.G1245A	p.T415T	TTCGACGGAGGAG	.	PASS	Atlas-SNP
GAB4	128954	hgsc.bcm.edu	37	22	17472785	17472785	+	Silent	SNP	G	G	A	rs116325774	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	284.0	136.0	272.0	2.0	0.478873	0.00735294	G|0.994;A|0.006	0.006	strong	GAB4,NS,carcinoma,-1,1	GAB4	95	1	NM_001037814	exon2	c.C456T	p.G152G	CCTGAAGCCACAG	.	scavenged	Atlas-SNP
IVL	3713	hgsc.bcm.edu	37	1	152882811	152882811	+	Missense_Mutation	SNP	G	G	A	rs75111974	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	205.0	112.0	126.0	0.0	0.546341	0	G|0.980;A|0.020	0.020	strong	.	IVL	100	.	NM_005547	exon2	c.G538A	p.E180K	CAGCAGGAGGGGC	.	PASS	Atlas-SNP
NOS1	4842	hgsc.bcm.edu	37	12	117685255	117685255	+	Silent	SNP	G	G	A	rs41410247	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	157.0	72.0	159.0	0.0	0.458599	0	G|0.995;A|0.005	0.005	strong	.	NOS1	240	.	NM_001204218	exon19	c.C2823T	p.L941L	TTCCAGGAGGGTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511608	195511608	+	Silent	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	167.0	18.0	505.0	1.0	0.107784	0.0019802	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.A6843G	p.V2281V	TGTGGATACTGAG	.	scavenged	Atlas-SNP
ZDHHC7	55625	hgsc.bcm.edu	37	16	85011548	85011548	+	Missense_Mutation	SNP	C	C	T	rs13334011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	187.0	91.0	181.0	0.0	0.486631	0	C|0.962;T|0.038	0.038	strong	.	ZDHHC7	55	.	NM_001145548	exon7	c.G712A	p.V238I	CTCGGACACAGGA	.	PASS	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15791081	15791081	+	Missense_Mutation	SNP	T	T	C	rs146740964	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	374.0	93.0	264.0	0.0	0.248663	0	T|0.989;C|0.011	0.011	strong	.	CYP4F12	89	.	NM_023944	exon4	c.T371C	p.F124S	ATCTCTTCATCAG	.	PASS	Atlas-SNP
EHHADH	1962	hgsc.bcm.edu	37	3	184910042	184910042	+	Missense_Mutation	SNP	A	A	G	rs11927618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	67.0	126.0	0.0	0.523438	0	A|0.975;G|0.025	0.025	strong	.	EHHADH	73	.	NM_001966	exon7	c.T2144C	p.L715S	CCTGCCAAGCTTT	.	PASS	Atlas-SNP
PRSS38	339501	hgsc.bcm.edu	37	1	228003843	228003843	+	Silent	SNP	C	C	T	rs113353225	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	246.0	139.0	195.0	1.0	0.565041	0.00512821	C|0.982;T|0.018	0.018	strong	.	PRSS38	55	.	NM_183062	exon2	c.C201T	p.P67P	TGCGCCCGAGAGG	.	PASS	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	37	1	247013203	247013203	+	Silent	SNP	G	G	A	rs74976688		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	231.0	101.0	201.0	0.0	0.437229	0	.	.	weak	.	AHCTF1	187	.	NM_015446	exon33	c.C6132T	p.N2044N	TTCCTCGTTTGGC	.	PASS	Atlas-SNP
ECT2L	345930	hgsc.bcm.edu	37	6	139170412	139170412	+	Missense_Mutation	SNP	A	A	G	rs75962473	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	132.0	69.0	120.0	0.0	0.522727	0	A|0.992;G|0.008	0.008	strong	.	ECT2L	75	.	NM_001195037	exon8	c.A910G	p.M304V	ATGGTGATGGAGA	.	PASS	Atlas-SNP
NOL8	55035	hgsc.bcm.edu	37	9	95081569	95081569	+	Silent	SNP	T	T	C	rs16908298	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	241.0	156.0	284.0	0.0	0.647303	0	T|0.969;C|0.031	0.031	strong	.	NOL8	118	.	NM_017948	exon5	c.A351G	p.L117L	CTTTTCTAACAAG	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105414316	105414316	+	Missense_Mutation	SNP	G	G	A	rs145541349	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	259.0	128.0	303.0	2.0	0.494208	0.00660066	G|0.988;A|0.012	0.012	strong	AHNAK2_ENST00000333244,colon,carcinoma,+1,2	AHNAK2	719	2	NM_138420	exon7	c.C7472T	p.P2491L	AATGACGGCATCT	.	scavenged	Atlas-SNP
NEURL4	84461	hgsc.bcm.edu	37	17	7221454	7221454	+	Silent	SNP	G	G	A	rs73239601	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	43.0	97.0	0.0	0.494253	0	G|0.999;A|0.001	0.001	strong	.	NEURL4	192	.	NM_032442	exon25	c.C3990T	p.A1330A	ACTAGCGGCAGGT	.	PASS	Atlas-SNP
FSTL4	23105	hgsc.bcm.edu	37	5	132535225	132535225	+	Silent	SNP	G	G	A	rs61740558	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	118.0	68.0	113.0	0.0	0.576271	0	G|0.980;A|0.020	0.020	strong	FSTL4,colon,carcinoma,0,2	FSTL4	74	2	NM_015082	exon16	c.C2091T	p.D697D	GCGCCCGTCGGGG	.	PASS	Atlas-SNP
CHST5	23563	hgsc.bcm.edu	37	16	75564172	75564172	+	Silent	SNP	C	C	G	rs74355367	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	114.0	52.0	95.0	0.0	0.45614	0	C|0.955;G|0.045	0.045	strong	.	CHST5	47	.	NM_024533	exon3	c.G111C	p.L37L	CTGTGCCAGGAGG	.	PASS	Atlas-SNP
ZNF554	115196	hgsc.bcm.edu	37	19	2823100	2823100	+	Missense_Mutation	SNP	G	G	A	rs181024964	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	71.0	34.0	60.0	0.0	0.478873	0	G|0.998;A|0.002	0.002	strong	.	ZNF554	47	.	NM_001102651	exon2	c.G116A	p.R39H	TGCCCCGCTGGTC	.	PASS	Atlas-SNP
PALLD	23022	hgsc.bcm.edu	37	4	169611765	169611765	+	Silent	SNP	C	C	T	rs17054482	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	128.0	62.0	156.0	0.0	0.484375	0	C|0.962;T|0.038	0.038	strong	.	PALLD	179	.	NM_001166108	exon7	c.C1347T	p.N449N	GCAAAACACAGCC	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1058635	1058635	+	Missense_Mutation	SNP	C	C	T	rs73505232	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	49.0	92.0	0.0	0.510417	0	C|0.952;T|0.048	0.048	strong	.	ABCA7	174	.	NM_019112	exon38	c.C5168T	p.S1723L	TCCAGTCACCCCT	.	PASS	Atlas-SNP
ANKFN1	162282	hgsc.bcm.edu	37	17	54450073	54450073	+	Missense_Mutation	SNP	G	G	A	rs115263675	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	76.0	35.0	63.0	0.0	0.460526	0	G|0.982;A|0.018	0.018	strong	.	ANKFN1	115	.	NM_153228	exon6	c.G677A	p.S226N	GGGTGAGTGAACT	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141719078	141719078	+	Missense_Mutation	SNP	A	A	G	rs114936410	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	38.0	15.0	46.0	0.0	0.394737	0	A|0.990;G|0.010	0.010	strong	.	MGAM	767	.	NM_004668	exon4	c.A407G	p.H136R	AGAATCATAGCTA	.	PASS	Atlas-SNP
LGSN	51557	hgsc.bcm.edu	37	6	64004905	64004905	+	Missense_Mutation	SNP	T	T	A	rs2459568	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	362.0	163.0	302.0	0.0	0.450276	0	T|0.988;A|0.012	0.012	strong	.	LGSN	82	.	NM_016571	exon2	c.A76T	p.N26Y	ATGTGTTCATGCT	.	PASS	Atlas-SNP
CCDC28A	25901	hgsc.bcm.edu	37	6	139094936	139094936	+	Missense_Mutation	SNP	C	C	A	rs34538642	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	270.0	126.0	203.0	0.0	0.466667	0	C|0.946;A|0.054	0.054	strong	.	CCDC28A	34	.	NM_015439	exon1	c.C125A	p.S42Y	GCGGGTCCCGGGA	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21258523	21258523	+	Missense_Mutation	SNP	C	C	T	rs61741625	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	106.0	58.0	120.0	0.0	0.54717	0	C|0.997;T|0.003	0.003	strong	.	APOB	761	.	NM_000384	exon7	c.G751A	p.A251T	TCTTAGCGTCCAG	.	PASS	Atlas-SNP
MATK	4145	hgsc.bcm.edu	37	19	3789321	3789321	+	Nonsense_Mutation	SNP	G	G	A	rs74830030	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	122.0	68.0	113.0	0.0	0.557377	0	G|0.980;A|0.020	0.020	strong	.	MATK	108	.	NM_002378	exon2	c.C25T	p.R9X	CTCTTCGTTCAGC	.	PASS	Atlas-SNP
PKN3	29941	hgsc.bcm.edu	37	9	131467782	131467782	+	Silent	SNP	C	C	T	rs55665019	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	15.0	11.0	10.0	0.0	0.733333	0	C|0.909;T|0.091	0.091	strong	.	PKN3	62	.	NM_013355	exon2	c.C225T	p.H75H	GCTGCACGCCCGA	.	PASS	Atlas-SNP
CIRH1A	84916	hgsc.bcm.edu	37	16	69191012	69191012	+	Missense_Mutation	SNP	G	G	A	rs8056684	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	155.0	69.0	111.0	0.0	0.445161	0	G|0.990;A|0.010	0.010	strong	.	CIRH1A	48	.	NM_032830	exon12	c.G1313A	p.R438H	TCCTTCGCTCTGC	.	PASS	Atlas-SNP
S100A3	6274	hgsc.bcm.edu	37	1	153520898	153520898	+	Missense_Mutation	SNP	G	G	A	rs61731550	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	28.0	58.0	0.0	0.54902	0	G|0.991;A|0.009	0.009	strong	.	S100A3	7	.	NM_002960	exon2	c.C64T	p.R22C	CACAGCGCCCTGC	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33568455	33568455	+	Silent	SNP	T	T	C	rs61746163	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	171.0	89.0	201.0	0.0	0.520468	0	T|0.994;C|0.006	0.006	strong	.	MYH7B	145	.	NM_020884	exon8	c.T543C	p.A181A	AGTGGCTGCTTAC	.	PASS	Atlas-SNP
PTP4A1	7803	hgsc.bcm.edu	37	6	64289968	64289968	+	Silent	SNP	G	G	T	rs1618240	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	29.0	16.0	32.0	0.0	0.551724	0	G|0.980;T|0.020	0.020	strong	.	PTP4A1	13	.	NM_003463	exon6	c.G411T	p.R137R	AAAGCGGCGTGGA	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149493519	149493519	+	Nonsense_Mutation	SNP	C	C	T	rs57595625	bycluster;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	139.0	73.0	135.0	0.0	0.52518	0	C|0.972;T|0.028	0.028	strong	.	.	.	.	NM_198455	exon44	c.C6595T	p.Q2199X	ATGGTGCAGGCGA	.	PASS	Atlas-SNP
C9orf3	84909	hgsc.bcm.edu	37	9	97563076	97563076	+	Missense_Mutation	SNP	C	C	T	rs34557833	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	141.0	88.0	130.0	0.0	0.624114	0	C|0.995;T|0.005	0.005	strong	.	C9orf3	100	.	NM_001193331	exon5	c.C1156T	p.R386C	CCCTGCCGCTTCC	.	PASS	Atlas-SNP
OGFOD3	79701	hgsc.bcm.edu	37	17	80373453	80373453	+	Missense_Mutation	SNP	G	G	A	rs61742456	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	54.0	32.0	35.0	0.0	0.592593	0	G|0.997;A|0.003	0.003	strong	.	.	.	.	NM_175902	exon2	c.C125T	p.P42L	AGCCACGGCCTCT	.	PASS	Atlas-SNP
PTPRJ	5795	hgsc.bcm.edu	37	11	48149352	48149352	+	Missense_Mutation	SNP	G	G	A	rs2229703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	96.0	38.0	73.0	0.0	0.395833	0	G|0.964;A|0.036	0.036	strong	PTPRJ_ENST00000418331,rectum,carcinoma,-1,5	PTPRJ	225	5	NM_001098503	exon7	c.G1114A	p.V372I	TTTGACGTCACCG	.	PASS	Atlas-SNP
CENPE	1062	hgsc.bcm.edu	37	4	104070041	104070041	+	Missense_Mutation	SNP	G	G	A	rs79431579	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	185.0	92.0	203.0	0.0	0.497297	0	G|0.985;A|0.015	0.015	strong	.	CENPE	253	.	NM_001813	exon28	c.C3803T	p.T1268I	TCCTGAGTATTTA	.	PASS	Atlas-SNP
ACCSL	390110	hgsc.bcm.edu	37	11	44069589	44069589	+	Missense_Mutation	SNP	G	G	A	rs3094398	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	70.0	30.0	51.0	0.0	0.428571	0	G|0.977;A|0.023	0.023	strong	.	ACCSL	57	.	NM_001031854	exon1	c.G3A	p.M1I	GAGTATGAGTCAT	.	PASS	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	37	22	21989230	21989230	+	Missense_Mutation	SNP	C	C	T	rs41279987	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	62.0	27.0	56.0	0.0	0.435484	0	C|0.974;T|0.026	0.026	strong	CCDC116,NS,carcinoma,-1,1	CCDC116	56	1	NM_152612	exon4	c.C878T	p.P293L	ACTGTCCGCTCCG	.	PASS	Atlas-SNP
CALCRL	10203	hgsc.bcm.edu	37	2	188250275	188250275	+	Missense_Mutation	SNP	A	A	T	rs13391909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	104.0	53.0	112.0	0.0	0.509615	0	A|0.954;T|0.046	0.046	strong	.	CALCRL	73	.	NM_001271751	exon3	c.T48A	p.F16L	TACCATAAAAAAA	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19482788	19482788	+	Missense_Mutation	SNP	T	T	C	rs145733997	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	192.0	95.0	204.0	0.0	0.494792	0	T|0.999;C|0.001	0.001	strong	.	UBR4	415	.	NM_020765	exon42	c.A6049G	p.I2017V	TGACAATTGCTAA	.	PASS	Atlas-SNP
ABCC11	85320	hgsc.bcm.edu	37	16	48250031	48250031	+	Silent	SNP	T	T	C	rs11860868	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	55.0	27.0	31.0	0.0	0.490909	0	T|0.927;C|0.073	0.073	strong	.	ABCC11	177	.	NM_033151	exon6	c.A945G	p.P315P	CGCCAGTGGGAAA	.	PASS	Atlas-SNP
GRID2IP	392862	hgsc.bcm.edu	37	7	6554126	6554126	+	Missense_Mutation	SNP	C	C	A	rs115745154	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	51.0	27.0	31.0	0.0	0.529412	0	C|0.986;A|0.014	0.014	strong	.	GRID2IP	82	.	NM_001145118	exon8	c.G1303T	p.V435L	CCAGCACAGGGTA	.	PASS	Atlas-SNP
N4BP2L2	10443	hgsc.bcm.edu	37	13	33110539	33110539	+	Missense_Mutation	SNP	C	C	A	rs144941975	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	100.0	40.0	121.0	0.0	0.4	0	C|0.998;A|0.002	0.002	strong	.	N4BP2L2	90	.	NM_014887	exon2	c.G626T	p.G209V	TTATGACCCTCAT	.	PASS	Atlas-SNP
LRRC14	9684	hgsc.bcm.edu	37	8	145745268	145745268	+	Silent	SNP	G	G	A	rs116791876	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	144.0	85.0	147.0	0.0	0.590278	0	G|0.994;A|0.006	0.006	strong	.	LRRC14	25	.	NM_001272036	exon3	c.G159A	p.T53T	ACACACGTGGCCC	.	PASS	Atlas-SNP
KIF23	9493	hgsc.bcm.edu	37	15	69714347	69714347	+	Silent	SNP	T	T	C	rs34969957	bycluster;byfrequency;by1000genomes	TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	180.0	90.0	175.0	0.0	0.5	0	T|0.985;C|0.015	0.015	strong	.	KIF23	57	.	NM_138555	exon5	c.T333C	p.Y111Y	TACATATGGTGTG	.	PASS	Atlas-SNP
BACE1	23621	hgsc.bcm.edu	37	11	117186285	117186285	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6324-01A-11D-2210-10	TCGA-G8-6324-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	707a995c-8926-4885-9a96-14690480f680	b7d0d7b7-70a7-40a0-818b-06ef40f7f580	87.0	4.0	151.0	0.0	0.045977	0	.	.	none	.	BACE1	33	.	NM_138972	exon1	c.A227G	p.Y76C	TCCACGTAGTAGC	.	PASS	Atlas-SNP
