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
TTLL9	164395	hgsc.bcm.edu	37	20	30510797	30510798	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	101.0	34.0	80.0	0.0	0.337	.	.	.	none	.	TTLL9	95	.	NM_001008409	exon8	c.604_605del	p.202_202del	.	.	PASS	Pindel,Atlas-Indel
GTF3C3	9330	hgsc.bcm.edu	37	2	197657762	197657767	+	In_Frame_Del	DEL	TCCTCC	TCCTCC	-	rs372304935	alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	TCCTCC	TCCTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	276.0	66.0	314.0	0.0	0.239	.	.	.	alt	.	GTF3C3	96	.	NM_012086	exon3	c.325_330del	p.109_110del	.	.	PASS	Pindel,Atlas-Indel
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324346	39324347	+	In_Frame_Ins	INS	-	-	TTT	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	196.0	18.0	203.0	0.0	0.0918367	0	.	.	none	KRTAP4-3,NS,carcinoma,+2,1	KRTAP4-3	40	1	NM_033187	exon1	c.79_80insAAA	p.P27delinsKP	.	.	PASS	Atlas-Indel
TNP2	7142	hgsc.bcm.edu	37	16	11362797	11362797	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	266.0	47.0	232.0	0.0	0.177	.	.	.	none	.	TNP2	15	.	NM_005425	exon1	c.324delC	p.N108fs	.	.	PASS	Pindel,Atlas-Indel
EXO5	64789	hgsc.bcm.edu	37	1	40981245	40981246	+	Frame_Shift_Ins	INS	-	-	G	rs150018949	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	89.0	29.0	114.0	0.0	0.326	.	-|0.989;G|0.011	0.011	strong	.	.	.	.	NM_022774	exon3	c.1029_1030insG	p.C343fs	.	.	PASS	Pindel,Atlas-Indel
ITGA7	3679	hgsc.bcm.edu	37	12	56091333	56091333	+	Splice_Site	DEL	G	G	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	68.0	26.0	63.0	0.0	0.382	.	.	.	none	.	ITGA7	194	.	NM_001144996	exon11	c.1422-2C>-	.	.	.	PASS	Pindel,Atlas-Indel
NEIL3	55247	hgsc.bcm.edu	37	4	178256864	178256864	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	178.0	53.0	157.0	0.0	0.298	.	.	.	none	.	NEIL3	89	.	NM_018248	exon3	c.300delC	p.G100fs	.	.	PASS	Pindel,Atlas-Indel
ZSCAN18	65982	hgsc.bcm.edu	37	19	58598358	58598369	+	In_Frame_Del	DEL	TGGAAAGGACTT	TGGAAAGGACTT	-	rs368736992		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	TGGAAAGGACTT	TGGAAAGGACTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	44.0	11.0	77.0	0.0	0.250	.	.	.	weak	.	ZSCAN18	104	.	NM_001145542	exon5	c.818_829del	p.273_277del	.	.	PASS	Pindel,Atlas-Indel
MN1	4330	hgsc.bcm.edu	37	22	28194962	28194963	+	In_Frame_Ins	INS	-	-	CTGCTG	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	81.0	10.0	76.0	0.0	0.123457	0	.	.	none	MN1,NS,carcinoma,+2,1	MN1	122	1	NM_002430	exon1	c.1570_1571insCAGCAG	p.Q524delinsQQQ	.	.	PASS	Atlas-Indel
KRTAP4-4	84616	hgsc.bcm.edu	37	17	39316851	39316865	+	In_Frame_Del	DEL	GCAGCAGGTGGTCTG	GCAGCAGGTGGTCTG	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	GCAGCAGGTGGTCTG	GCAGCAGGTGGTCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	130.0	24.0	120.0	0.0	0.185	.	.	.	none	.	KRTAP4-4	21	.	NM_032524	exon1	c.80_94del	p.27_32del	.	.	PASS	Pindel,Atlas-Indel
HLA-G	3135	hgsc.bcm.edu	37	6	29796435	29796435	+	Frame_Shift_Del	DEL	C	C	-	rs41557518	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	226.0	74.0	177.0	0.0	0.327	.	C|0.967;-|0.033	0.033	strong	.	HLA-G	90	.	NM_002127	exon4	c.458delA	p.D153fs	.	.	PASS	Pindel,Atlas-Indel
KREMEN2	79412	hgsc.bcm.edu	37	16	3017836	3017836	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	130.0	41.0	136.0	0.0	0.315	.	.	.	none	.	KREMEN2	13	.	NM_172229	exon9	c.1203delA	p.K401fs	.	.	PASS	Pindel,Atlas-Indel
ATF7IP2	80063	hgsc.bcm.edu	37	16	10565979	10565981	+	In_Frame_Del	DEL	TGT	TGT	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	26.0	10.0	21.0	0.0	0.385	.	.	.	none	.	ATF7IP2	40	.	NM_001256160	exon9	c.1364_1366del	p.455_456del	.	.	PASS	Pindel,Atlas-Indel
ZNF570	148268	hgsc.bcm.edu	37	19	37976121	37976123	+	In_Frame_Del	DEL	CAC	CAC	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	CAC	CAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	81.0	25.0	80.0	0.0	0.309	.	.	.	none	ZNF570,NS,carcinoma,+2,1	ZNF570	58	1	NM_144694	exon5	c.1596_1598del	p.532_533del	.	.	PASS	Pindel,Atlas-Indel
HOXA1	3198	hgsc.bcm.edu	37	7	27135317	27135319	+	In_Frame_Del	DEL	TGG	TGG	-	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	TGG	TGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	61.0	26.0	42.0	0.0	0.426	.	.	.	none	.	HOXA1	64	.	NM_005522	exon1	c.214_216del	p.72_72del	.	.	PASS	Pindel
ZNF644	84146	hgsc.bcm.edu	37	1	91404352	91404352	+	Silent	SNP	A	A	G	rs149082287	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	42.0	88.0	0.0	0.512195	0	A|0.999;G|0.001	0.001	strong	.	ZNF644	120	.	NM_201269	exon3	c.T2559C	p.Y853Y	TGTTTCATAACTA	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	37	3	184049807	184049807	+	Silent	SNP	C	C	T	rs11559218	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	44.0	114.0	0.0	0.411215	0	C|0.995;T|0.005	0.005	strong	.	EIF4G1	151	.	NM_001194946	exon33	c.C4572T	p.D1524D	GTGTGACGAGCAG	.	PASS	Atlas-SNP
CHMP6	79643	hgsc.bcm.edu	37	17	78968837	78968837	+	Silent	SNP	C	C	A	rs146625286	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	173.0	78.0	161.0	0.0	0.450867	0	C|0.999;A|0.001	0.001	strong	.	CHMP6	16	.	NM_024591	exon3	c.C192A	p.L64L	GCTGCTCAAGAAG	.	PASS	Atlas-SNP
ECE2	9718	hgsc.bcm.edu	37	3	183995839	183995839	+	Splice_Site	SNP	T	T	C	rs56080981	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	35.0	83.0	0.0	0.426829	0	.	.	weak	.	ECE2	303	.	NM_014693	exon5	c.957+2T>C	.	AGAAGGTAGGGCC	.	PASS	Atlas-SNP
TNFSF4	7292	hgsc.bcm.edu	37	1	173155860	173155860	+	Missense_Mutation	SNP	C	C	T	rs146261831	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	178.0	79.0	205.0	0.0	0.44382	0	C|1.000;T|0.000	0.000	weak	.	TNFSF4	29	.	NM_003326	exon3	c.G347A	p.S116N	TGAAGGCTAATGT	.	PASS	Atlas-SNP
SCAF11	9169	hgsc.bcm.edu	37	12	46321158	46321158	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	64.0	117.0	0.0	0.512	0	.	.	none	SCAF11,NS,carcinoma,0,1	SCAF11	145	1	NM_004719	exon11	c.A2326C	p.S776R	TTGGGCTTTCAGA	.	PASS	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29429732	29429732	+	Silent	SNP	T	T	C	rs61732184	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	253.0	121.0	231.0	0.0	0.478261	0	T|0.964;C|0.036	0.036	strong	.	OR2H1	38	.	NM_030883	exon3	c.T186C	p.S62S	CCTCTCTGACCTC	.	PASS	Atlas-SNP
TMEM171	134285	hgsc.bcm.edu	37	5	72424269	72424269	+	Silent	SNP	T	T	G	rs34728034	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	187.0	95.0	176.0	0.0	0.508021	0	T|0.980;G|0.020	0.020	strong	.	TMEM171	41	.	NM_173490	exon3	c.T693G	p.S231S	TGAATCTTCAGCT	.	PASS	Atlas-SNP
MAP7D1	55700	hgsc.bcm.edu	37	1	36644874	36644874	+	Silent	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	138.0	75.0	125.0	0.0	0.543478	0	.	.	none	.	MAP7D1	62	.	NM_018067	exon13	c.G2142A	p.E714E	GGAGGAGATCATG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179429612	179429612	+	Missense_Mutation	SNP	A	A	G	rs186273940	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	122.0	73.0	96.0	0.0	0.598361	0	A|0.999;G|0.001	0.001	strong	.	TTN	18412	.	NM_001267550	exon326	c.T81247C	p.S27083P	AGATTGATGTCAC	.	PASS	Atlas-SNP
KPTN	11133	hgsc.bcm.edu	37	19	47987230	47987230	+	Missense_Mutation	SNP	C	C	T	rs142867197	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	44.0	22.0	25.0	0.0	0.5	0	C|0.998;T|0.002	0.002	strong	.	KPTN	34	.	NM_007059	exon1	c.G188A	p.R63Q	ACTGGCCGGATTT	.	PASS	Atlas-SNP
CCDC158	339965	hgsc.bcm.edu	37	4	77255210	77255210	+	Silent	SNP	C	C	T	rs113022439	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	177.0	93.0	171.0	0.0	0.525424	0	C|0.984;T|0.016	0.016	strong	.	CCDC158	114	.	NM_001042784	exon18	c.G2775A	p.K925K	CTCTGTCTTGCTC	.	PASS	Atlas-SNP
LPAR2	9170	hgsc.bcm.edu	37	19	19737992	19737992	+	Silent	SNP	G	G	A	rs150741448	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	63.0	29.0	59.0	0.0	0.460317	0	G|0.997;A|0.003	0.003	strong	.	LPAR2	28	.	NM_004720	exon2	c.C102T	p.V34V	CACCACGACCACA	.	PASS	Atlas-SNP
VPS41	27072	hgsc.bcm.edu	37	7	38785204	38785204	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	101.0	44.0	89.0	0.0	0.435644	0	.	.	none	.	VPS41	102	.	NM_014396	exon23	c.A1936G	p.I646V	GACAGATCTCAAG	.	PASS	Atlas-SNP
RIC3	79608	hgsc.bcm.edu	37	11	8159884	8159884	+	Missense_Mutation	SNP	C	C	G	rs80168649	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	50.0	106.0	0.0	0.442478	0	C|0.992;G|0.008	0.008	strong	.	RIC3	42	.	NM_001206672	exon3	c.G362C	p.G121A	GTTTTCCCCTTTG	.	PASS	Atlas-SNP
ABCD4	5826	hgsc.bcm.edu	37	14	74759066	74759066	+	Missense_Mutation	SNP	G	G	A	rs147795328	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	69.0	34.0	61.0	0.0	0.492754	0	G|0.999;A|0.001	0.001	strong	.	ABCD4	54	.	NM_005050	exon11	c.C1042T	p.R348W	TCTCCCGAAGCTG	.	PASS	Atlas-SNP
USP19	10869	hgsc.bcm.edu	37	3	49148980	49148980	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	41.0	16.0	49.0	0.0	0.390244	0	.	.	none	.	USP19	158	.	NM_001199161	exon21	c.T3170C	p.I1057T	ACCTCAATGGGCC	.	PASS	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	37	12	21377717	21377717	+	Silent	SNP	C	C	G	rs143812591		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	83.0	42.0	82.0	0.0	0.506024	0	C|1.000;G|0.000	0.000	weak	.	SLCO1B1	151	.	NM_006446	exon14	c.C1809G	p.S603S	GTGGTCCACCAAC	.	PASS	Atlas-SNP
DNAJB12	54788	hgsc.bcm.edu	37	10	74098037	74098037	+	Silent	SNP	A	A	G	rs138477026	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	34.0	71.0	0.0	0.414634	0	A|1.000;G|0.000	0.000	strong	.	DNAJB12	22	.	NM_017626	exon6	c.T858C	p.P286P	GAGGATAGGCATC	.	PASS	Atlas-SNP
C1orf168	199920	hgsc.bcm.edu	37	1	57257914	57257914	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	46.0	80.0	0.0	0.484211	0	.	.	none	C1orf168,caecum,carcinoma,+1,1	C1orf168	102	1	NM_001004303	exon2	c.C572T	p.A191V	GTCTGGGCTCCTT	.	PASS	Atlas-SNP
TFAM	7019	hgsc.bcm.edu	37	10	60145363	60145363	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	43.0	78.0	0.0	0.452632	0	.	.	none	.	TFAM	52	.	NM_003201	exon1	c.C56T	p.A19V	CTGGAGCAGAGCT	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228884530	228884530	+	Missense_Mutation	SNP	G	G	A	rs61752225	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	264.0	119.0	290.0	0.0	0.450758	0	G|0.997;A|0.003	0.003	strong	SPHKAP_ENST00000392056,NS,carcinoma,-1,4	SPHKAP	750	4	NM_030623	exon7	c.C1040T	p.S347F	ATCATGGAGAAAT	.	PASS	Atlas-SNP
CELSR2	1952	hgsc.bcm.edu	37	1	109811522	109811522	+	Missense_Mutation	SNP	G	G	A	rs148006855	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	168.0	68.0	157.0	0.0	0.404762	0	G|0.999;A|0.001	0.001	strong	CELSR2,NS,neuroblastoma,-2,1	CELSR2	228	1	NM_001408	exon19	c.G6523A	p.D2175N	CGCTTGGACAAAG	.	PASS	Atlas-SNP
DBC1	1620	hgsc.bcm.edu	37	9	121930416	121930416	+	Missense_Mutation	SNP	C	C	T	rs141766717	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	62.0	90.0	0.0	0.496	0	C|0.999;T|0.001	0.001	strong	DBC1,NS,carcinoma,0,2	DBC1	194	2	NM_014618	exon8	c.G1232A	p.R411Q	CAGCTCCGCTGGC	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189858790	189858790	+	Silent	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	36.0	96.0	0.0	0.45	0	.	.	none	.	COL3A1	292	.	NM_000090	exon17	c.T1176C	p.P392P	TAGTCCTGGTGGT	.	PASS	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	37	5	73205382	73205382	+	Missense_Mutation	SNP	A	A	G	rs200976886	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	166.0	92.0	122.0	0.0	0.554217	0	A|0.997;G|0.003	0.003	weak	.	.	.	.	NM_001080479	exon34	c.A4307G	p.E1436G	ATGAGGAGCTGGC	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232596859	232596859	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	173.0	90.0	186.0	0.0	0.520231	0	.	.	none	.	SIPA1L2	218	.	NM_020808	exon8	c.G2869A	p.G957R	CCAGCCCGTTCCT	.	PASS	Atlas-SNP
POU5F1	5460	hgsc.bcm.edu	37	6	31138310	31138310	+	Missense_Mutation	SNP	C	C	T	rs61743728	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	77.0	76.0	67.0	0.0	0.987013	0	C|0.974;T|0.026	0.026	strong	.	POU5F1	25	.	NM_002701	exon1	c.G88A	p.V30I	GATCAACCCAGCC	.	PASS	Atlas-SNP
PGC	5225	hgsc.bcm.edu	37	6	41710111	41710111	+	Silent	SNP	G	G	A	rs61731757	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	120.0	59.0	116.0	0.0	0.491667	0	G|0.994;A|0.006	0.006	strong	.	PGC	56	.	NM_002630	exon5	c.C564T	p.S188S	ATCCACGGACAGA	.	PASS	Atlas-SNP
SCN4A	6329	hgsc.bcm.edu	37	17	62018931	62018931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	139.0	62.0	142.0	0.0	0.446043	0	.	.	none	.	SCN4A	205	.	NM_000334	exon24	c.C4711T	p.P1571S	TGGAGGGGTTGCC	.	PASS	Atlas-SNP
OR2J3	442186	hgsc.bcm.edu	37	6	29080386	29080386	+	Missense_Mutation	SNP	T	T	C	rs79293918	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	345.0	152.0	318.0	1.0	0.44058	0.00314465	T|0.981;C|0.019	0.019	strong	.	OR2J3	53	.	NM_001005216	exon1	c.T719C	p.V240A	AGAAAGTGTTTGG	.	PASS	Atlas-SNP
TRIM14	9830	hgsc.bcm.edu	37	9	100857170	100857170	+	Silent	SNP	A	A	G	rs150211153	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	57.0	123.0	0.0	0.504425	0	A|0.999;G|0.001	0.001	strong	.	TRIM14	24	.	NM_033219	exon4	c.T679C	p.L227L	TGTCCAATGGCGT	.	PASS	Atlas-SNP
CFTR	1080	hgsc.bcm.edu	37	7	117306991	117306991	+	Silent	SNP	C	C	T	rs1800135	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	191.0	92.0	218.0	1.0	0.481675	0.00458716	C|0.994;T|0.006	0.006	strong	.	CFTR	171	.	NM_000492	exon27	c.C4272T	p.Y1424Y	GCAGTACGATTCC	.	PASS	Atlas-SNP
SMCO3	0	hgsc.bcm.edu	37	12	14959006	14959006	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	243.0	104.0	237.0	0.0	0.427984	0	.	.	none	.	.	.	.	NM_001013698	exon2	c.A609C	p.K203N	GGCTGATTTGAAC	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36691691	36691691	+	Silent	SNP	T	T	C	rs875725	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	108.0	53.0	113.0	0.0	0.490741	0	T|0.965;C|0.035	0.035	strong	.	MYH9	225	.	NM_002473	exon26	c.A3345G	p.E1115E	CTGGAGTTCAGAG	.	PASS	Atlas-SNP
ENPP7	339221	hgsc.bcm.edu	37	17	77710990	77710990	+	Missense_Mutation	SNP	C	C	T	rs139719997	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	38.0	64.0	0.0	0.417582	0	C|0.997;T|0.003	0.003	strong	ENPP7,NS,carcinoma,-2,1	ENPP7	63	1	NM_178543	exon4	c.C1177T	p.R393W	ATGTGCCGGCTGC	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158592901	158592901	+	Missense_Mutation	SNP	C	C	G	rs77877855	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	221.0	100.0	260.0	0.0	0.452489	0	C|0.961;G|0.039	0.039	strong	.	SPTA1	720	.	NM_003126	exon43	c.G5992C	p.A1998P	GTTGAGCAGAAAT	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129902131	129902131	+	Missense_Mutation	SNP	T	T	C	rs146439186	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	213.0	88.0	157.0	0.0	0.413146	0	T|0.998;C|0.002	0.002	strong	.	MKI67	363	.	NM_002417	exon13	c.A7973G	p.E2658G	TCCTCTTCTACTG	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	37	22	32754286	32754286	+	Silent	SNP	G	G	A	rs9621426	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	271.0	137.0	266.0	0.0	0.505535	0	G|0.979;A|0.021	0.021	strong	.	RFPL3	91	.	NM_001098535	exon1	c.G228A	p.L76L	GGATCTGCTTTGC	.	PASS	Atlas-SNP
BPIFB4	149954	hgsc.bcm.edu	37	20	31671575	31671575	+	Missense_Mutation	SNP	T	T	G	rs144272671	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	127.0	74.0	90.0	0.0	0.582677	0	T|0.998;G|0.002	0.002	strong	.	.	.	.	NM_182519	exon3	c.T572G	p.L191R	GCCTGCTCGGCGG	.	PASS	Atlas-SNP
ACOXL	55289	hgsc.bcm.edu	37	2	111666368	111666368	+	Missense_Mutation	SNP	G	G	A	rs116012262	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	124.0	67.0	168.0	0.0	0.540323	0	G|0.999;A|0.001	0.001	strong	.	ACOXL	93	.	NM_001142807	exon11	c.G791A	p.R264Q	CTAGCCGGAGGCA	.	PASS	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68653946	68653946	+	Missense_Mutation	SNP	C	C	T	rs148886354	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	51.0	29.0	51.0	0.0	0.568627	0	C|0.999;T|0.001	0.001	strong	.	ITGA11	110	.	NM_001004439	exon5	c.G454A	p.V152M	GGGCCACGGTCTT	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104048446	104048446	+	Missense_Mutation	SNP	G	G	T	rs149524008	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	76.0	41.0	85.0	0.0	0.539474	0	G|0.992;T|0.008	0.008	strong	.	STAB2	370	.	NM_017564	exon13	c.G1521T	p.K507N	GGACAAGTTAGAA	.	PASS	Atlas-SNP
TCTN2	79867	hgsc.bcm.edu	37	12	124171538	124171538	+	Silent	SNP	C	C	G	rs149430216	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	209.0	98.0	223.0	0.0	0.4689	0	C|0.996;G|0.004	0.004	strong	.	TCTN2	50	.	NM_024809	exon6	c.C720G	p.P240P	GTCCCCCCTTGCC	.	PASS	Atlas-SNP
FAM211A	388341	hgsc.bcm.edu	37	17	16347001	16347001	+	Silent	SNP	C	C	T	rs200702301		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	69.0	34.0	75.0	0.0	0.492754	0	C|0.996;T|0.004	0.004	weak	.	FAM211A	21	.	NM_001113567	exon4	c.G936A	p.R312R	CCCTTCCCGGACC	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32137901	32137901	+	Missense_Mutation	SNP	A	A	C	rs3759296	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	150.0	74.0	129.0	0.0	0.493333	0	A|0.986;G|0.014	.	alt	C12orf35,NS,carcinoma,0,1	.	.	1	NM_018169	exon4	c.A4012C	p.T1338P	ACAAAAACAGCTT	.	PASS	Atlas-SNP
MYLPF	29895	hgsc.bcm.edu	37	16	30387148	30387148	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	48.0	101.0	0.0	0.448598	0	.	.	none	.	MYLPF	12	.	NM_013292	exon2	c.A11G	p.K4R	CACCCAAGAGGGC	.	PASS	Atlas-SNP
MED11	400569	hgsc.bcm.edu	37	17	4636385	4636385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	154.0	64.0	149.0	0.0	0.415584	0	.	.	none	.	MED11	5	.	NM_001001683	exon3	c.C257T	p.S86L	ACTCTTCGAGGAA	.	PASS	Atlas-SNP
PHF3	23469	hgsc.bcm.edu	37	6	64394121	64394121	+	Silent	SNP	A	A	G	rs35294942	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	59.0	129.0	0.0	0.522124	0	A|0.990;G|0.010	0.010	strong	.	PHF3	191	.	NM_015153	exon3	c.A498G	p.V166V	GACTGTATCTACT	.	PASS	Atlas-SNP
MTMR10	54893	hgsc.bcm.edu	37	15	31246972	31246972	+	Missense_Mutation	SNP	C	C	T	rs142149917	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	58.0	76.0	0.0	0.513274	0	C|0.996;T|0.004	0.004	strong	MTMR10_ENST00000435680,NS,carcinoma,0,2	MTMR10	74	2	NM_017762	exon10	c.G1060A	p.V354I	CATTAACGCATAG	.	PASS	Atlas-SNP
TSPEAR	54084	hgsc.bcm.edu	37	21	45948342	45948342	+	Silent	SNP	C	C	T	rs201202780		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	74.0	26.0	56.0	0.0	0.351351	0	C|0.999;T|0.001	0.001	weak	.	TSPEAR	110	.	NM_144991	exon6	c.G915A	p.V305V	TGCTAACACGGAG	.	PASS	Atlas-SNP
FRMD4A	55691	hgsc.bcm.edu	37	10	13779898	13779898	+	Silent	SNP	C	C	T	rs61755072	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	138.0	68.0	147.0	0.0	0.492754	0	C|0.994;T|0.006	0.006	strong	.	FRMD4A	108	.	NM_018027	exon12	c.G705A	p.L235L	GTAGCTCAGGCCC	.	PASS	Atlas-SNP
SIK1	150094	hgsc.bcm.edu	37	21	44839263	44839263	+	Missense_Mutation	SNP	C	C	T	rs34987632	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	144.0	68.0	130.0	0.0	0.472222	0	C|0.996;T|0.004	0.004	strong	.	SIK1	65	.	NM_173354	exon10	c.G1215A	p.M405I	ACAGTCCATCTCG	.	PASS	Atlas-SNP
C10orf54	64115	hgsc.bcm.edu	37	10	73533124	73533124	+	Missense_Mutation	SNP	C	C	T	rs146887444	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	285.0	145.0	284.0	0.0	0.508772	0	C|0.999;T|0.001	0.001	strong	.	C10orf54	29	.	NM_022153	exon1	c.G73A	p.A25T	GGGACGCAGCCAG	.	PASS	Atlas-SNP
AGBL1	123624	hgsc.bcm.edu	37	15	86790997	86790997	+	Missense_Mutation	SNP	G	G	A	rs149477284	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	115.0	58.0	98.0	0.0	0.504348	0	G|0.995;A|0.005	0.005	strong	.	AGBL1	151	.	NM_152336	exon6	c.G484A	p.V162M	GCCTACGTGCAGA	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970899	151970899	+	Silent	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	360.0	23.0	385.0	0.0	0.0638889	0	.	.	none	.	MLL3	1564	.	NM_170606	exon7	c.A903G	p.K301K	GGTACATTTCTCT	.	PASS	Atlas-SNP
AKR1B15	441282	hgsc.bcm.edu	37	7	134260595	134260595	+	Missense_Mutation	SNP	C	C	T	rs141101327	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	616.0	220.0	598.0	0.0	0.357143	0	C|0.991;T|0.009	0.009	strong	.	AKR1B15	105	.	NM_001080538	exon8	c.C659T	p.T220M	ACCTCACGCAGGA	.	PASS	Atlas-SNP
SETD1B	23067	hgsc.bcm.edu	37	12	122248047	122248047	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	5.0	121.0	0.0	0.0442478	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.C1196T	p.P399L	TCTCTCCGTATCA	.	PASS	Atlas-SNP
ELMOD2	255520	hgsc.bcm.edu	37	4	141464666	141464666	+	Missense_Mutation	SNP	G	G	A	rs148286208	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	94.0	36.0	81.0	0.0	0.382979	0	A|0.001;G|0.999	0.001	strong	.	ELMOD2	16	.	NM_153702	exon8	c.G662A	p.S221N	TGAAGAGTGAAGC	.	PASS	Atlas-SNP
SCN4A	6329	hgsc.bcm.edu	37	17	62036738	62036738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	141.0	69.0	151.0	0.0	0.489362	0	.	.	none	.	SCN4A	205	.	NM_000334	exon12	c.G1906A	p.E636K	AATACTCGTAGGG	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56369914	56369914	+	Silent	SNP	C	C	T	rs113444208	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	73.0	33.0	53.0	0.0	0.452055	0	C|0.996;T|0.004	0.004	strong	.	NLRP4	331	.	NM_134444	exon3	c.C1155T	p.A385A	GGGTGCCGAGGGC	.	PASS	Atlas-SNP
RNASE1	6035	hgsc.bcm.edu	37	14	21269811	21269811	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	194.0	105.0	213.0	0.0	0.541237	0	.	.	none	.	RNASE1	14	.	NM_198235	exon3	c.A417T	p.E139D	GCTCCCTTCACAG	.	PASS	Atlas-SNP
PLEKHM1	9842	hgsc.bcm.edu	37	17	43552812	43552812	+	Silent	SNP	A	A	G	rs71227520	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	105.0	194.0	0.0	0.990566	0	A|0.925;G|0.075	0.075	strong	.	PLEKHM1	69	.	NM_014798	exon4	c.T577C	p.L193L	GGGCCAATGGGGT	.	PASS	Atlas-SNP
DCLK3	85443	hgsc.bcm.edu	37	3	36779992	36779992	+	Silent	SNP	G	G	A	rs55888784	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	58.0	113.0	0.0	0.54717	0	G|0.982;A|0.018	0.018	strong	DCLK3,NS,carcinoma,-2,1	DCLK3	95	1	NM_033403	exon2	c.C159T	p.R53R	CCCACAGCGGTGG	.	PASS	Atlas-SNP
PXK	54899	hgsc.bcm.edu	37	3	58376938	58376938	+	Silent	SNP	G	G	A	rs55962533	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	68.0	36.0	65.0	0.0	0.529412	0	G|0.991;A|0.009	0.009	strong	.	PXK	89	.	NM_017771	exon6	c.G531A	p.V177V	GCTAGTGTTAAGC	.	PASS	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	37	1	148009437	148009437	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	262.0	17.0	172.0	0.0	0.0648855	0	.	.	none	.	NBPF14	107	.	NM_015383	exon16	c.G1870A	p.G624S	GACAACCTGAAGG	.	PASS	Atlas-SNP
AK2	204	hgsc.bcm.edu	37	1	33478841	33478841	+	Missense_Mutation	SNP	C	C	T	rs201817938		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	147.0	54.0	157.0	0.0	0.367347	0	.	.	weak	.	AK2	27	.	NM_013411	exon6	c.G661A	p.A221T	TGCTTGCGAACAC	.	PASS	Atlas-SNP
CDC42EP1	11135	hgsc.bcm.edu	37	22	37962583	37962583	+	Missense_Mutation	SNP	G	G	A	rs61739954	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	135.0	59.0	153.0	0.0	0.437037	0	G|0.980;A|0.020	0.020	strong	CDC42EP1,colon,carcinoma,0,1	CDC42EP1	53	1	NM_152243	exon2	c.G227A	p.R76H	CCCATCGCTCACC	.	PASS	Atlas-SNP
PLEKHG4B	153478	hgsc.bcm.edu	37	5	163099	163099	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	138.0	76.0	147.0	0.0	0.550725	0	.	.	none	.	PLEKHG4B	167	.	NM_052909	exon11	c.C1844T	p.A615V	CCCTTGCCCAGAG	.	PASS	Atlas-SNP
CDHR1	92211	hgsc.bcm.edu	37	10	85978958	85978958	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	36.0	117.0	0.0	0.45	0	.	.	none	CDHR1_ENST00000332904,colon,carcinoma,0,3	CDHR1	122	3	NM_001171971	exon17	c.G2164A	p.E722K	CACTGCGAAATTG	.	PASS	Atlas-SNP
SLC26A8	116369	hgsc.bcm.edu	37	6	35911856	35911856	+	Missense_Mutation	SNP	G	G	A	rs61741366	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	303.0	138.0	275.0	0.0	0.455446	0	G|0.993;A|0.007	0.007	strong	.	SLC26A8	95	.	NM_052961	exon20	c.C2734T	p.P912S	GGTTGGGCTCCAT	.	PASS	Atlas-SNP
MYO1H	283446	hgsc.bcm.edu	37	12	109838954	109838954	+	Silent	SNP	C	C	T	rs138935511	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	45.0	89.0	0.0	0.473684	0	C|0.999;T|0.001	0.001	strong	.	MYO1H	98	.	NM_001101421	exon5	c.C579T	p.V193V	AGTTGTCTACCAA	.	PASS	Atlas-SNP
BNIP1	662	hgsc.bcm.edu	37	5	172578595	172578595	+	Silent	SNP	T	T	C	rs180928619	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	55.0	98.0	0.0	0.454545	0	T|0.999;C|0.001	0.001	strong	.	BNIP1	30	.	NM_013979	exon3	c.T204C	p.I68I	ATTTATTTGGACT	.	PASS	Atlas-SNP
CLTCL1	8218	hgsc.bcm.edu	37	22	19213091	19213091	+	Silent	SNP	C	C	T	rs367815723		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	68.0	33.0	74.0	0.0	0.485294	0	.	.	weak	.	CLTCL1	115	.	NM_001835	exon13	c.G2013A	p.L671L	AGCAGACAGCATG	.	PASS	Atlas-SNP
GRHPR	9380	hgsc.bcm.edu	37	9	37422763	37422763	+	Missense_Mutation	SNP	C	C	T	rs147185003	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	65.0	23.0	41.0	0.0	0.353846	0	C|0.999;T|0.001	0.001	strong	.	GRHPR	35	.	NM_012203	exon1	c.C16T	p.L6F	GTGCGACTCATGA	.	PASS	Atlas-SNP
MOGAT1	116255	hgsc.bcm.edu	37	2	223574546	223574546	+	Silent	SNP	A	A	G	rs142300173	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	117.0	57.0	158.0	0.0	0.487179	0	A|0.998;G|0.002	0.002	strong	.	MOGAT1	47	.	NM_058165	exon6	c.A945G	p.K315K	TAGGAAATTGTTT	.	PASS	Atlas-SNP
LRIG1	26018	hgsc.bcm.edu	37	3	66431280	66431280	+	Missense_Mutation	SNP	C	C	T	rs9877201	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	81.0	40.0	69.0	0.0	0.493827	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
UBXN11	91544	hgsc.bcm.edu	37	1	26608867	26608867	+	Missense_Mutation	SNP	C	C	A	rs193142354	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	36.0	8.0	24.0	0.0	0.222222	0	C|0.880;A|0.120	0.120	strong	UBXN11,colon,carcinoma,0,2	UBXN11	54	2	NM_183008	exon16	c.G1486T	p.G496C	CGGGACCGGGACT	.	PASS	Atlas-SNP
SKIV2L2	23517	hgsc.bcm.edu	37	5	54674963	54674963	+	Silent	SNP	T	T	C	rs139182599	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	9.0	8.0	11.0	0.0	0.888889	0	T|0.997;C|0.003	0.003	strong	.	SKIV2L2	104	.	NM_015360	exon18	c.T1992C	p.N664N	AAAGAATGAAGGA	.	PASS	Atlas-SNP
RNASE3	6037	hgsc.bcm.edu	37	14	21359987	21359987	+	Missense_Mutation	SNP	C	C	G	rs202232277	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	132.0	64.0	147.0	0.0	0.484848	0	C|0.999;G|0.001	0.001	weak	.	RNASE3	24	.	NM_002935	exon2	c.C142G	p.P48A	AACCCCCCTCGAT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093054	1093054	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	46.0	4.0	49.0	0.0	0.0869565	0	.	.	none	.	MUC2	614	.	NM_002457	exon30	c.C4873G	p.Q1625E	GGCACACAGACCC	.	PASS	Atlas-SNP
METTL7A	25840	hgsc.bcm.edu	37	12	51319238	51319238	+	Silent	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	96.0	50.0	103.0	0.0	0.520833	0	.	.	none	.	METTL7A	19	.	NM_014033	exon1	c.T417C	p.D139D	TGTGGATGTGGTG	.	PASS	Atlas-SNP
MVB12A	93343	hgsc.bcm.edu	37	19	17534540	17534540	+	Missense_Mutation	SNP	G	G	T	rs147706400	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	65.0	37.0	86.0	0.0	0.569231	0	G|0.999;T|0.001	0.001	strong	.	.	.	.	NM_138401	exon6	c.G572T	p.G191V	GGCTGGGCTCTCG	.	PASS	Atlas-SNP
IL1RL2	8808	hgsc.bcm.edu	37	2	102851470	102851470	+	Missense_Mutation	SNP	G	G	A	rs75091099	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	160.0	73.0	155.0	0.0	0.45625	0	G|0.991;A|0.009	0.009	strong	IL1RL2,NS,carcinoma,-1,1	IL1RL2	118	1	NM_003854	exon11	c.G1411A	p.A471T	CAAATCGCGGTCT	.	PASS	Atlas-SNP
USP34	9736	hgsc.bcm.edu	37	2	61450409	61450409	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	78.0	5.0	90.0	0.0	0.0641026	0	.	.	none	USP34,NS,carcinoma,+2,1	USP34	334	1	NM_014709	exon63	c.G7618C	p.D2540H	CCATGTCAGTCTG	.	PASS	Atlas-SNP
EHMT2	10919	hgsc.bcm.edu	37	6	31851172	31851172	+	Silent	SNP	G	G	A	rs148424397	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	269.0	145.0	252.0	0.0	0.539033	0	G|0.999;A|0.001	0.001	strong	.	EHMT2	45	.	NM_006709	exon23	c.C2961T	p.C987C	CTGGCCGCACAGG	.	PASS	Atlas-SNP
DOT1L	84444	hgsc.bcm.edu	37	19	2222327	2222327	+	Silent	SNP	G	G	A	rs373960110		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	132.0	80.0	127.0	0.0	0.606061	0	.	.	weak	.	DOT1L	205	.	NM_032482	exon24	c.G3159A	p.A1053A	TGGTGCGGGCAGT	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31084191	31084191	+	Missense_Mutation	SNP	T	T	C	rs33941312	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	35.0	35.0	38.0	0.0	1	0	T|0.985;C|0.015	0.015	strong	.	CDSN	48	.	NM_001264	exon2	c.A1201G	p.S401G	TAGAACTGCTGGG	.	PASS	Atlas-SNP
TP53BP1	7158	hgsc.bcm.edu	37	15	43712823	43712823	+	Missense_Mutation	SNP	C	C	T	rs28903077	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	89.0	47.0	86.0	0.0	0.52809	0	C|0.998;T|0.002	0.002	strong	.	TP53BP1	157	.	NM_001141980	exon21	c.G4361A	p.R1454Q	TCTGTTCGTCTGG	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77661017	77661017	+	Missense_Mutation	SNP	A	A	C	rs76656494	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	62.0	28.0	58.0	0.0	0.451613	0	A|0.988;C|0.012	0.012	strong	.	SHROOM3	134	.	NM_020859	exon5	c.A1691C	p.E564A	TGCCTGAAAATGA	.	PASS	Atlas-SNP
EFCAB5	374786	hgsc.bcm.edu	37	17	28407861	28407861	+	Silent	SNP	G	G	A	rs147629201	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	138.0	64.0	125.0	0.0	0.463768	0	G|0.990;A|0.010	0.010	strong	.	EFCAB5	122	.	NM_198529	exon17	c.G3288A	p.K1096K	TAATAAGCATGAT	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25272807	25272807	+	Silent	SNP	C	C	T	rs148844496	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	43.0	22.0	33.0	0.0	0.511628	0	C|0.999;T|0.001	0.001	strong	.	ATP12A	172	.	NM_001185085	exon12	c.C1542T	p.H514H	CATCCACGAGATG	.	PASS	Atlas-SNP
C4orf40	401137	hgsc.bcm.edu	37	4	71024463	71024463	+	Missense_Mutation	SNP	G	G	C	rs142405912	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	9.0	135.0	0.0	0.0841122	0	G|0.993;C|0.007	0.007	strong	.	C4orf40	19	.	NM_214711	exon3	c.G494C	p.G165A	CTGTTGGAGCTGA	.	PASS	Atlas-SNP
SLIT3	6586	hgsc.bcm.edu	37	5	168114030	168114030	+	Missense_Mutation	SNP	C	C	T	rs148887706	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	326.0	165.0	308.0	0.0	0.506135	0	C|1.000;T|0.000	0.000	strong	.	SLIT3	224	.	NM_001271946	exon30	c.G3289A	p.V1097M	TGTCCACGCACTG	.	PASS	Atlas-SNP
PHLDB3	653583	hgsc.bcm.edu	37	19	43990438	43990438	+	Missense_Mutation	SNP	G	G	A	rs201337364	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	30.0	15.0	38.0	0.0	0.5	0	.	.	weak	.	PHLDB3	30	.	NM_198850	exon13	c.C1465T	p.P489S	CAGCAGGGCCTGA	.	PASS	Atlas-SNP
SNX29	92017	hgsc.bcm.edu	37	16	12145791	12145791	+	Missense_Mutation	SNP	G	G	C	rs118191509	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	499.0	217.0	504.0	0.0	0.43487	0	G|0.983;C|0.017	0.017	strong	.	SNX29	60	.	NM_032167	exon8	c.G836C	p.G279A	ACTCTGGGGACGT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911227	29911227	+	Nonsense_Mutation	SNP	G	G	T	rs1059537	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	220.0	94.0	192.0	0.0	0.427273	0	C|0.002;G|0.992;T|0.006	0.006	strong	.	HLA-A	89	.	NM_001242758	exon3	c.G526T	p.E176X	GCCCATGAGGCGG	.	PASS	Atlas-SNP
FAM90A1	55138	hgsc.bcm.edu	37	12	8377348	8377348	+	Silent	SNP	T	T	C	rs199649765		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	41.0	13.0	12.0	0.0	0.317073	0	.	.	weak	FAM90A1,NS,neuroblastoma,0,1	FAM90A1	68	1	NM_018088	exon4	c.A81G	p.P27P	CCCAACTGGGGCC	.	scavenged	Atlas-SNP
TCTN2	79867	hgsc.bcm.edu	37	12	124172643	124172643	+	Silent	SNP	C	C	T	rs144567556	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	43.0	113.0	0.0	0.355372	0	C|0.994;T|0.006	0.006	strong	.	TCTN2	50	.	NM_024809	exon7	c.C810T	p.D270D	TACTGACGCAAAA	.	PASS	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23744844	23744844	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	117.0	7.0	107.0	0.0	0.0598291	0	.	.	none	.	HOMEZ	80	.	NM_020834	exon2	c.G1593A	p.E531E	CTCCTCCTCTTCC	.	PASS	Atlas-SNP
HELZ	9931	hgsc.bcm.edu	37	17	65199433	65199433	+	Splice_Site	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	87.0	5.0	76.0	0.0	0.0574713	0	.	.	none	.	HELZ	160	.	NM_014877	exon7	c.372+2T>C	.	CAACATACCAGGG	.	PASS	Atlas-SNP
CDC25C	995	hgsc.bcm.edu	37	5	137621421	137621421	+	Missense_Mutation	SNP	C	C	T	rs139145068	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	142.0	82.0	155.0	0.0	0.577465	0	C|0.997;T|0.003	0.003	strong	CDC25C,NS,carcinoma,0,1	CDC25C	37	1	NM_001790	exon14	c.G1382A	p.R461Q	TGCTCCCGCAGCT	.	PASS	Atlas-SNP
PREPL	9581	hgsc.bcm.edu	37	2	44566479	44566479	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	120.0	60.0	109.0	0.0	0.5	0	.	.	none	.	PREPL	69	.	NM_001171603	exon7	c.C776A	p.T259K	TCTTTTGTAAGAT	.	PASS	Atlas-SNP
OR5AR1	219493	hgsc.bcm.edu	37	11	56431618	56431618	+	Silent	SNP	C	C	T	rs77272836	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	209.0	102.0	180.0	1.0	0.488038	0.00555556	C|0.990;T|0.010	0.010	strong	OR5AR1,NS,carcinoma,0,1	OR5AR1	68	1	NM_001004730	exon1	c.C457T	p.L153L	GCTGGTCTAGTGA	.	scavenged	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3760027	3760027	+	Missense_Mutation	SNP	G	G	A	rs11556574	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	87.0	42.0	75.0	0.0	0.482759	0	G|0.993;A|0.007	0.007	strong	.	APBA3	28	.	NM_004886	exon2	c.C236T	p.A79V	CAGGGGGCTCCAC	.	PASS	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55972974	55972974	+	Missense_Mutation	SNP	T	T	A	rs1870377	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	190.0	81.0	170.0	0.0	0.426316	0	T|0.781;A|0.219	0.219	strong	KDR,NS,carcinoma,0,1	KDR	307	1	NM_002253	exon11	c.A1416T	p.Q472H	GACAGCTTGGCTA	.	PASS	Atlas-SNP
BCL9	607	hgsc.bcm.edu	37	1	147091689	147091689	+	Silent	SNP	G	G	A	rs61751617	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	84.0	49.0	68.0	1.0	0.583333	0.0147059	G|0.973;A|0.027	0.027	strong	BCL9_ENST00000234739,NS,carcinoma,+1,1	BCL9	150	1	NM_004326	exon8	c.G1728A	p.P576P	AGGGCCGAATGTC	.	scavenged	Atlas-SNP
PCK2	5106	hgsc.bcm.edu	37	14	24572908	24572908	+	Missense_Mutation	SNP	G	G	A	rs149521304		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	156.0	71.0	146.0	0.0	0.455128	0	G|1.000;A|0.000	0.000	weak	.	PCK2	66	.	NM_004563	exon10	c.G1658A	p.R553Q	ATGCTCGGGTGCT	.	PASS	Atlas-SNP
ITPKA	3706	hgsc.bcm.edu	37	15	41793728	41793728	+	Missense_Mutation	SNP	A	A	G	rs143540732	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	83.0	47.0	70.0	0.0	0.566265	0	A|1.000;G|0.000	0.000	weak	ITPKA,NS,carcinoma,0,1	ITPKA	19	1	NM_002220	exon2	c.A557G	p.Y186C	AGCGCTACGCCTG	.	PASS	Atlas-SNP
UFL1	23376	hgsc.bcm.edu	37	6	96985311	96985311	+	Silent	SNP	T	T	C	rs55792562	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	141.0	76.0	128.0	0.0	0.539007	0	T|0.978;C|0.022	0.022	strong	.	.	.	.	NM_015323	exon9	c.T864C	p.Y288Y	AAGATATAAGACT	.	PASS	Atlas-SNP
NHSL1	57224	hgsc.bcm.edu	37	6	138794490	138794490	+	Missense_Mutation	SNP	G	G	A	rs201780864	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	167.0	79.0	134.0	0.0	0.473054	0	G|0.996;A|0.004	0.004	weak	.	NHSL1	99	.	NM_020464	exon3	c.C436T	p.P146S	AGAATGGGCTGGC	.	PASS	Atlas-SNP
CDK20	23552	hgsc.bcm.edu	37	9	90588970	90588970	+	Missense_Mutation	SNP	C	C	A	rs28364935	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	64.0	32.0	49.0	0.0	0.5	0	C|0.916;A|0.084	0.084	strong	.	CDK20	52	.	NM_178432	exon2	c.G95T	p.C32F	GGCAGACACTGCC	.	PASS	Atlas-SNP
TRIM38	10475	hgsc.bcm.edu	37	6	25966909	25966909	+	Missense_Mutation	SNP	G	G	T	rs41266771	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	78.0	33.0	71.0	0.0	0.423077	0	G|0.995;T|0.005	0.005	strong	.	TRIM38	50	.	NM_006355	exon3	c.G159T	p.R53S	ACTGAGGCAGGAG	.	PASS	Atlas-SNP
MTOR	2475	hgsc.bcm.edu	37	1	11188142	11188142	+	Silent	SNP	C	C	T	rs192740864	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	98.0	48.0	108.0	0.0	0.489796	0	C|1.000;T|0.000	0.000	strong	.	MTOR	327	.	NM_004958	exon43	c.G5952A	p.T1984T	GGCTGTCGTGGTA	.	PASS	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21065652	21065652	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	59.0	26.0	375.0	2.0	0.440678	0.00533333	.	.	none	PI4KA_ENST00000255882,NS,carcinoma,+1,2	PI4KA	313	2	NM_058004	exon51	c.A5900G	p.K1967R	CCCTTCTTGTCCA	.	scavenged	Atlas-SNP
GBP6	163351	hgsc.bcm.edu	37	1	89835209	89835209	+	Missense_Mutation	SNP	G	G	A	rs75966734	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	148.0	59.0	156.0	0.0	0.398649	0	G|0.993;A|0.007	0.007	strong	.	GBP6	87	.	NM_198460	exon3	c.G295A	p.E99K	GACACCGAAGGTC	.	PASS	Atlas-SNP
ZNF414	84330	hgsc.bcm.edu	37	19	8577924	8577924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	83.0	54.0	105.0	0.0	0.650602	0	.	.	none	.	ZNF414	25	.	NM_032370	exon2	c.G305A	p.R102H	GGTGGGCGTCGTC	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167631599	167631599	+	Missense_Mutation	SNP	G	G	A	rs141103827	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	154.0	89.0	154.0	0.0	0.577922	0	G|0.997;A|0.003	0.003	strong	.	.	.	.	NM_001122679	exon19	c.G3770A	p.R1257Q	CCTCTCGAAATGT	.	PASS	Atlas-SNP
CCDC39	339829	hgsc.bcm.edu	37	3	180359790	180359790	+	Missense_Mutation	SNP	T	T	C	rs200277460	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	207.0	95.0	205.0	0.0	0.458937	0	T|0.999;C|0.001	0.001	strong	.	CCDC39	242	.	NM_181426	exon13	c.A1865G	p.E622G	ATGTTTTCCCGTT	.	PASS	Atlas-SNP
ZNF653	115950	hgsc.bcm.edu	37	19	11598224	11598224	+	Missense_Mutation	SNP	C	C	T	rs74552618	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	40.0	15.0	39.0	0.0	0.375	0	C|0.991;T|0.009	0.009	strong	.	ZNF653	48	.	NM_138783	exon4	c.G1054A	p.E352K	CCTCCTCGCCCAG	.	PASS	Atlas-SNP
PARPBP	55010	hgsc.bcm.edu	37	12	102547741	102547741	+	Missense_Mutation	SNP	G	G	A	rs114546604	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	60.0	27.0	55.0	0.0	0.45	0	G|0.976;A|0.024	0.024	strong	.	PARPBP	40	.	NM_017915	exon4	c.G482A	p.R161H	ACAACCGTGATAA	.	PASS	Atlas-SNP
CD3EAP	10849	hgsc.bcm.edu	37	19	45911669	45911669	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	71.0	30.0	54.0	0.0	0.422535	0	.	.	none	.	CD3EAP	27	.	NM_012099	exon3	c.G443A	p.R148Q	GGCCTCGGTTCTG	.	PASS	Atlas-SNP
F12	2161	hgsc.bcm.edu	37	5	176831085	176831085	+	Missense_Mutation	SNP	G	G	A	rs2230939	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	15.0	11.0	5.0	0.0	0.733333	0	T|0.005;G|0.993;A|0.001	0.001	strong	.	F12	35	.	NM_000505	exon10	c.C1025T	p.P342L	TTCGCCGGCAAGG	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19180860	19180860	+	Silent	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	155.0	76.0	170.0	0.0	0.490323	0	.	.	none	.	TAS1R2	134	.	NM_152232	exon3	c.C1104T	p.N368N	GGTGGCGTTCAGG	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	37	15	27725917	27725917	+	Silent	SNP	C	C	T	rs77771286	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	54.0	24.0	45.0	0.0	0.444444	0	C|0.994;T|0.006	0.006	strong	.	GABRG3	115	.	NM_001270873	exon6	c.C696T	p.I232I	AGAAATCGTGACA	.	PASS	Atlas-SNP
NBEAL1	65065	hgsc.bcm.edu	37	2	204058557	204058557	+	Missense_Mutation	SNP	C	C	G	rs114408639	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	45.0	101.0	0.0	0.473684	0	C|0.997;G|0.003	0.003	strong	.	NBEAL1	266	.	NM_001114132	exon46	c.C6874G	p.Q2292E	GCAGTGCAGAAGC	.	PASS	Atlas-SNP
GNB5	10681	hgsc.bcm.edu	37	15	52446260	52446260	+	Silent	SNP	C	C	T	rs35581121	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	51.0	28.0	45.0	0.0	0.54902	0	C|0.973;T|0.027	0.027	strong	.	GNB5	28	.	NM_016194	exon4	c.G252A	p.A84A	CCGCTCCGCCACC	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43531085	43531085	+	Missense_Mutation	SNP	A	A	T	rs139776068	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	193.0	94.0	180.0	0.0	0.487047	0	A|0.992;T|0.008	0.008	strong	.	UMODL1	186	.	NM_173568	exon11	c.A1753T	p.N585Y	CTAGAGAACTTCA	.	PASS	Atlas-SNP
B3GNT6	192134	hgsc.bcm.edu	37	11	76751608	76751608	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	17.0	8.0	11.0	0.0	0.470588	0	.	.	none	.	B3GNT6	27	.	NM_138706	exon5	c.C1010T	p.P337L	GCTTGCCTGGCGC	.	PASS	Atlas-SNP
WDR16	146845	hgsc.bcm.edu	37	17	9511492	9511492	+	Silent	SNP	C	C	T	rs146548028	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	171.0	90.0	134.0	0.0	0.526316	0	C|0.999;T|0.001	0.001	strong	WDR16,NS,carcinoma,0,1	WDR16	67	1	NM_145054	exon7	c.C810T	p.A270A	TGGAGCCGGACTG	.	PASS	Atlas-SNP
RIN1	9610	hgsc.bcm.edu	37	11	66099992	66099992	+	Missense_Mutation	SNP	G	G	A	rs139103405	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	50.0	79.0	0.0	0.471698	0	G|0.999;A|0.001	0.001	strong	.	RIN1	64	.	NM_004292	exon10	c.C2107T	p.R703W	CCGCCCGGCGGTA	.	PASS	Atlas-SNP
NOC2L	26155	hgsc.bcm.edu	37	1	880502	880502	+	Missense_Mutation	SNP	C	C	T	rs74047418	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	101.0	52.0	99.0	0.0	0.514852	0	C|0.998;T|0.002	0.002	strong	.	NOC2L	42	.	NM_015658	exon18	c.G2078A	p.R693Q	CCATGCCGAGTGC	.	PASS	Atlas-SNP
ATE1	11101	hgsc.bcm.edu	37	10	123662023	123662023	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	166.0	77.0	158.0	0.0	0.463855	0	.	.	none	.	ATE1	67	.	NM_001001976	exon6	c.C696A	p.F232L	AGCCTGGAAACCC	.	PASS	Atlas-SNP
MYO1H	283446	hgsc.bcm.edu	37	12	109826535	109826535	+	Silent	SNP	G	G	A	rs61742038	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	172.0	85.0	132.0	0.0	0.494186	0	G|0.947;A|0.053	0.053	strong	.	MYO1H	98	.	NM_001101421	exon1	c.G12A	p.A4A	AGGGGCGCTGACT	.	PASS	Atlas-SNP
HPS3	84343	hgsc.bcm.edu	37	3	148858267	148858267	+	Missense_Mutation	SNP	A	A	G	rs199722122	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	133.0	79.0	125.0	0.0	0.593985	0	A|0.999;G|0.001	0.001	weak	.	HPS3	104	.	NM_032383	exon2	c.A694G	p.I232V	AATCGAATAAGAC	.	PASS	Atlas-SNP
NFKB1	4790	hgsc.bcm.edu	37	4	103505961	103505961	+	Silent	SNP	C	C	T	rs4648039	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	134.0	70.0	106.0	0.0	0.522388	0	C|0.983;T|0.017	0.017	strong	.	NFKB1	78	.	NM_003998	exon11	c.C1050T	p.Y350Y	CCTCTACTATCCT	.	PASS	Atlas-SNP
TRIM15	89870	hgsc.bcm.edu	37	6	30131527	30131527	+	Silent	SNP	G	G	T	rs11961941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	105.0	45.0	100.0	0.0	0.428571	0	G|0.964;T|0.036	0.036	strong	.	TRIM15	34	.	NM_033229	exon1	c.G66T	p.P22P	GGGGCCGCTGGAG	.	PASS	Atlas-SNP
ZNF646	9726	hgsc.bcm.edu	37	16	31090269	31090269	+	Missense_Mutation	SNP	C	C	T	rs75586809	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	92.0	38.0	73.0	0.0	0.413043	0	C|0.989;T|0.011	0.011	strong	ZNF646,NS,haematopoietic_neoplasm,0,1	ZNF646	133	1	NM_014699	exon2	c.C2624T	p.A875V	GGGAGGCGACCTC	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	37	9	35708425	35708425	+	Silent	SNP	T	T	C	rs35461988	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	48.0	20.0	61.0	0.0	0.416667	0	T|0.978;C|0.022	0.022	strong	.	TLN1	185	.	NM_006289	exon34	c.A4383G	p.L1461L	CTCCACTAGCCCT	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4452638	4452638	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	35.0	19.0	30.0	0.0	0.542857	0	.	.	none	.	MYBBP1A	69	.	NM_014520	exon10	c.G1419A	p.E473E	CACCTGCTCAGTC	.	PASS	Atlas-SNP
A1CF	29974	hgsc.bcm.edu	37	10	52601702	52601702	+	Silent	SNP	A	A	G	rs141891504	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	77.0	32.0	75.0	0.0	0.415584	0	A|0.999;G|0.001	0.001	strong	.	A1CF	190	.	NM_001198820	exon6	c.T309C	p.N103N	TCCTCTATTGTTG	.	PASS	Atlas-SNP
APBA2	321	hgsc.bcm.edu	37	15	29390715	29390715	+	Missense_Mutation	SNP	C	C	T	rs371370074		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	67.0	27.0	70.0	0.0	0.402985	0	.	.	weak	.	APBA2	132	.	NM_005503	exon8	c.C1274T	p.T425M	CCCAGACGCTGAC	.	PASS	Atlas-SNP
DTNB	1838	hgsc.bcm.edu	37	2	25754393	25754393	+	Missense_Mutation	SNP	T	T	C	rs199811406	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	126.0	63.0	139.0	0.0	0.5	0	.	.	weak	.	DTNB	43	.	NM_021907	exon9	c.A950G	p.H317R	ACAGGATGCGGGG	.	PASS	Atlas-SNP
PAPL	0	hgsc.bcm.edu	37	19	39589191	39589191	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	41.0	25.0	48.0	0.0	0.609756	0	.	.	none	.	.	.	.	NM_001004318	exon3	c.T215A	p.L72H	TGCCCCTCCGCGC	.	PASS	Atlas-SNP
FAM13B	51306	hgsc.bcm.edu	37	5	137354665	137354665	+	Missense_Mutation	SNP	C	C	T	rs79543971	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	153.0	82.0	159.0	0.0	0.535948	0	C|0.999;T|0.001	0.001	strong	.	FAM13B	46	.	NM_001101800	exon3	c.G136A	p.V46M	AGTCCACAACGTG	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113395826	113395826	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	200.0	102.0	173.0	0.0	0.51	0	.	.	none	.	CSMD3	2325	.	NM_198123	exon37	c.A6001G	p.N2001D	CATTGTTGTCTCC	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	37	9	5065003	5065003	+	Missense_Mutation	SNP	C	C	G	rs2230723	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	73.0	26.0	63.0	0.0	0.356164	0	C|0.986;G|0.014	0.014	strong	.	JAK2	35466	.	NM_004972	exon9	c.C1177G	p.L393V	GCCGTGCTTGAAA	.	PASS	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	37	11	117309603	117309603	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	39.0	21.0	68.0	0.0	0.538462	0	.	.	none	.	DSCAML1	286	.	NM_020693	exon24	c.G4421A	p.R1474Q	TCACCTCGGATGG	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8203392	8203392	+	Missense_Mutation	SNP	G	G	C	rs61729623	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	79.0	37.0	99.0	0.0	0.468354	0	G|0.983;C|0.017	0.017	strong	.	FBN3	300	.	NM_032447	exon8	c.C922G	p.L308V	CGGCGAGGTCTCC	.	PASS	Atlas-SNP
ATF7IP	55729	hgsc.bcm.edu	37	12	14577524	14577524	+	Silent	SNP	C	C	T	rs146972131		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	280.0	135.0	270.0	1.0	0.482143	0.0037037	C|1.000;T|0.000	0.000	weak	.	ATF7IP	136	.	NM_018179	exon2	c.C675T	p.A225A	TTGTGCCGCTGAT	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371502	240371502	+	Silent	SNP	C	C	T	rs200984130		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	6.0	71.0	0.0	0.0731707	0	C|0.999;T|0.001	0.001	weak	.	FMN2	451	.	NM_020066	exon5	c.C3390T	p.P1130P	CATACCCCCTCCT	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364493	5364493	+	Missense_Mutation	SNP	T	T	C	rs57900141	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	64.0	30.0	42.0	0.0	0.46875	0	T|0.879;C|0.121	0.121	strong	.	OR51B5	60	.	NM_001005567	exon5	c.A262G	p.R88G	TCTCCCTGTGATC	.	PASS	Atlas-SNP
DENND4A	10260	hgsc.bcm.edu	37	15	65957717	65957717	+	Silent	SNP	C	C	G	rs61751113	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	123.0	69.0	121.0	0.0	0.560976	0	C|0.991;G|0.009	0.009	strong	.	DENND4A	217	.	NM_001144823	exon30	c.G5322C	p.P1774P	CTGTCCCGGATCC	.	PASS	Atlas-SNP
COL13A1	1305	hgsc.bcm.edu	37	10	71640267	71640267	+	Silent	SNP	C	C	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	137.0	63.0	115.0	0.0	0.459854	0	.	.	none	COL13A1_ENST00000398978,NS,carcinoma,0,1	COL13A1	133	1	NM_080802	exon6	c.C444A	p.P148P	GTCCCCCGGAGAC	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1268596	1268596	+	Silent	SNP	C	C	T	rs372529098		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	103.0	45.0	97.0	0.0	0.436893	0	.	.	weak	.	CACNA1H	317	.	NM_021098	exon33	c.C5832T	p.H1944H	GCCCCACCCCCGC	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29543699	29543699	+	Silent	SNP	G	G	A	rs56165377	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	149.0	85.0	136.0	0.0	0.57047	0	G|0.995;A|0.005	0.005	strong	.	ALK	533	.	NM_004304	exon7	c.C1464T	p.G488G	GGTCCAGCCACAG	.	PASS	Atlas-SNP
GABBR2	9568	hgsc.bcm.edu	37	9	101151234	101151234	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	273.0	118.0	284.0	1.0	0.432234	0.00352113	.	.	none	.	GABBR2	126	.	NM_005458	exon10	c.C1431G	p.I477M	TAGGGAGATCTTC	.	PASS	Atlas-SNP
CNGB1	1258	hgsc.bcm.edu	37	16	58001086	58001086	+	Silent	SNP	C	C	T	rs61997250	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	92.0	44.0	93.0	0.0	0.478261	0	C|0.981;T|0.019	0.019	strong	.	CNGB1	105	.	NM_001297	exon2	c.G105A	p.A35A	CACCTCCGCCTCC	.	PASS	Atlas-SNP
ZHX2	22882	hgsc.bcm.edu	37	8	123965193	123965193	+	Silent	SNP	C	C	T	rs111726812	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	70.0	32.0	70.0	1.0	0.457143	0.0142857	C|0.965;T|0.035	0.035	strong	ZHX2,caecum,carcinoma,0,1	ZHX2	106	1	NM_014943	exon3	c.C1443T	p.S481S	CAGGAGCGAGATC	.	scavenged	Atlas-SNP
TEAD3	7005	hgsc.bcm.edu	37	6	35446225	35446225	+	Missense_Mutation	SNP	A	A	G	rs144697750	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	76.0	34.0	60.0	0.0	0.447368	0	A|0.995;G|0.005	0.005	strong	.	TEAD3	52	.	NM_003214	exon6	c.T466C	p.S156P	AAGTGGAGAAGAC	.	PASS	Atlas-SNP
GALR2	8811	hgsc.bcm.edu	37	17	74072923	74072923	+	Missense_Mutation	SNP	T	T	G	rs369779116		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	65.0	29.0	50.0	0.0	0.446154	0	.	.	weak	.	GALR2	17	.	NM_003857	exon2	c.T575G	p.F192C	GCACCTTCGTCTT	.	PASS	Atlas-SNP
SEC16A	9919	hgsc.bcm.edu	37	9	139347953	139347953	+	Missense_Mutation	SNP	G	G	A	rs202042941	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	28.0	9.0	29.0	0.0	0.321429	0	.	.	weak	.	SEC16A	249	.	NM_014866	exon22	c.C6086T	p.P2029L	TCCTGCGGCACTA	.	PASS	Atlas-SNP
CECR5	27440	hgsc.bcm.edu	37	22	17618937	17618937	+	Missense_Mutation	SNP	G	G	A	rs35327402	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	64.0	103.0	0.0	0.566372	0	G|0.996;A|0.004	0.004	strong	.	CECR5	46	.	NM_033070	exon8	c.C1246T	p.R416C	CCTTGCGGAAGAC	.	PASS	Atlas-SNP
FAM129C	199786	hgsc.bcm.edu	37	19	17638144	17638144	+	Missense_Mutation	SNP	A	A	C	rs200304763	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	208.0	89.0	194.0	0.0	0.427885	0	A|0.998;C|0.002	0.002	strong	.	FAM129C	110	.	NM_001098524	exon2	c.A88C	p.S30R	GACGACAGCAGCA	.	PASS	Atlas-SNP
MTMR8	55613	hgsc.bcm.edu	37	X	63488670	63488670	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	75.0	75.0	71.0	0.0	1	0	.	.	none	.	MTMR8	178	.	NM_017677	exon14	c.C1862A	p.A621D	TTTATGGCCCTAA	.	PASS	Atlas-SNP
GNAQ	2776	hgsc.bcm.edu	37	9	80537112	80537112	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	152.0	9.0	148.0	0.0	0.0592105	0	.	.	none	GNAQ,NS,carcinoma,0,2	GNAQ	384	2	NM_002072	exon2	c.A286T	p.T96S	TGAGTGTGTCCAT	.	scavenged	Atlas-SNP
DECR2	26063	hgsc.bcm.edu	37	16	460976	460976	+	Silent	SNP	G	G	A	rs140561403	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	105.0	55.0	91.0	0.0	0.52381	0	G|0.988;A|0.012	0.012	strong	DECR2,NS,carcinoma,+1,1	DECR2	47	1	NM_020664	exon7	c.G561A	p.A187A	AGACGCGATGACG	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69934012	69934012	+	Silent	SNP	C	C	A	rs71584491	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	175.0	88.0	150.0	0.0	0.502857	0	C|0.956;A|0.044	0.044	strong	.	MYPN	189	.	NM_032578	exon11	c.C2163A	p.A721A	CTTGGCCCGGCCG	.	PASS	Atlas-SNP
KIAA1033	23325	hgsc.bcm.edu	37	12	105550565	105550565	+	Silent	SNP	C	C	T	rs35149056	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	96.0	39.0	102.0	0.0	0.40625	0	C|0.946;T|0.054	0.054	strong	.	KIAA1033	83	.	NM_015275	exon27	c.C2820T	p.A940A	CAATGCCATTAGG	.	PASS	Atlas-SNP
BCAS4	55653	hgsc.bcm.edu	37	20	49411689	49411689	+	Silent	SNP	G	G	T	rs117388674	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	22.0	12.0	16.0	0.0	0.545455	0	G|0.963;T|0.037	0.037	strong	.	BCAS4	41	.	NM_198799	exon1	c.G159T	p.L53L	CTTCCTGACCCCC	.	PASS	Atlas-SNP
OR9G9	504191	hgsc.bcm.edu	37	11	56468258	56468258	+	Missense_Mutation	SNP	C	C	T	rs78340277	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	305.0	72.0	315.0	0.0	0.236066	0	C|0.987;T|0.013	0.013	strong	.	.	.	.	NM_001013358	exon1	c.C395T	p.A132V	TTTATGCCCAGGC	.	PASS	Atlas-SNP
NARG2	79664	hgsc.bcm.edu	37	15	60747576	60747576	+	Silent	SNP	G	G	A	rs61753854	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	122.0	59.0	113.0	0.0	0.483607	0	G|0.998;A|0.002	0.002	strong	NARG2,NS,carcinoma,0,1	NARG2	82	1	NM_024611	exon7	c.C732T	p.D244D	TATATCGTCCTTT	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47847547	47847547	+	Silent	SNP	C	C	T	rs150882711	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	48.0	20.0	71.0	0.0	0.416667	0	C|0.999;T|0.001	0.001	strong	.	PCNT	283	.	NM_006031	exon34	c.C7332T	p.T2444T	GCCCACCGCGTGC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187518874	187518874	+	Silent	SNP	G	G	A	rs116628547	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	147.0	81.0	158.0	0.0	0.55102	0	G|0.995;A|0.005	0.005	strong	.	FAT1	500	.	NM_005245	exon24	c.C12330T	p.G4110G	AACGGCGCCATCC	.	PASS	Atlas-SNP
SRRM1	10250	hgsc.bcm.edu	37	1	24995933	24995933	+	Missense_Mutation	SNP	C	C	T	rs149689871	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	120.0	55.0	115.0	0.0	0.458333	0	C|1.000;T|0.000	0.000	weak	.	SRRM1	81	.	NM_005839	exon14	c.C2059T	p.R687W	TCACCACGGCCTC	.	PASS	Atlas-SNP
HERC5	51191	hgsc.bcm.edu	37	4	89380540	89380540	+	Missense_Mutation	SNP	A	A	G	rs75070724	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	490.0	258.0	483.0	0.0	0.526531	0	A|0.998;G|0.002	0.002	strong	.	HERC5	114	.	NM_016323	exon2	c.A308G	p.D103G	CCGTGGACCAAGG	.	PASS	Atlas-SNP
SEC14L5	9717	hgsc.bcm.edu	37	16	5046919	5046919	+	Missense_Mutation	SNP	C	C	T	rs199609540	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	137.0	65.0	161.0	1.0	0.474453	0.00621118	C|0.996;T|0.004	0.004	strong	SEC14L5,NS,lymphoid_neoplasm,0,1	SEC14L5	79	1	NM_014692	exon8	c.C844T	p.R282W	AAGGCCCGGGAAA	.	scavenged	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228537608	228537608	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	59.0	78.0	0.0	0.556604	0	.	.	none	.	OBSCN	2142	.	NM_001271223	exon87	c.G21037A	p.V7013M	GTGCAGGTGGACC	.	PASS	Atlas-SNP
FAM90A1	55138	hgsc.bcm.edu	37	12	8377415	8377415	+	Missense_Mutation	SNP	C	C	T	rs200454993		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	41.0	7.0	20.0	0.0	0.170732	0	.	.	weak	FAM90A1,NS,carcinoma,0,2	FAM90A1	68	2	NM_018088	exon4	c.G14A	p.R5H	GGGTCACGACGTG	.	scavenged	Atlas-SNP
SSTR4	6754	hgsc.bcm.edu	37	20	23016819	23016819	+	Silent	SNP	C	C	T	rs141700474	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	59.0	24.0	40.0	0.0	0.40678	0	C|0.993;T|0.007	0.007	strong	.	SSTR4	83	.	NM_001052	exon1	c.C699T	p.L233L	CCTGCTCATCGTG	.	PASS	Atlas-SNP
PTCH2	8643	hgsc.bcm.edu	37	1	45292926	45292926	+	Silent	SNP	C	C	G	rs111471526	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	92.0	37.0	87.0	0.0	0.402174	0	C|0.988;G|0.012	0.012	strong	.	PTCH2	96	.	NM_001166292	exon16	c.G2427C	p.S809S	GCGGTACGAGTGG	.	PASS	Atlas-SNP
FAM214A	56204	hgsc.bcm.edu	37	15	52905882	52905882	+	Silent	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	97.0	32.0	74.0	0.0	0.329897	0	.	.	none	.	.	.	.	NM_019600	exon3	c.C189T	p.D63D	CAGCTTGTCACTA	.	PASS	Atlas-SNP
OR10A6	390093	hgsc.bcm.edu	37	11	7949707	7949707	+	Missense_Mutation	SNP	A	A	G	rs111488559	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	136.0	63.0	160.0	0.0	0.463235	0	A|0.976;G|0.024	0.024	strong	.	OR10A6	49	.	NM_001004461	exon1	c.T503C	p.F168S	CCACAAAAGGGAA	.	PASS	Atlas-SNP
ERCC1	2067	hgsc.bcm.edu	37	19	45922389	45922389	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	47.0	27.0	52.0	0.0	0.574468	0	.	.	none	.	ERCC1	46	.	NM_001983	exon5	c.C492G	p.F164L	CAAGGCGAAGTTC	.	PASS	Atlas-SNP
OSBPL7	114881	hgsc.bcm.edu	37	17	45886796	45886796	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	86.0	39.0	76.0	0.0	0.453488	0	.	.	none	.	OSBPL7	65	.	NM_145798	exon19	c.T1929G	p.N643K	CAGGACATTGTGA	.	PASS	Atlas-SNP
RERG	85004	hgsc.bcm.edu	37	12	15262273	15262273	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	219.0	99.0	236.0	0.0	0.452055	0	.	.	none	.	RERG	30	.	NM_032918	exon5	c.A371T	p.H124L	CTGGAGTGGTCCA	.	PASS	Atlas-SNP
CHD7	55636	hgsc.bcm.edu	37	8	61767070	61767070	+	Silent	SNP	G	G	A	rs61733338	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	90.0	37.0	76.0	0.0	0.411111	0	G|0.997;A|0.003	0.003	strong	CHD7_ENST00000423902,NS,carcinoma,0,2	CHD7	534	2	NM_017780	exon32	c.G6924A	p.S2308S	CTTCTCGTTTTGG	.	PASS	Atlas-SNP
PDE6B	5158	hgsc.bcm.edu	37	4	663878	663878	+	Silent	SNP	A	A	G	rs137864502		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	111.0	60.0	150.0	0.0	0.540541	0	A|1.000;G|0.000	0.000	weak	.	PDE6B	80	.	NM_000283	exon22	c.A2547G	p.S849S	GTCTTCAACCTGC	.	PASS	Atlas-SNP
HIST1H1B	3009	hgsc.bcm.edu	37	6	27834877	27834877	+	Missense_Mutation	SNP	T	T	C	rs11970638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	111.0	48.0	106.0	0.0	0.432432	0	T|0.968;C|0.032	0.032	strong	.	HIST1H1B	54	.	NM_005322	exon1	c.A431G	p.K144R	GCAGCCTTCTTGG	.	PASS	Atlas-SNP
POLR1E	64425	hgsc.bcm.edu	37	9	37501752	37501752	+	Silent	SNP	T	T	C	rs17412622	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	63.0	132.0	0.0	0.552632	0	T|0.952;C|0.048	0.048	strong	.	POLR1E	28	.	NM_022490	exon11	c.T1011C	p.T337T	GATTACTGCATAT	.	PASS	Atlas-SNP
ARHGAP11B	89839	hgsc.bcm.edu	37	15	30927750	30927750	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	252.0	97.0	250.0	0.0	0.384921	0	.	.	none	ARHGAP11B,colon,carcinoma,-2,1	ARHGAP11B	14	1	NM_001039841	exon6	c.G721A	p.V241M	GTCTCTGTGCTAC	.	PASS	Atlas-SNP
SMIM11	54065	hgsc.bcm.edu	37	21	35757915	35757915	+	Missense_Mutation	SNP	A	A	G	rs34016792	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	45.0	112.0	0.0	0.473684	0	A|0.979;G|0.021	0.021	strong	.	.	.	.	NM_058182	exon3	c.A152G	p.K51R	GGAAGAAGCAATC	.	PASS	Atlas-SNP
DOK2	9046	hgsc.bcm.edu	37	8	21767042	21767042	+	Missense_Mutation	SNP	C	C	T	rs372534431		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	94.0	40.0	100.0	0.0	0.425532	0	.	.	weak	.	DOK2	51	.	NM_003974	exon5	c.G1019A	p.R340Q	TCAGGTCGAGGGG	.	PASS	Atlas-SNP
ST6GALNAC6	30815	hgsc.bcm.edu	37	9	130656800	130656800	+	Silent	SNP	G	G	A	rs11552227	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	40.0	18.0	34.0	0.0	0.45	0	G|0.999;A|0.001	0.001	strong	.	ST6GALNAC6	36	.	NM_013443	exon4	c.C288T	p.L96L	GTTGCCGAGAATG	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33567971	33567971	+	Missense_Mutation	SNP	C	C	T	rs61751742	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	102.0	45.0	105.0	0.0	0.441176	0	C|0.991;T|0.009	0.009	strong	LTBP1_ENST00000407925,NS,carcinoma,-1,2	LTBP1	317	2	NM_206943	exon25	c.C3797T	p.S1266F	CTGGCTCCTTCCG	.	PASS	Atlas-SNP
GATA2	2624	hgsc.bcm.edu	37	3	128204960	128204960	+	Missense_Mutation	SNP	G	G	C	rs34799090	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	129.0	76.0	105.0	0.0	0.589147	0	G|0.992;C|0.008	0.008	strong	.	GATA2	122	.	NM_001145662	exon3	c.C481G	p.P161A	CTGTAGGGGTGAG	.	PASS	Atlas-SNP
MYO16	23026	hgsc.bcm.edu	37	13	109793246	109793246	+	Silent	SNP	G	G	C	rs80260507	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	31.0	14.0	33.0	0.0	0.451613	0	G|0.933;C|0.067	0.067	strong	MYO16,NS,carcinoma,0,2	MYO16	285	2	NM_001198950	exon32	c.G4686C	p.P1562P	GTCCCCGCAGTAC	.	PASS	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978434	58978434	+	Silent	SNP	C	C	A	rs180770562	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	133.0	59.0	113.0	0.0	0.443609	0	C|0.996;A|0.004	0.004	strong	.	MPEG1	72	.	NM_001039396	exon1	c.G1905T	p.P635P	CTCTATCGGTTCT	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57594552	57594552	+	Silent	SNP	C	C	T	rs139916336	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	183.0	90.0	165.0	0.0	0.491803	0	C|0.995;T|0.005	0.005	strong	.	LRP1	428	.	NM_002332	exon64	c.C10179T	p.C3393C	CATCTGCGATGGC	.	PASS	Atlas-SNP
PLOD1	5351	hgsc.bcm.edu	37	1	12012748	12012748	+	Missense_Mutation	SNP	G	G	C	rs188165334	bycluster;by1000genomes;alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	96.0	42.0	105.0	0.0	0.4375	0	G|1.000;T|0.000	.	alt	PLOD1_ENST00000429000,colon,carcinoma,0,2	PLOD1	75	2	NM_000302	exon5	c.G535C	p.D179H	GACAGCGATCAGC	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791526	110791526	+	Missense_Mutation	SNP	A	A	G	rs35997283	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	142.0	71.0	122.0	0.0	0.5	0	A|0.996;G|0.004	0.004	strong	.	LRIT3	107	.	NM_198506	exon4	c.A1621G	p.I541V	GTAACCATAGATG	.	PASS	Atlas-SNP
FIBCD1	84929	hgsc.bcm.edu	37	9	133779563	133779563	+	Missense_Mutation	SNP	C	C	T	rs138892175		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	117.0	61.0	96.0	0.0	0.521368	0	C|1.000;T|0.000	0.000	weak	FIBCD1,NS,carcinoma,+1,2	FIBCD1	34	2	NM_001145106	exon8	c.G1274A	p.R425H	GCACCGCGCAGGT	.	PASS	Atlas-SNP
DCSTAMP	81501	hgsc.bcm.edu	37	8	105361803	105361803	+	Silent	SNP	C	C	T	rs117086639	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	45.0	84.0	0.0	0.5625	0	C|0.989;T|0.011	0.011	strong	.	.	.	.	NM_030788	exon2	c.C1023T	p.H341H	ACTGCACGGAGAG	.	PASS	Atlas-SNP
CSF1R	1436	hgsc.bcm.edu	37	5	149460553	149460553	+	Silent	SNP	A	A	G	rs216123	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	159.0	158.0	168.0	0.0	0.993711	0	A|0.588;G|0.411	0.411	strong	.	CSF1R	250	.	NM_005211	exon3	c.T84C	p.P28P	CAGCTCAGGGACA	.	PASS	Atlas-SNP
KCTD17	79734	hgsc.bcm.edu	37	22	37458571	37458571	+	Silent	SNP	C	C	T	rs142739650	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	44.0	71.0	0.0	0.55	0	C|0.999;T|0.001	0.001	strong	.	KCTD17	17	.	NM_024681	exon8	c.C831T	p.Y277Y	CTGTTACAAGCCA	.	PASS	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	37	6	33419593	33419593	+	Silent	SNP	G	G	A	rs372190836		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	83.0	46.0	54.0	1.0	0.554217	0.0185185	.	.	weak	SYNGAP1,caecum,carcinoma,0,1	SYNGAP1	202	1	NM_006772	exon19	c.G3942A	p.P1314P	CCCACCGTGGAAT	.	scavenged	Atlas-SNP
TNFAIP2	7127	hgsc.bcm.edu	37	14	103601637	103601637	+	Silent	SNP	C	C	T	rs2234147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	70.0	34.0	93.0	0.0	0.485714	0	C|0.993;T|0.007	0.007	strong	.	TNFAIP2	53	.	NM_006291	exon11	c.C1905T	p.D635D	CTTGGACGTCAGC	.	PASS	Atlas-SNP
DYM	54808	hgsc.bcm.edu	37	18	46623854	46623854	+	Missense_Mutation	SNP	T	T	C	rs146000214	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	92.0	38.0	72.0	0.0	0.413043	0	T|0.999;C|0.001	0.001	strong	.	DYM	52	.	NM_017653	exon16	c.A1778G	p.Q593R	CCAGCTTGCAGCA	.	PASS	Atlas-SNP
SMIM11	54065	hgsc.bcm.edu	37	21	35757787	35757787	+	Silent	SNP	C	C	T	rs61747964	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	263.0	135.0	241.0	0.0	0.513308	0	C|0.971;T|0.029	0.029	strong	.	.	.	.	NM_058182	exon3	c.C24T	p.H8H	TGAGCACGTGCCC	.	PASS	Atlas-SNP
ALG6	29929	hgsc.bcm.edu	37	1	63881583	63881583	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	294.0	138.0	285.0	0.0	0.469388	0	.	.	none	.	ALG6	33	.	NM_013339	exon11	c.A942G	p.I314M	ATGCATAAAATTA	.	PASS	Atlas-SNP
CDC25C	995	hgsc.bcm.edu	37	5	137654980	137654980	+	Silent	SNP	G	G	A	rs111911741	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	155.0	67.0	131.0	0.0	0.432258	0	G|0.999;A|0.001	0.001	strong	.	CDC25C	37	.	NM_001790	exon7	c.C543T	p.N181N	TCCTAGGTTTGGA	.	PASS	Atlas-SNP
CHML	1122	hgsc.bcm.edu	37	1	241797791	241797791	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	52.0	23.0	55.0	0.0	0.442308	0	.	.	none	.	CHML	82	.	NM_001821	exon1	c.T1278C	p.G426G	TCTTTGACCAAAG	.	PASS	Atlas-SNP
TBL3	10607	hgsc.bcm.edu	37	16	2028220	2028220	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	108.0	50.0	90.0	0.0	0.462963	0	.	.	none	.	TBL3	54	.	NM_006453	exon20	c.A2133G	p.K711K	CCAGAAAGGTTGG	.	PASS	Atlas-SNP
PTGIR	5739	hgsc.bcm.edu	37	19	47126807	47126807	+	Missense_Mutation	SNP	G	G	T	rs138619017	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	65.0	27.0	51.0	0.0	0.415385	0	G|0.999;T|0.001	0.001	strong	.	PTGIR	31	.	NM_000960	exon2	c.C676A	p.P226T	GCCGTGGACCCAG	.	PASS	Atlas-SNP
ATP5SL	55101	hgsc.bcm.edu	37	19	41944270	41944270	+	Missense_Mutation	SNP	T	T	C	rs2231939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	109.0	51.0	96.0	0.0	0.46789	0	T|0.996;C|0.004	0.004	strong	.	ATP5SL	20	.	NM_001167867	exon2	c.A86G	p.H29R	AGGCGATGGATGC	.	PASS	Atlas-SNP
ANKRD26	22852	hgsc.bcm.edu	37	10	27322306	27322306	+	Missense_Mutation	SNP	C	C	T	rs146819984	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	88.0	53.0	65.0	0.0	0.602273	0	C|0.991;T|0.009	0.009	strong	.	ANKRD26	179	.	NM_014915	exon25	c.G3655A	p.V1219I	CAACAACCTGATA	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48151202	48151202	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	123.0	59.0	84.0	0.0	0.479675	0	.	.	none	.	ABCC12	190	.	NM_033226	exon12	c.G1755A	p.L585L	GTTGCTCAGGTCC	.	PASS	Atlas-SNP
DBNDD1	79007	hgsc.bcm.edu	37	16	90076445	90076445	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	156.0	71.0	152.0	0.0	0.455128	0	.	.	none	.	DBNDD1	9	.	NM_024043	exon1	c.C11T	p.T4I	TTCCAGGTTTCTC	.	PASS	Atlas-SNP
BAIAP2L2	80115	hgsc.bcm.edu	37	22	38483174	38483174	+	Missense_Mutation	SNP	A	A	T	rs78489217	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	79.0	58.0	76.0	0.0	0.734177	0	A|0.886;T|0.114	0.114	strong	.	BAIAP2L2	39	.	NM_025045	exon11	c.T1216A	p.S406T	TGGGGGACATGGA	.	PASS	Atlas-SNP
HYOU1	10525	hgsc.bcm.edu	37	11	118925935	118925935	+	Silent	SNP	G	G	A	rs511134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	63.0	126.0	0.0	0.520661	0	G|0.962;A|0.038	0.038	strong	.	HYOU1	88	.	NM_006389	exon5	c.C381T	p.F127F	TGGGTCGAAAGTC	.	PASS	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55972946	55972946	+	Missense_Mutation	SNP	A	A	G	rs34231037	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	224.0	100.0	210.0	0.0	0.446429	0	A|0.980;G|0.020	0.020	strong	KDR,middle_lobe,carcinoma,+2,1	KDR	307	1	NM_002253	exon11	c.T1444C	p.C482R	CTTCACAAGGGTA	.	PASS	Atlas-SNP
CHD6	84181	hgsc.bcm.edu	37	20	40049450	40049450	+	Missense_Mutation	SNP	T	T	A	rs140143834	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	263.0	136.0	244.0	0.0	0.51711	0	T|0.995;A|0.005	0.005	strong	.	CHD6	312	.	NM_032221	exon31	c.A5825T	p.H1942L	TCCATGTGTTTGC	.	PASS	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3752601	3752601	+	Missense_Mutation	SNP	G	G	A	rs147130540	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	12.0	9.0	3.0	0.0	0.75	0	G|0.987;A|0.013	0.013	strong	.	APBA3	28	.	NM_004886	exon8	c.C1300T	p.R434C	CCGAGCGCTCAGC	.	PASS	Atlas-SNP
COL22A1	169044	hgsc.bcm.edu	37	8	139712355	139712355	+	Silent	SNP	G	G	A	rs77613350	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	56.0	26.0	52.0	0.0	0.464286	0	G|0.967;A|0.033	0.033	strong	.	COL22A1	390	.	NM_152888	exon32	c.C2592T	p.P864P	ACTTACGGGCATC	.	PASS	Atlas-SNP
PCSK4	54760	hgsc.bcm.edu	37	19	1487059	1487059	+	Silent	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	21.0	15.0	17.0	0.0	0.714286	0	.	.	none	.	PCSK4	44	.	NM_017573	exon8	c.C861A	p.R287R	CCCGCCGCGGCCC	.	PASS	Atlas-SNP
OR51I2	390064	hgsc.bcm.edu	37	11	5475505	5475505	+	Missense_Mutation	SNP	C	C	T	rs75620804	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	229.0	113.0	207.0	0.0	0.49345	0	C|0.983;T|0.017	0.017	strong	.	OR51I2	76	.	NM_001004754	exon1	c.C787T	p.R263C	GTGCACCGCTTTG	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18719972	18719972	+	Missense_Mutation	SNP	T	T	G	rs12099555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	117.0	55.0	124.0	0.0	0.470085	0	T|0.912;G|0.088	0.088	strong	.	PIK3C2G	315	.	NM_004570	exon28	c.T3869G	p.V1290G	TAAATGTATCACA	.	PASS	Atlas-SNP
APITD1-CORT	100526739	hgsc.bcm.edu	37	1	10511534	10511534	+	Missense_Mutation	SNP	G	G	T	rs201163116		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	191.0	82.0	175.0	0.0	0.429319	0	G|0.999;T|0.001	0.001	weak	.	.	.	.	NM_198544	exon5	c.G377T	p.G126V	TCATAGGAGAGGA	.	PASS	Atlas-SNP
ZNF222	7673	hgsc.bcm.edu	37	19	44536397	44536397	+	Silent	SNP	T	T	C	rs151037918	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	124.0	62.0	143.0	0.0	0.5	0	T|0.996;C|0.004	0.004	strong	.	ZNF222	90	.	NM_001129996	exon4	c.T690C	p.T230T	GCAAACTCATCAA	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36869741	36869741	+	Silent	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	185.0	89.0	162.0	1.0	0.481081	0.00617284	.	.	none	KIAA1755,NS,malignant_melanoma,-2,2	KIAA1755	145	2	NM_001029864	exon3	c.C792T	p.D264D	CACCTCGTCCATC	.	scavenged	Atlas-SNP
PCDHGA7	56108	hgsc.bcm.edu	37	5	140763339	140763339	+	Missense_Mutation	SNP	G	G	A	rs187406135	by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	103.0	41.0	104.0	0.0	0.398058	0	G|1.000;A|0.000	0.000	strong	.	PCDHGA7	130	.	NM_032087	exon1	c.G873A	p.M291I	AAAGATGTTTCAT	.	PASS	Atlas-SNP
DHX33	56919	hgsc.bcm.edu	37	17	5347788	5347788	+	Missense_Mutation	SNP	G	G	A	rs75426953	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	65.0	97.0	0.0	0.52	0	A|0.014;C|0.000;G|0.986	0.014	strong	DHX33,NS,carcinoma,0,1	DHX33	41	1	NM_020162	exon12	c.C1861T	p.R621C	AGCGGCGGACACT	.	PASS	Atlas-SNP
PSKH2	85481	hgsc.bcm.edu	37	8	87060927	87060927	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	127.0	61.0	131.0	0.0	0.480315	0	.	.	none	PSKH2,caecum,carcinoma,+1,2	PSKH2	79	2	NM_033126	exon3	c.C922T	p.R308C	ACATGCGATGACC	.	PASS	Atlas-SNP
CTAGE5	4253	hgsc.bcm.edu	37	14	39818076	39818076	+	Missense_Mutation	SNP	A	A	G	rs61742363	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	169.0	98.0	197.0	0.0	0.579882	0	A|0.988;G|0.012	0.012	strong	.	CTAGE5	75	.	NM_001247989	exon23	c.A2158G	p.R720G	TTGAGAAGAGGAC	.	PASS	Atlas-SNP
TMEM99	147184	hgsc.bcm.edu	37	17	38991100	38991100	+	Missense_Mutation	SNP	A	A	G	rs199620244	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	170.0	76.0	140.0	0.0	0.447059	0	.	.	weak	.	TMEM99	21	.	NM_001195386	exon3	c.A332G	p.N111S	TCAACAACTGGAC	.	PASS	Atlas-SNP
ATP8A1	10396	hgsc.bcm.edu	37	4	42576646	42576646	+	Missense_Mutation	SNP	C	C	T	rs61755862	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	218.0	110.0	198.0	0.0	0.504587	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
PMM2	5373	hgsc.bcm.edu	37	16	8906914	8906914	+	Missense_Mutation	SNP	A	A	C	rs34258285	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	131.0	56.0	122.0	0.0	0.427481	0	A|0.984;C|0.016	0.016	strong	.	PMM2	25	.	NM_000303	exon7	c.A590C	p.E197A	ATGTGGAAAATGA	.	PASS	Atlas-SNP
MAP4K3	8491	hgsc.bcm.edu	37	2	39494378	39494378	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	71.0	3.0	53.0	0.0	0.0422535	0	.	.	none	MAP4K3,right_lower_lobe,carcinoma,0,1	MAP4K3	109	1	NM_003618	exon27	c.G1984A	p.V662I	CTGATACAGAAAA	.	scavenged	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169526019	169526019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	208.0	95.0	196.0	0.0	0.456731	0	.	.	none	F5,colon,carcinoma,0,1	F5	301	1	NM_000130	exon6	c.G817A	p.G273S	CCTGGCCGTTGAA	.	PASS	Atlas-SNP
ZSWIM4	65249	hgsc.bcm.edu	37	19	13919757	13919757	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	77.0	4.0	96.0	0.0	0.0519481	0	.	.	none	.	ZSWIM4	69	.	NM_023072	exon4	c.T820C	p.Y274H	GGCGGCTACTACG	.	PASS	Atlas-SNP
SPZ1	84654	hgsc.bcm.edu	37	5	79617039	79617039	+	Silent	SNP	A	A	G	rs374023153		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	145.0	70.0	136.0	0.0	0.482759	0	.	.	weak	.	SPZ1	60	.	NM_032567	exon1	c.A1005G	p.V335V	GAGAGTAGAGATT	.	PASS	Atlas-SNP
FGG	2266	hgsc.bcm.edu	37	4	155533035	155533035	+	Missense_Mutation	SNP	G	G	C	rs148685782	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	72.0	27.0	89.0	0.0	0.375	0	G|0.998;C|0.002	0.002	strong	.	FGG	71	.	NM_000509	exon4	c.C323G	p.A108G	AAAGTAGCAGCGT	.	PASS	Atlas-SNP
SETMAR	6419	hgsc.bcm.edu	37	3	4358476	4358476	+	Missense_Mutation	SNP	C	C	T	rs115195721	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	31.0	8.0	37.0	0.0	0.258065	0	C|0.991;T|0.009	0.009	strong	SETMAR,NS,carcinoma,0,1	SETMAR	30	1	NM_006515	exon3	c.C1601T	p.T534I	TGGTCACTATTTG	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6172138	6172138	+	Silent	SNP	G	G	A	rs377198574		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	31.0	18.0	48.0	0.0	0.580645	0	.	.	weak	.	VWF	338	.	NM_000552	exon13	c.C1515T	p.R505R	CCTCCCGCGGCCA	.	PASS	Atlas-SNP
FAM150B	285016	hgsc.bcm.edu	37	2	287646	287646	+	Silent	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	4.0	4.0	4.0	0.0	1	0	.	.	none	.	FAM150B	12	.	NM_001002919	exon2	c.C190A	p.R64R	AGTCCCGCCCGAG	.	PASS	Atlas-SNP
MYO1E	4643	hgsc.bcm.edu	37	15	59517011	59517011	+	Silent	SNP	G	G	A	rs373337685		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	38.0	90.0	0.0	0.463415	0	.	.	weak	.	MYO1E	99	.	NM_004998	exon8	c.C654T	p.G218G	AGAGGCGCCCTCG	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55238087	55238087	+	Silent	SNP	C	C	T	rs10258429	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	189.0	93.0	160.0	0.0	0.492063	0	C|0.889;T|0.111	0.111	strong	.	EGFR	20426	.	NM_201284	exon16	c.C1968T	p.H656H	GTCCCACCAGAGC	.	PASS	Atlas-SNP
IQSEC2	23096	hgsc.bcm.edu	37	X	53263764	53263764	+	Silent	SNP	C	C	T	rs184087864	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	103.0	96.0	80.0	0.0	0.932039	0	C|0.937;T|0.063	0.063	strong	.	IQSEC2	195	.	NM_001111125	exon15	c.G4104A	p.L1368L	CAGGGGCAGTGGG	.	PASS	Atlas-SNP
SLC22A23	63027	hgsc.bcm.edu	37	6	3284097	3284097	+	Silent	SNP	C	C	T	rs142838841	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	44.0	19.0	57.0	0.0	0.431818	0	C|0.997;T|0.003	0.003	strong	.	SLC22A23	89	.	NM_015482	exon9	c.G1692A	p.P564P	CACCGTCGGGGTG	.	PASS	Atlas-SNP
POF1B	79983	hgsc.bcm.edu	37	X	84563194	84563194	+	Missense_Mutation	SNP	C	C	T	rs75398746	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	139.0	139.0	158.0	0.0	1	0	C|0.996;T|0.004	0.004	strong	.	POF1B	77	.	NM_024921	exon10	c.G986A	p.R329Q	ACTAGTCGGAGTG	.	PASS	Atlas-SNP
PAK4	10298	hgsc.bcm.edu	37	19	39663757	39663757	+	Missense_Mutation	SNP	G	G	A	rs56099436	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	10.0	8.0	10.0	0.0	0.8	0	G|0.989;A|0.011	0.011	strong	.	PAK4	40	.	NM_001014832	exon3	c.G404A	p.R135Q	GCAGCCGAGGCCG	.	PASS	Atlas-SNP
ZNF202	7753	hgsc.bcm.edu	37	11	123599897	123599897	+	Silent	SNP	G	G	A	rs11825443	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	58.0	21.0	40.0	0.0	0.362069	0	G|0.965;A|0.035	0.035	strong	.	ZNF202	72	.	NM_003455	exon6	c.C639T	p.D213D	AGGAAGGTCTGGG	.	PASS	Atlas-SNP
LINGO1	84894	hgsc.bcm.edu	37	15	77907658	77907658	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	124.0	62.0	104.0	0.0	0.5	0	.	.	none	.	LINGO1	76	.	NM_032808	exon2	c.G591A	p.T197T	CTCCAGCGTCAGC	.	PASS	Atlas-SNP
POSTN	10631	hgsc.bcm.edu	37	13	38156538	38156538	+	Missense_Mutation	SNP	C	C	T	rs117103342	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	117.0	56.0	92.0	0.0	0.478632	0	C|0.994;T|0.006	0.006	strong	.	POSTN	161	.	NM_006475	exon10	c.G1357A	p.G453R	TGCCTCCGATGGT	.	PASS	Atlas-SNP
ZNF780B	163131	hgsc.bcm.edu	37	19	40540812	40540812	+	Missense_Mutation	SNP	G	G	A	rs115484124	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	118.0	54.0	113.0	0.0	0.457627	0	G|0.979;A|0.021	0.021	strong	ZNF780B_ENST00000434248,NS,carcinoma,+1,2	ZNF780B	143	2	NM_001005851	exon5	c.C1954T	p.R652C	AGACACGATTAAA	.	PASS	Atlas-SNP
PCTP	58488	hgsc.bcm.edu	37	17	53844742	53844742	+	Missense_Mutation	SNP	G	G	A	rs112454522	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	97.0	51.0	112.0	0.0	0.525773	0	G|0.993;A|0.007	0.007	strong	.	PCTP	17	.	NM_021213	exon2	c.G188A	p.C63Y	AGGACTGCTCACC	.	PASS	Atlas-SNP
ZNF287	57336	hgsc.bcm.edu	37	17	16469879	16469879	+	Missense_Mutation	SNP	T	T	C	rs149325980	alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	154.0	85.0	131.0	0.0	0.551948	0	T|1.000;A|0.000	.	alt	.	ZNF287	60	.	NM_020653	exon3	c.A461G	p.H154R	AAAGCATGTTTTC	.	PASS	Atlas-SNP
HAGH	3029	hgsc.bcm.edu	37	16	1869940	1869940	+	Silent	SNP	G	G	A	rs146440574	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	94.0	50.0	89.0	0.0	0.531915	0	G|0.999;A|0.001	0.001	strong	.	HAGH	20	.	NM_005326	exon4	c.C390T	p.I130I	GGCCCCGATACGG	.	PASS	Atlas-SNP
DEK	7913	hgsc.bcm.edu	37	6	18258286	18258286	+	Silent	SNP	C	C	T	rs144486575	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	42.0	20.0	35.0	0.0	0.47619	0	C|0.999;T|0.001	0.001	strong	.	DEK	31	.	NM_003472	exon4	c.G255A	p.G85G	TTTCTGCCCCTTT	.	PASS	Atlas-SNP
NDUFAF7	55471	hgsc.bcm.edu	37	2	37459326	37459326	+	Missense_Mutation	SNP	C	C	T	rs146409773		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	133.0	65.0	115.0	0.0	0.488722	0	C|1.000;T|0.000	0.000	weak	.	.	.	.	NM_001083946	exon2	c.C133T	p.R45W	ATGCTGCGGCATC	.	PASS	Atlas-SNP
MGEA5	10724	hgsc.bcm.edu	37	10	103577629	103577629	+	Missense_Mutation	SNP	C	C	T	rs35402016	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	21.0	11.0	13.0	0.0	0.52381	0	C|0.996;T|0.004	0.004	strong	.	MGEA5	53	.	NM_001142434	exon1	c.G151A	p.A51T	CCCCGGCCACCGC	.	PASS	Atlas-SNP
SLC9A3R2	9351	hgsc.bcm.edu	37	16	2079665	2079665	+	Missense_Mutation	SNP	G	G	A	rs55864883	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	101.0	48.0	107.0	0.0	0.475248	0	.	.	weak	.	SLC9A3R2	24	.	NM_004785	exon2	c.G296A	p.R99Q	GCCGGCGGCAGCT	.	PASS	Atlas-SNP
CNOT4	4850	hgsc.bcm.edu	37	7	135123060	135123060	+	Missense_Mutation	SNP	G	G	C	rs17480616	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	105.0	49.0	133.0	0.0	0.466667	0	G|0.983;C|0.017	0.017	strong	.	CNOT4	146	.	NM_001190850	exon2	c.C20G	p.A7G	TCCTTCGCATCAG	.	PASS	Atlas-SNP
CIT	11113	hgsc.bcm.edu	37	12	120260706	120260706	+	Silent	SNP	G	G	A	rs145804827	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	139.0	64.0	146.0	0.0	0.460432	0	G|0.999;A|0.001	0.001	strong	.	CIT	535	.	NM_001206999	exon9	c.C1029T	p.C343C	CTGGCCGCACAAC	.	PASS	Atlas-SNP
UGT3A2	167127	hgsc.bcm.edu	37	5	36037933	36037933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	128.0	57.0	96.0	0.0	0.445312	0	.	.	none	.	UGT3A2	117	.	NM_174914	exon6	c.G1261A	p.A421T	TAAGAGCCAATGT	.	PASS	Atlas-SNP
FAM175B	23172	hgsc.bcm.edu	37	10	126515249	126515249	+	Missense_Mutation	SNP	G	G	A	rs140695652	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	132.0	60.0	138.0	0.0	0.454545	0	G|1.000;A|0.000	0.000	strong	.	FAM175B	39	.	NM_032182	exon5	c.G353A	p.R118H	TCACCCGCATCCT	.	PASS	Atlas-SNP
CEP41	95681	hgsc.bcm.edu	37	7	130038814	130038814	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	89.0	49.0	49.0	0.0	0.550562	0	.	.	none	.	.	.	.	NM_018718	exon11	c.A1040G	p.N347S	GGCAGATTCTGAG	.	PASS	Atlas-SNP
ZNF326	284695	hgsc.bcm.edu	37	1	90482944	90482944	+	Missense_Mutation	SNP	A	A	G	rs200399673	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	48.0	141.0	0.0	0.396694	0	A|0.999;G|0.001	0.001	weak	.	ZNF326	60	.	NM_182976	exon8	c.A995G	p.E332G	ATCTGGAAAGTTC	.	PASS	Atlas-SNP
GNB5	10681	hgsc.bcm.edu	37	15	52433397	52433397	+	Silent	SNP	C	C	T	rs17612637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	60.0	116.0	0.0	0.495868	0	C|0.973;G|0.000;T|0.027	0.027	strong	.	GNB5	28	.	NM_016194	exon7	c.G567A	p.K189K	AACAGACTTCTTT	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11920	11920	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	8.0	8.0	9.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.C1161T	p.S387S	GTTCTCCTGATCA	.	PASS	Atlas-SNP
RNF157	114804	hgsc.bcm.edu	37	17	74208466	74208466	+	Silent	SNP	A	A	G	rs61760884	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	192.0	83.0	140.0	0.0	0.432292	0	A|0.996;G|0.004	0.004	strong	.	RNF157	66	.	NM_052916	exon2	c.T186C	p.F62F	CCCCAGAAAGTTC	.	PASS	Atlas-SNP
AFF2	2334	hgsc.bcm.edu	37	X	148035200	148035200	+	Silent	SNP	G	G	A	rs12011040	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	171.0	170.0	183.0	0.0	0.994152	0	0|0.003;A|0.180	0.180	strong	.	AFF2	679	.	NM_002025	exon10	c.G1488A	p.S496S	TGAGTCGGATTCA	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90151620	90151620	+	Missense_Mutation	SNP	C	C	A	rs201254386	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	226.0	96.0	257.0	0.0	0.424779	0	.	.	weak	.	GPR98	605	.	NM_032119	exon82	c.C17657A	p.A5886D	AATGTGCCTGTTC	.	PASS	Atlas-SNP
IFNA8	3445	hgsc.bcm.edu	37	9	21409439	21409439	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	205.0	81.0	192.0	0.0	0.395122	0	.	.	none	.	IFNA8	19	.	NM_002170	exon1	c.C264T	p.F88F	GACCTTCAACCTC	.	PASS	Atlas-SNP
KRTAP4-6	81871	hgsc.bcm.edu	37	17	39296675	39296675	+	Missense_Mutation	SNP	C	C	T	rs147498528	by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	86.0	37.0	118.0	0.0	0.430233	0	C|0.997;T|0.003	0.003	strong	KRTAP4-6,NS,carcinoma,+1,2	KRTAP4-6	46	2	NM_030976	exon1	c.G65A	p.R22H	CTGGGGCGGCAGC	.	PASS	Atlas-SNP
USP25	29761	hgsc.bcm.edu	37	21	17172112	17172112	+	Silent	SNP	C	C	T	rs145029756	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	178.0	87.0	201.0	0.0	0.488764	0	C|0.998;T|0.002	0.002	strong	.	USP25	156	.	NM_013396	exon6	c.C592T	p.L198L	TTAGTTCTGAATT	.	PASS	Atlas-SNP
UPK3B	80761	hgsc.bcm.edu	37	7	76140315	76140315	+	Missense_Mutation	SNP	G	G	A	rs144609046	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	535.0	226.0	649.0	1.0	0.42243	0.00154083	G|0.999;A|0.001	0.001	strong	.	UPK3B	15	.	NM_030570	exon1	c.G346A	p.D116N	GTCTTCGATGGGC	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364522	5364522	+	Missense_Mutation	SNP	G	G	T	rs57273781	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	68.0	29.0	54.0	0.0	0.426471	0	G|0.889;T|0.111	0.111	strong	OR51B5,NS,malignant_melanoma,+1,2	OR51B5	60	2	NM_001005567	exon5	c.C233A	p.T78K	AGCACCGTGGGCA	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10261086	10261086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	143.0	62.0	137.0	0.0	0.433566	0	.	.	none	.	MYH13	533	.	NM_003802	exon8	c.C704T	p.A235V	GTCTTGGCATTTC	.	PASS	Atlas-SNP
DDX60	55601	hgsc.bcm.edu	37	4	169146815	169146815	+	Missense_Mutation	SNP	C	C	T	rs146255632	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	59.0	24.0	74.0	0.0	0.40678	0	C|0.999;T|0.001	0.001	strong	.	DDX60	304	.	NM_017631	exon34	c.G4546A	p.D1516N	GGAGATCATCAAG	.	PASS	Atlas-SNP
NUP107	57122	hgsc.bcm.edu	37	12	69090684	69090684	+	Silent	SNP	A	A	G	rs35054844	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	45.0	65.0	0.0	0.548781	0	A|0.975;G|0.025	0.025	strong	NUP107,NS,carcinoma,+2,1	NUP107	88	1	NM_020401	exon6	c.A534G	p.E178E	GTATGAAAACATC	.	PASS	Atlas-SNP
C19orf77	284422	hgsc.bcm.edu	37	19	3474941	3474941	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	144.0	77.0	143.0	0.0	0.534722	0	.	.	none	.	C19orf77	6	.	NM_001136503	exon4	c.A293C	p.K98T	TTCTCCTTCTTCC	.	PASS	Atlas-SNP
ACOX2	8309	hgsc.bcm.edu	37	3	58494661	58494661	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	103.0	49.0	91.0	0.0	0.475728	0	.	.	none	.	ACOX2	53	.	NM_003500	exon14	c.C1942T	p.R648C	ACAGGCGTTCGTA	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	37	14	94417531	94417531	+	Missense_Mutation	SNP	T	T	C	rs11555542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	69.0	32.0	47.0	0.0	0.463768	0	T|0.964;C|0.036	0.036	strong	.	ASB2	71	.	NM_001202429	exon6	c.A694G	p.N232D	GGTGGTTGGTGTC	.	PASS	Atlas-SNP
KIRREL3	84623	hgsc.bcm.edu	37	11	126294661	126294661	+	Silent	SNP	G	G	A	rs34844660	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	111.0	51.0	112.0	0.0	0.459459	0	G|0.992;A|0.008	0.008	strong	.	KIRREL3	183	.	NM_032531	exon17	c.C2151T	p.S717S	GCTGTCGCTGAGG	.	PASS	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15708557	15708557	+	Silent	SNP	G	G	A	rs35816204	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	318.0	147.0	305.0	1.0	0.462264	0.00327869	G|0.975;A|0.025	0.025	strong	.	FHAD1	78	.	NM_052929	exon30	c.G3990A	p.S1330S	CCAGTCGCAGGTG	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196922836	196922836	+	Missense_Mutation	SNP	T	T	A	rs72917299	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	98.0	46.0	131.0	0.0	0.469388	0	T|0.991;A|0.009	0.009	strong	.	DNAH7	512	.	NM_018897	exon2	c.A20T	p.K7I	GCCGATTTATCCT	.	PASS	Atlas-SNP
PDZD7	79955	hgsc.bcm.edu	37	10	102783354	102783354	+	Silent	SNP	C	C	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	60.0	33.0	48.0	0.0	0.55	0	.	.	none	.	PDZD7	101	.	NM_001195263	exon4	c.G381C	p.L127L	CACGCACAGGCCA	.	PASS	Atlas-SNP
PDAP1	11333	hgsc.bcm.edu	37	7	98997955	98997955	+	Silent	SNP	G	G	A	rs148987199	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	369.0	175.0	394.0	1.0	0.474255	0.00253807	G|1.000;A|0.000	0.000	strong	.	PDAP1	17	.	NM_014891	exon4	c.C306T	p.D102D	TGGCCCGTCCAGA	.	PASS	Atlas-SNP
DSG3	1830	hgsc.bcm.edu	37	18	29055635	29055635	+	Silent	SNP	C	C	T	rs117661169	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	78.0	37.0	68.0	0.0	0.474359	0	C|0.976;T|0.024	0.024	strong	.	DSG3	172	.	NM_001944	exon16	c.C2412T	p.D804D	GGAAGACGATGGC	.	PASS	Atlas-SNP
GJD4	219770	hgsc.bcm.edu	37	10	35896700	35896700	+	Missense_Mutation	SNP	C	C	T	rs76906304	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	64.0	30.0	58.0	0.0	0.46875	0	C|0.989;T|0.011	0.011	strong	GJD4,NS,carcinoma,0,1	GJD4	38	1	NM_153368	exon2	c.C259T	p.L87F	GTCCTCCTCCCCT	.	PASS	Atlas-SNP
RRN3	54700	hgsc.bcm.edu	37	16	15166809	15166809	+	Silent	SNP	A	A	G	rs72774849	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	105.0	51.0	102.0	0.0	0.485714	0	A|0.987;G|0.013	0.013	strong	.	RRN3	36	.	NM_018427	exon12	c.T1126C	p.L376L	TCACCAATTTGAA	.	PASS	Atlas-SNP
BRAF	673	hgsc.bcm.edu	37	7	140449150	140449150	+	Silent	SNP	T	T	C	rs9648696	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	138.0	65.0	167.0	0.0	0.471014	0	T|0.696;C|0.304	0.304	strong	.	BRAF	36346	.	NM_004333	exon16	c.A1929G	p.G643G	AACAATTCCAAAT	.	PASS	Atlas-SNP
MTTP	4547	hgsc.bcm.edu	37	4	100532602	100532602	+	Missense_Mutation	SNP	G	G	A	rs113337987	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	104.0	64.0	116.0	0.0	0.615385	0	G|0.970;A|0.030	0.030	strong	MTTP,caecum,carcinoma,0,1	MTTP	127	1	NM_000253	exon15	c.G1981A	p.G661S	CTTCACGGTAGCC	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29497967	29497967	+	Missense_Mutation	SNP	G	G	A	rs35228363	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	224.0	113.0	207.0	0.0	0.504464	0	G|0.984;A|0.016	0.016	strong	.	ALK	533	.	NM_004304	exon11	c.C2039T	p.T680I	TTACCTGTAGGGT	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47856916	47856916	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	77.0	4.0	53.0	0.0	0.0519481	0	.	.	none	.	PCNT	283	.	NM_006031	exon40	c.C9021T	p.S3007S	GTCATCCAATGAG	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134340174	134340174	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	55.0	115.0	0.0	0.44	0	.	.	none	.	PRRC2B	266	.	NM_013318	exon11	c.C1429T	p.R477W	ATGTTCCGGCAAC	.	PASS	Atlas-SNP
MYO1D	4642	hgsc.bcm.edu	37	17	31048141	31048141	+	Missense_Mutation	SNP	G	G	A	rs375202047		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	162.0	84.0	140.0	0.0	0.518519	0	.	.	weak	.	MYO1D	93	.	NM_015194	exon15	c.C1813T	p.R605C	GGCAGCGTTCATC	.	PASS	Atlas-SNP
SLC27A5	10998	hgsc.bcm.edu	37	19	59009949	59009949	+	Missense_Mutation	SNP	G	G	C	rs145618122	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	52.0	25.0	83.0	0.0	0.480769	0	G|0.992;C|0.008	0.008	strong	.	SLC27A5	58	.	NM_012254	exon10	c.C2006G	p.A669G	GACTGGGCCCGGT	.	PASS	Atlas-SNP
TBXAS1	6916	hgsc.bcm.edu	37	7	139717523	139717523	+	Missense_Mutation	SNP	G	G	T	rs149988492	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	324.0	182.0	246.0	0.0	0.561728	0	G|1.000;T|0.000	0.000	strong	.	TBXAS1	121	.	NM_001166253	exon13	c.G1558T	p.G520W	CCCTTCGGGGCCG	.	PASS	Atlas-SNP
RPH3AL	9501	hgsc.bcm.edu	37	17	96910	96910	+	Missense_Mutation	SNP	C	C	T	rs376959240		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	85.0	39.0	98.0	0.0	0.458824	0	.	.	weak	.	RPH3AL	18	.	NM_006987	exon7	c.G605A	p.R202Q	CTTCCTCGGGCCC	.	PASS	Atlas-SNP
CSF1R	1436	hgsc.bcm.edu	37	5	149457678	149457678	+	Silent	SNP	G	G	A	rs2228422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	195.0	80.0	188.0	1.0	0.410256	0.00531915	G|0.561;A|0.439	0.439	strong	CSF1R_ENST00000286301,NS,carcinoma,0,1	CSF1R	250	1	NM_005211	exon5	c.C726T	p.T242T	GACCTTGGTGTTG	.	scavenged	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197173	39197173	+	Silent	SNP	A	A	G	rs144980478	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	180.0	96.0	177.0	0.0	0.533333	0	A|0.996;G|0.004	0.004	strong	.	KRTAP1-1	23	.	NM_030967	exon1	c.T477C	p.C159C	CTGTCCACAGTAG	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126144441	126144441	+	Missense_Mutation	SNP	G	G	A	rs200503663	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	28.0	15.0	34.0	0.0	0.535714	0	.	.	weak	DENND1A,colon,carcinoma,-1,1	DENND1A	112	1	NM_020946	exon22	c.C2300T	p.P767L	CTGAGCGGCTGGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506014	195506014	+	Missense_Mutation	SNP	G	G	A	rs200152370		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	135.0	19.0	154.0	0.0	0.140741	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.C12437T	p.P4146L	GTGACAGGAAGAG	.	PASS	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	37	5	7892933	7892933	+	Silent	SNP	A	A	G	rs35890938	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	158.0	72.0	131.0	0.0	0.455696	0	A|0.981;G|0.019	0.019	strong	.	MTRR	74	.	NM_024010	exon11	c.A1545G	p.V515V	GGGAGTATGTACA	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537294	88537294	+	Silent	SNP	T	T	C	rs372422242		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	177.0	17.0	216.0	0.0	0.0960452	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.T3480C	p.S1160S	CAGCAGTGACAGC	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17084078	17084078	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	1404.0	117.0	1222.0	1.0	0.0833333	0.000818331	.	.	none	Q13209_HUMAN,NS,haematopoietic_neoplasm,0,1	.	.	1	NM_001271733	exon14	c.C1843T	p.R615X	GTCCTCGGTGCTT	.	scavenged	Atlas-SNP
SCUBE1	80274	hgsc.bcm.edu	37	22	43618695	43618695	+	Missense_Mutation	SNP	C	C	A	rs148458324	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	49.0	71.0	0.0	0.597561	0	C|0.994;A|0.006	0.006	strong	.	SCUBE1	105	.	NM_173050	exon12	c.G1381T	p.A461S	GCAGCGCCTTGCC	.	PASS	Atlas-SNP
FICD	11153	hgsc.bcm.edu	37	12	108912621	108912621	+	Missense_Mutation	SNP	C	C	A	rs146316463	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	134.0	76.0	106.0	0.0	0.567164	0	C|0.999;A|0.001	0.001	strong	.	FICD	35	.	NM_007076	exon3	c.C746A	p.T249N	TGGAGACCCGCTA	.	PASS	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608866	26608866	+	Missense_Mutation	SNP	C	C	G	rs188535926	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	35.0	8.0	25.0	0.0	0.228571	0	C|0.991;G|0.009	0.009	strong	UBXN11,colon,carcinoma,-1,2	UBXN11	54	2	NM_183008	exon16	c.G1487C	p.G496A	CCGGGACCGGGAC	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56386732	56386732	+	Missense_Mutation	SNP	C	C	T	rs61741210	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	40.0	17.0	36.0	0.0	0.425	0	C|0.982;T|0.018	0.018	strong	.	BZRAP1	287	.	NM_004758	exon22	c.G3901A	p.D1301N	AGGGGTCGGGCTG	.	PASS	Atlas-SNP
CDKN2B	1030	hgsc.bcm.edu	37	9	22006147	22006147	+	Missense_Mutation	SNP	C	C	T	rs148421170	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	46.0	27.0	52.0	0.0	0.586957	0	C|0.998;T|0.002	0.002	strong	.	CDKN2B	12	.	NM_004936	exon2	c.G256A	p.D86N	CAGCATCATGCAC	.	PASS	Atlas-SNP
ELMO3	79767	hgsc.bcm.edu	37	16	67234197	67234197	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	5.0	119.0	0.0	0.0413223	0	.	.	none	.	ELMO3	41	.	NM_024712	exon5	c.T505C	p.F169L	ATGATCTTTGCCA	.	PASS	Atlas-SNP
PHF2	5253	hgsc.bcm.edu	37	9	96407953	96407953	+	Silent	SNP	G	G	A	rs35505758	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	69.0	34.0	42.0	0.0	0.492754	0	G|0.980;A|0.020	0.020	strong	.	PHF2	113	.	NM_005392	exon4	c.G342A	p.T114T	GCTCACGCTGGGC	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364476	5364476	+	Silent	SNP	C	C	T	rs61738485	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	51.0	25.0	35.0	0.0	0.490196	0	C|0.885;T|0.115	0.115	strong	OR51B5,NS,carcinoma,-1,1	OR51B5	60	1	NM_001005567	exon5	c.G279A	p.A93A	GCAGGCCGCACTT	.	PASS	Atlas-SNP
C4orf40	401137	hgsc.bcm.edu	37	4	71024466	71024466	+	Missense_Mutation	SNP	C	C	T	rs201012961	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	26.0	139.0	0.0	0.230089	0	C|0.999;T|0.001	0.001	weak	.	C4orf40	19	.	NM_214711	exon3	c.C497T	p.A166V	TTGGAGCTGAGCC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13867949	13867949	+	Silent	SNP	T	T	C	rs146191243	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	174.0	96.0	158.0	0.0	0.551724	0	T|0.990;C|0.010	0.010	strong	.	DNAH5	868	.	NM_001369	exon25	c.A3987G	p.K1329K	AAGCTCTTTCTTG	.	PASS	Atlas-SNP
LRBA	987	hgsc.bcm.edu	37	4	151388906	151388906	+	Silent	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	241.0	101.0	226.0	0.0	0.419087	0	.	.	none	.	LRBA	253	.	NM_006726	exon45	c.A6732G	p.P2244P	AAACACTGGATAC	.	PASS	Atlas-SNP
EGLN1	54583	hgsc.bcm.edu	37	1	231557164	231557164	+	Missense_Mutation	SNP	C	C	G	rs61750991	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	13.0	11.0	17.0	0.0	0.846154	0	C|0.988;G|0.012	0.012	strong	.	EGLN1	38	.	NM_022051	exon1	c.G471C	p.Q157H	CTTCTCCTGGAAC	.	PASS	Atlas-SNP
TPSG1	25823	hgsc.bcm.edu	37	16	1272655	1272655	+	Missense_Mutation	SNP	C	C	T	rs117769620	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	53.0	130.0	0.0	0.481818	0	C|0.995;T|0.005	0.005	strong	.	TPSG1	19	.	NM_012467	exon4	c.G508A	p.G170R	CACCTCCCTCCCG	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158592847	158592847	+	Missense_Mutation	SNP	G	G	A	rs78394850	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	204.0	86.0	206.0	0.0	0.421569	0	G|0.959;A|0.041	0.041	strong	SPTA1,colon,carcinoma,+1,3	SPTA1	720	3	NM_003126	exon43	c.C6046T	p.R2016C	CCCAGCGCTTCAG	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55177358	55177358	+	Missense_Mutation	SNP	C	C	T	rs200475774	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	127.0	60.0	146.0	0.0	0.472441	0	C|0.999;T|0.001	0.001	weak	LILRB4,NS,carcinoma,0,2	LILRB4	86	2	NM_006847	exon7	c.C850T	p.R284C	CACTGGCGTCAGG	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121416622	121416622	+	Silent	SNP	C	C	G	rs1169289	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	144.0	63.0	169.0	0.0	0.4375	0	G|0.405;C|0.595	0.405	strong	HNF1A,NS,carcinoma,0,1	HNF1A	302	1	NM_000545	exon1	c.C51G	p.L17L	CCTGCTCGAGTCA	.	PASS	Atlas-SNP
ZKSCAN4	387032	hgsc.bcm.edu	37	6	28219695	28219695	+	Missense_Mutation	SNP	G	G	A	rs62638680	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	97.0	39.0	65.0	0.0	0.402062	0	G|0.968;A|0.032	0.032	strong	.	ZKSCAN4	42	.	NM_019110	exon1	c.C64T	p.L22F	TCAGGAGCCCCGT	.	PASS	Atlas-SNP
ZNF780A	284323	hgsc.bcm.edu	37	19	40580426	40580426	+	Silent	SNP	A	A	G	rs399405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	199.0	90.0	190.0	0.0	0.452261	0	A|0.899;G|0.101	0.101	strong	.	ZNF780A	156	.	NM_001142577	exon6	c.T1926C	p.S642S	CATTCAAGATGCC	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64580061	64580061	+	Silent	SNP	C	C	T	rs114604397	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	54.0	20.0	58.0	0.0	0.37037	0	C|0.993;T|0.007	0.007	strong	.	SYNE2	577	.	NM_182914	exon66	c.C12612T	p.G4204G	TTAGGGCACCACA	.	PASS	Atlas-SNP
SRPK1	6732	hgsc.bcm.edu	37	6	35803103	35803103	+	Missense_Mutation	SNP	C	C	T	rs35124200	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	120.0	65.0	110.0	0.0	0.541667	0	C|0.996;T|0.004	0.004	strong	.	SRPK1	61	.	NM_003137	exon16	c.G1946A	p.R649Q	GGGTGCCGGAGAC	.	PASS	Atlas-SNP
ERMP1	79956	hgsc.bcm.edu	37	9	5805741	5805741	+	Silent	SNP	C	C	T	rs35643913	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	45.0	74.0	0.0	0.424528	0	C|0.995;T|0.005	0.005	strong	.	ERMP1	63	.	NM_024896	exon9	c.G1593A	p.S531S	AAACAGCGAAATG	.	PASS	Atlas-SNP
GTF2H4	2968	hgsc.bcm.edu	37	6	30881103	30881103	+	Silent	SNP	C	C	A	rs1132408	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	220.0	218.0	200.0	1.0	0.990909	0.005	C|0.980;A|0.020	0.020	strong	.	GTF2H4	38	.	NM_001517	exon13	c.C1155A	p.P385P	GCCCCCCACCATC	.	PASS	Atlas-SNP
IL1R1	3554	hgsc.bcm.edu	37	2	102791086	102791086	+	Missense_Mutation	SNP	C	C	T	rs28362304	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	92.0	34.0	112.0	0.0	0.369565	0	C|0.985;T|0.015	0.015	strong	.	IL1R1	52	.	NM_000877	exon9	c.C1031T	p.T344M	GTGTCACGTTGAC	.	PASS	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	37	17	78936339	78936339	+	Silent	SNP	G	G	A	rs17848671	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	136.0	62.0	105.0	0.0	0.455882	0	G|0.999;A|0.001	0.001	strong	.	RPTOR	122	.	NM_020761	exon32	c.G3771A	p.T1257T	GCTGACGGCCCTG	.	PASS	Atlas-SNP
CDHR4	389118	hgsc.bcm.edu	37	3	49831032	49831032	+	Missense_Mutation	SNP	A	A	G	rs115485248	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	100.0	44.0	127.0	0.0	0.44	0	A|0.999;G|0.001	0.001	strong	.	CDHR4	37	.	NM_001007540	exon12	c.T1607C	p.I536T	ATGGTAATGGTAC	.	PASS	Atlas-SNP
NRK	203447	hgsc.bcm.edu	37	X	105193709	105193709	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	110.0	100.0	1.0	1	0.01	.	.	none	.	NRK	321	.	NM_198465	exon27	c.A4496G	p.D1499G	GGAAAGACATACC	.	PASS	Atlas-SNP
FCRLA	84824	hgsc.bcm.edu	37	1	161680617	161680617	+	Silent	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	77.0	33.0	90.0	0.0	0.428571	0	.	.	none	.	FCRLA	101	.	NM_001184866	exon3	c.G216A	p.E72E	CACGGAGGATGAC	.	PASS	Atlas-SNP
PTCD3	55037	hgsc.bcm.edu	37	2	86352925	86352925	+	Silent	SNP	A	A	G	rs139474497	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	101.0	55.0	93.0	0.0	0.544554	0	A|0.991;G|0.009	0.009	strong	.	PTCD3	51	.	NM_017952	exon12	c.A873G	p.V291V	TGATGTATACACA	.	PASS	Atlas-SNP
BOK	666	hgsc.bcm.edu	37	2	242501765	242501765	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	52.0	26.0	56.0	0.0	0.5	0	.	.	none	.	BOK	16	.	NM_032515	exon3	c.G223A	p.D75N	ACAGGCGATGAGC	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73569211	73569211	+	Silent	SNP	C	C	T	rs376055189		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	179.0	81.0	188.0	0.0	0.452514	0	.	.	weak	.	LLGL2	155	.	NM_004524	exon20	c.C2577T	p.Y859Y	GGACTACGGGGAG	.	PASS	Atlas-SNP
BCL10	8915	hgsc.bcm.edu	37	1	85733328	85733328	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	67.0	4.0	63.0	0.0	0.0597015	0	.	.	none	.	BCL10	39	.	NM_003921	exon3	c.T684C	p.R228R	AACAGTACGTGAT	.	PASS	Atlas-SNP
MAP3K11	4296	hgsc.bcm.edu	37	11	65373249	65373249	+	Missense_Mutation	SNP	G	G	T	rs145297254	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	75.0	41.0	81.0	0.0	0.546667	0	G|0.999;T|0.001	0.001	strong	.	MAP3K11	67	.	NM_002419	exon8	c.C1814A	p.T605K	GGGGGTGTGGAAG	.	PASS	Atlas-SNP
EXOC2	55770	hgsc.bcm.edu	37	6	592566	592566	+	Silent	SNP	C	C	T	rs62385137	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	47.0	72.0	0.0	0.494737	0	C|1.000;T|0.000	0.000	weak	EXOC2,colon,carcinoma,-1,1	EXOC2	81	1	NM_018303	exon11	c.G1095A	p.A365A	ACCAGACGCATGA	.	PASS	Atlas-SNP
CASP2	835	hgsc.bcm.edu	37	7	142988726	142988726	+	Silent	SNP	G	G	A	rs4647288	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	47.0	96.0	0.0	0.412281	0	G|0.981;A|0.019	0.019	strong	.	CASP2	55	.	NM_032982	exon2	c.G168A	p.L56L	CGAATTGTTAGAA	.	PASS	Atlas-SNP
LNPEP	4012	hgsc.bcm.edu	37	5	96315320	96315320	+	Missense_Mutation	SNP	C	C	G	rs61752351	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	58.0	118.0	0.0	0.508772	0	C|0.986;G|0.014	0.014	strong	.	LNPEP	80	.	NM_005575	exon2	c.C498G	p.I166M	ACAGATCAGGCTT	.	PASS	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	37	17	16005030	16005030	+	Missense_Mutation	SNP	T	T	C	rs150909544		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	96.0	41.0	93.0	0.0	0.427083	0	T|1.000;C|0.000	0.000	weak	.	NCOR1	240	.	NM_001190440	exon19	c.A2272G	p.T758A	GAGAAGTAGCATT	.	PASS	Atlas-SNP
ZIM2	23619	hgsc.bcm.edu	37	19	57286688	57286688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	310.0	149.0	268.0	0.0	0.480645	0	.	.	none	ZIM2,NS,malignant_melanoma,+1,1	ZIM2	511	1	NM_015363	exon11	c.C952T	p.P318S	ACTGGGGACTCGT	.	PASS	Atlas-SNP
TMEM37	140738	hgsc.bcm.edu	37	2	120194680	120194680	+	Silent	SNP	C	C	G	rs72833259	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	42.0	27.0	35.0	0.0	0.642857	0	C|0.983;G|0.017	0.017	strong	.	TMEM37	40	.	NM_183240	exon2	c.C237G	p.A79A	CCAGGCCCATGTG	.	PASS	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	37	22	26693026	26693026	+	Missense_Mutation	SNP	C	C	A	rs146559583	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	48.0	109.0	0.0	0.448598	0	C|1.000;A|0.000	0.000	strong	.	SEZ6L	174	.	NM_001184777	exon4	c.C1142A	p.T381N	TTGGGACCTTCCA	.	PASS	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	37	2	71650236	71650236	+	Missense_Mutation	SNP	T	T	C	rs79157966	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	101.0	59.0	99.0	0.0	0.584158	0	T|0.994;C|0.006	0.006	strong	.	ZNF638	179	.	NM_014497	exon22	c.T3592C	p.C1198R	GAGGAGTGTGCTT	.	PASS	Atlas-SNP
ERN1	2081	hgsc.bcm.edu	37	17	62132160	62132160	+	Silent	SNP	C	C	T	rs55653398	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	41.0	21.0	57.0	0.0	0.512195	0	C|0.988;T|0.012	0.012	strong	.	ERN1	102	.	NM_001433	exon14	c.G1701A	p.G567G	AATTTTCCCAACT	.	PASS	Atlas-SNP
MTMR6	9107	hgsc.bcm.edu	37	13	25831928	25831928	+	Silent	SNP	C	C	T	rs186466011	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	42.0	23.0	56.0	0.0	0.547619	0	C|1.000;T|0.000	0.000	strong	.	MTMR6	75	.	NM_004685	exon8	c.G915A	p.S305S	CCATCCCGAGCTC	.	PASS	Atlas-SNP
FANCM	57697	hgsc.bcm.edu	37	14	45665434	45665434	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	140.0	74.0	131.0	0.0	0.528571	0	.	.	none	.	FANCM	225	.	NM_020937	exon21	c.A5400G	p.P1800P	AAGACCACATTTA	.	PASS	Atlas-SNP
KLHL26	55295	hgsc.bcm.edu	37	19	18779113	18779113	+	Silent	SNP	C	C	T	rs17852385	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	37.0	25.0	30.0	0.0	0.675676	0	C|0.969;T|0.031	0.031	strong	.	KLHL26	43	.	NM_018316	exon3	c.C906T	p.T302T	GCGCACCGCCGTG	.	PASS	Atlas-SNP
LGMN	5641	hgsc.bcm.edu	37	14	93172903	93172903	+	Silent	SNP	C	C	T	rs143184687	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	129.0	74.0	85.0	0.0	0.573643	0	C|0.984;T|0.016	0.016	strong	.	LGMN	28	.	NM_005606	exon12	c.G1116A	p.P372P	CGTGAGCGGGGCT	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	37	19	14000196	14000196	+	Missense_Mutation	SNP	G	G	T	rs61732721	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	86.0	39.0	88.0	0.0	0.453488	0	G|0.996;T|0.004	0.004	strong	.	C19orf57	34	.	NM_024323	exon6	c.C1473A	p.D491E	GAGAGGGTCGTCT	.	PASS	Atlas-SNP
ITLN2	142683	hgsc.bcm.edu	37	1	160922421	160922421	+	Missense_Mutation	SNP	T	T	G	rs145457015	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	67.0	30.0	67.0	0.0	0.447761	0	T|0.999;G|0.001	0.001	strong	.	ITLN2	35	.	NM_080878	exon3	c.A182C	p.H61P	GCACTATGGCAGC	.	PASS	Atlas-SNP
CLNK	116449	hgsc.bcm.edu	37	4	10586571	10586571	+	Missense_Mutation	SNP	G	G	A	rs61759824	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	45.0	20.0	50.0	0.0	0.444444	0	G|0.967;A|0.033	0.033	strong	.	CLNK	85	.	NM_052964	exon4	c.C92T	p.P31L	ATGCGAGGCCATG	.	PASS	Atlas-SNP
PUS7	54517	hgsc.bcm.edu	37	7	105148683	105148683	+	Missense_Mutation	SNP	A	A	G	rs139058270	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	244.0	112.0	246.0	0.0	0.459016	0	A|0.995;G|0.005	0.005	strong	.	PUS7	59	.	NM_019042	exon2	c.T277C	p.C93R	CCTCGCACTCCTC	.	PASS	Atlas-SNP
BOK	666	hgsc.bcm.edu	37	2	242501828	242501828	+	Silent	SNP	C	C	T	rs145137590	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	88.0	48.0	88.0	0.0	0.545455	0	C|0.995;T|0.005	0.005	strong	BOK,NS,carcinoma,0,1	BOK	16	1	NM_032515	exon3	c.C286T	p.L96L	ATCTCCCTGCAGT	.	PASS	Atlas-SNP
COG3	83548	hgsc.bcm.edu	37	13	46099171	46099171	+	Missense_Mutation	SNP	C	C	T	rs144497765	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	128.0	66.0	114.0	0.0	0.515625	0	C|0.999;T|0.001	0.001	strong	.	COG3	52	.	NM_031431	exon20	c.C2215T	p.P739S	CAGCAGCCTTGGG	.	PASS	Atlas-SNP
CPVL	54504	hgsc.bcm.edu	37	7	29111950	29111950	+	Silent	SNP	A	A	G	rs62442642	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	120.0	59.0	124.0	0.0	0.491667	0	A|0.995;G|0.005	0.005	strong	.	CPVL	60	.	NM_019029	exon8	c.T699C	p.I233I	AATAGCAATTCCG	.	PASS	Atlas-SNP
TEKT4	150483	hgsc.bcm.edu	37	2	95537330	95537330	+	Silent	SNP	G	G	A	rs140196891	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	55.0	28.0	47.0	0.0	0.509091	0	G|0.995;A|0.005	0.005	strong	.	TEKT4	72	.	NM_144705	exon1	c.G6A	p.A2A	CATGGCGCAGACA	.	PASS	Atlas-SNP
DUSP19	142679	hgsc.bcm.edu	37	2	183951888	183951888	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	63.0	34.0	70.0	0.0	0.539683	0	.	.	none	.	DUSP19	41	.	NM_080876	exon3	c.T394C	p.C132R	CCAGAATGTTTTG	.	PASS	Atlas-SNP
RNF133	168433	hgsc.bcm.edu	37	7	122338664	122338664	+	Silent	SNP	T	T	C	rs373664210		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	153.0	69.0	167.0	0.0	0.45098	0	.	.	weak	.	RNF133	41	.	NM_139175	exon1	c.A309G	p.A103A	AATAAGTGCAAGC	.	PASS	Atlas-SNP
TJP2	9414	hgsc.bcm.edu	37	9	71864319	71864319	+	Missense_Mutation	SNP	G	G	A	rs150494393		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	103.0	70.0	78.0	0.0	0.679612	0	G|1.000;A|0.000	0.000	weak	TJP2,caecum,carcinoma,0,1	TJP2	120	1	NM_001170416	exon20	c.G3002A	p.R1001Q	AGCCACGAGCTCA	.	PASS	Atlas-SNP
MAMDC4	158056	hgsc.bcm.edu	37	9	139748690	139748690	+	Missense_Mutation	SNP	A	A	G	rs151266186	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	34.0	109.0	0.0	0.357895	0	A|0.999;G|0.001	0.001	strong	.	MAMDC4	117	.	NM_206920	exon7	c.A698G	p.H233R	CGGGACACCACCA	.	PASS	Atlas-SNP
RNF165	494470	hgsc.bcm.edu	37	18	44015315	44015315	+	Silent	SNP	A	A	G	rs139779598	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	69.0	34.0	58.0	0.0	0.492754	0	A|0.992;G|0.008	0.008	strong	.	RNF165	34	.	NM_152470	exon3	c.A441G	p.Q147Q	CGGCCAACTGCAG	.	PASS	Atlas-SNP
TULP3	7289	hgsc.bcm.edu	37	12	3047365	3047365	+	Missense_Mutation	SNP	G	G	C	rs34246393	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	118.0	62.0	121.0	0.0	0.525424	0	G|0.998;C|0.002	0.002	strong	.	TULP3	45	.	NM_003324	exon10	c.G1109C	p.S370T	GGAACAGTGACAC	.	PASS	Atlas-SNP
ATG9A	79065	hgsc.bcm.edu	37	2	220088468	220088468	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	44.0	61.0	0.0	0.483516	0	.	.	none	.	ATG9A	50	.	NM_001077198	exon10	c.T1438C	p.L480L	TCAGCAACTCTTC	.	PASS	Atlas-SNP
THNSL1	79896	hgsc.bcm.edu	37	10	25313254	25313254	+	Missense_Mutation	SNP	C	C	A	rs41279892	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	96.0	42.0	84.0	0.0	0.4375	0	C|0.984;A|0.016	0.016	strong	.	THNSL1	70	.	NM_024838	exon3	c.C1102A	p.P368T	ATCCCACCAAGTT	.	PASS	Atlas-SNP
ERP27	121506	hgsc.bcm.edu	37	12	15068620	15068620	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	45.0	110.0	0.0	0.473684	0	.	.	none	.	ERP27	37	.	NM_152321	exon6	c.A577T	p.I193F	AGAGAATCTGCAG	.	PASS	Atlas-SNP
TMEM37	140738	hgsc.bcm.edu	37	2	120194674	120194674	+	Silent	SNP	C	C	T	rs72833258	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	44.0	28.0	37.0	0.0	0.636364	0	C|0.983;T|0.017	0.017	strong	.	TMEM37	40	.	NM_183240	exon2	c.C231T	p.G77G	CCTGGGCCAGGCC	.	PASS	Atlas-SNP
PALB2	79728	hgsc.bcm.edu	37	16	23635348	23635348	+	Missense_Mutation	SNP	A	A	C	rs45478192	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	119.0	43.0	110.0	0.0	0.361345	0	A|0.999;C|0.001	0.001	strong	.	PALB2	108	.	NM_024675	exon8	c.T2816G	p.L939W	ATTTCCAAATTTC	.	PASS	Atlas-SNP
CATSPER2	117155	hgsc.bcm.edu	37	15	43928340	43928340	+	Missense_Mutation	SNP	C	C	G	rs146701338	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	459.0	192.0	394.0	0.0	0.418301	0	C|0.997;G|0.003	0.003	strong	.	CATSPER2	49	.	NM_054020	exon8	c.G920C	p.W307S	ACCTTCCAGACGT	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201193964	201193964	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	123.0	58.0	145.0	0.0	0.471545	0	.	.	none	IGFN1_ENST00000335211,NS,carcinoma,+1,2	IGFN1	220	2	NM_001164586	exon21	c.G10448C	p.G3483A	TGCAGGGGAAGGA	.	PASS	Atlas-SNP
PLCXD1	55344	hgsc.bcm.edu	37	X	200939	200939	+	Missense_Mutation	SNP	C	C	T	rs146939120	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	343.0	169.0	376.0	1.0	0.492711	0.00265957	C|0.995;T|0.005	0.005	strong	.	PLCXD1	18	.	NM_018390	exon2	c.C85T	p.P29S	CTGTGTCCCCGGC	.	PASS	Atlas-SNP
FZD10	11211	hgsc.bcm.edu	37	12	130648576	130648576	+	Silent	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	103.0	55.0	78.0	0.0	0.533981	0	.	.	none	FZD10,NS,carcinoma,0,1	FZD10	95	1	NM_007197	exon1	c.G1089T	p.A363A	CCCGGCGGTGAAG	.	PASS	Atlas-SNP
OR4A47	403253	hgsc.bcm.edu	37	11	48511050	48511050	+	Missense_Mutation	SNP	T	T	C	rs76991989	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	140.0	62.0	150.0	0.0	0.442857	0	T|0.981;C|0.019	0.019	strong	OR4A47,bladder,carcinoma,-1,1	OR4A47	72	1	NM_001005512	exon1	c.T706C	p.S236P	GCCCTCTCAACCT	.	PASS	Atlas-SNP
GAS2L1	10634	hgsc.bcm.edu	37	22	29704627	29704627	+	Missense_Mutation	SNP	C	C	T	rs191844093	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	34.0	20.0	15.0	0.0	0.588235	0	C|0.996;T|0.004	0.004	strong	.	GAS2L1	54	.	NM_152237	exon2	c.C532T	p.P178S	AACGCCCCTGCCG	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73492027	73492027	+	Silent	SNP	G	G	A	rs111033453	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	51.0	117.0	0.0	0.463636	0	G|0.998;A|0.002	0.002	strong	.	CDH23	365	.	NM_022124	exon31	c.G3999A	p.V1333V	GATTGTGCGGGTC	.	PASS	Atlas-SNP
ENTHD2	146705	hgsc.bcm.edu	37	17	79204447	79204447	+	Missense_Mutation	SNP	C	C	T	rs143572077	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	108.0	57.0	102.0	0.0	0.527778	0	C|1.000;T|0.000	0.000	weak	.	.	.	.	NM_144679	exon11	c.G926A	p.S309N	TCGCTGCTCCCCA	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113364697	113364697	+	Missense_Mutation	SNP	T	T	C	rs139786530	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	141.0	48.0	135.0	0.0	0.340426	0	T|0.999;C|0.001	0.001	strong	CSMD3_ENST00000343508,NS,carcinoma,0,2	CSMD3	2325	2	NM_198123	exon39	c.A6203G	p.Y2068C	ACCATATATCTGT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179606590	179606590	+	Silent	SNP	T	T	C	rs72648918	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	63.0	31.0	50.0	0.0	0.492063	0	T|0.999;C|0.001	0.001	strong	.	TTN	18412	.	NM_001267550	exon48	c.A11370G	p.Q3790Q	AGATAATTGAAGT	.	PASS	Atlas-SNP
GDPGP1	390637	hgsc.bcm.edu	37	15	90784632	90784632	+	Missense_Mutation	SNP	G	G	T	rs144466387	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	51.0	24.0	52.0	0.0	0.470588	0	G|0.999;T|0.001	0.001	strong	.	.	.	.	NM_001013657	exon4	c.G492T	p.W164C	GGAGTGGGGCCAC	.	PASS	Atlas-SNP
ZNF57	126295	hgsc.bcm.edu	37	19	2917178	2917178	+	Missense_Mutation	SNP	G	G	A	rs61742111	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	46.0	108.0	0.0	0.429907	0	G|0.973;A|0.027	0.027	strong	.	ZNF57	57	.	NM_173480	exon4	c.G559A	p.G187R	AGTCACGGAAGAA	.	PASS	Atlas-SNP
FOCAD	54914	hgsc.bcm.edu	37	9	20885216	20885216	+	Missense_Mutation	SNP	C	C	T	rs187654100	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	260.0	128.0	263.0	0.0	0.492308	0	C|1.000;T|0.000	0.000	strong	.	.	.	.	NM_017794	exon23	c.C2612T	p.A871V	CACTTGCTCTTGT	.	PASS	Atlas-SNP
SLCO3A1	28232	hgsc.bcm.edu	37	15	92647684	92647684	+	Missense_Mutation	SNP	A	A	C	rs72655652	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	191.0	96.0	157.0	0.0	0.502618	0	A|0.990;C|0.010	0.010	strong	.	SLCO3A1	84	.	NM_013272	exon4	c.A921C	p.R307S	CGAAAGAGAATAC	.	PASS	Atlas-SNP
EFCAB5	374786	hgsc.bcm.edu	37	17	28381069	28381069	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	222.0	112.0	180.0	0.0	0.504505	0	.	.	none	.	EFCAB5	122	.	NM_198529	exon10	c.A2097G	p.E699E	ACAGGAAAAGAGG	.	PASS	Atlas-SNP
SPZ1	84654	hgsc.bcm.edu	37	5	79616400	79616400	+	Missense_Mutation	SNP	G	G	A	rs200562315	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	265.0	12.0	275.0	0.0	0.045283	0	G|0.998;A|0.002	0.002	strong	SPZ1,trunk,malignant_melanoma,0,1	SPZ1	60	1	NM_032567	exon1	c.G366A	p.M122I	TGAAATGTTATCA	.	scavenged	Atlas-SNP
PRDM16	63976	hgsc.bcm.edu	37	1	3319541	3319541	+	Missense_Mutation	SNP	G	G	A	rs141374404	by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	266.0	115.0	225.0	0.0	0.432331	0	G|1.000;A|0.000	0.000	strong	.	PRDM16	147	.	NM_022114	exon6	c.G863A	p.R288Q	GCGAGCGGATGTT	.	PASS	Atlas-SNP
DCSTAMP	81501	hgsc.bcm.edu	37	8	105360994	105360994	+	Missense_Mutation	SNP	C	C	A	rs61682032	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	172.0	81.0	157.0	0.0	0.47093	0	C|0.973;A|0.027	0.027	strong	.	.	.	.	NM_001257317	exon2	c.C214A	p.L72M	GTTCTGCTGTGTT	.	PASS	Atlas-SNP
FBF1	85302	hgsc.bcm.edu	37	17	73914040	73914040	+	Silent	SNP	C	C	T	rs376546796		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	53.0	33.0	56.0	0.0	0.622642	0	.	.	weak	.	FBF1	48	.	NM_001080542	exon21	c.G2313A	p.G771G	CCGGATCCCCAGC	.	PASS	Atlas-SNP
C4orf40	401137	hgsc.bcm.edu	37	4	71024467	71024467	+	Silent	SNP	T	T	G	rs201990073		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	26.0	142.0	0.0	0.22807	0	T|0.999;G|0.001	0.001	weak	.	C4orf40	19	.	NM_214711	exon3	c.T498G	p.A166A	TGGAGCTGAGCCT	.	PASS	Atlas-SNP
KIAA0195	9772	hgsc.bcm.edu	37	17	73492494	73492494	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	199.0	100.0	170.0	0.0	0.502513	0	.	.	none	.	KIAA0195	102	.	NM_014738	exon24	c.C3185G	p.P1062R	GCCTGCCCTGTTC	.	PASS	Atlas-SNP
SYT8	90019	hgsc.bcm.edu	37	11	1857207	1857207	+	Missense_Mutation	SNP	G	G	A	rs139074200	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	73.0	32.0	91.0	0.0	0.438356	0	G|1.000;A|0.000	0.000	strong	.	SYT8	29	.	NM_138567	exon4	c.G392A	p.S131N	TTGGAAGCCAGGA	.	PASS	Atlas-SNP
IQCH	64799	hgsc.bcm.edu	37	15	67692566	67692566	+	Missense_Mutation	SNP	T	T	C	rs35933176	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	224.0	107.0	197.0	0.0	0.477679	0	T|0.997;C|0.003	0.003	strong	.	IQCH	81	.	NM_001031715	exon14	c.T2020C	p.Y674H	CCTTCCTACCTAA	.	PASS	Atlas-SNP
OR51T1	401665	hgsc.bcm.edu	37	11	4903219	4903219	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	139.0	63.0	178.0	0.0	0.453237	0	.	.	none	.	OR51T1	92	.	NM_001004759	exon1	c.C171T	p.S57S	GATCTCCATTCCA	.	PASS	Atlas-SNP
ZFYVE16	9765	hgsc.bcm.edu	37	5	79741086	79741086	+	Silent	SNP	A	A	G	rs150392926	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	97.0	53.0	75.0	0.0	0.546392	0	A|0.999;G|0.001	0.001	strong	.	ZFYVE16	100	.	NM_001105251	exon7	c.A2586G	p.L862L	AGGACTATGTTCC	.	PASS	Atlas-SNP
TIMP4	7079	hgsc.bcm.edu	37	3	12198336	12198336	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	192.0	88.0	188.0	0.0	0.458333	0	.	.	none	.	TIMP4	21	.	NM_003256	exon3	c.G336C	p.K112N	ATACTGCTTCTGG	.	PASS	Atlas-SNP
PARP2	10038	hgsc.bcm.edu	37	14	20822331	20822331	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	161.0	70.0	132.0	0.0	0.434783	0	.	.	none	PARP2_ENST00000250416,NS,carcinoma,0,2	PARP2	92	2	NM_005484	exon8	c.A727C	p.K243Q	TTAATAAAGTTGA	.	PASS	Atlas-SNP
C4orf40	401137	hgsc.bcm.edu	37	4	71024473	71024473	+	Silent	SNP	T	T	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	20.0	151.0	0.0	0.16	0	.	.	none	.	C4orf40	19	.	NM_214711	exon3	c.T504A	p.P168P	TGAGCCTGCTGCA	.	PASS	Atlas-SNP
GLB1L2	89944	hgsc.bcm.edu	37	11	134234269	134234269	+	Missense_Mutation	SNP	A	A	G	rs114723326	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	46.0	100.0	0.0	0.433962	0	A|0.981;G|0.019	0.019	strong	.	GLB1L2	79	.	NM_138342	exon8	c.A781G	p.T261A	CTACTGACCACCT	.	PASS	Atlas-SNP
C1QTNF9B	387911	hgsc.bcm.edu	37	13	24465537	24465537	+	Missense_Mutation	SNP	C	C	T	rs140860568	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	213.0	99.0	102.0	0.0	0.464789	0	C|0.980;T|0.020	0.020	strong	.	C1QTNF9B	27	.	NM_001007537	exon3	c.G893A	p.G298E	TCATCCCCGAGCT	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21494509	21494509	+	Missense_Mutation	SNP	C	C	T	rs147463397	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	49.0	27.0	38.0	0.0	0.55102	0	C|1.000;T|0.000	0.000	strong	.	LAMA3	397	.	NM_198129	exon57	c.C7465T	p.R2489W	ATGGATCGGGTGA	.	PASS	Atlas-SNP
SLC35E4	339665	hgsc.bcm.edu	37	22	31032881	31032881	+	Silent	SNP	G	G	A	rs8136373	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	38.0	22.0	42.0	0.0	0.578947	0	G|0.900;A|0.100	0.100	strong	.	SLC35E4	22	.	NM_001001479	exon1	c.G444A	p.L148L	CACCCTGGCCCTG	.	PASS	Atlas-SNP
IFNA10	3446	hgsc.bcm.edu	37	9	21206605	21206605	+	Missense_Mutation	SNP	C	C	G	rs28368148	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	564.0	265.0	475.0	0.0	0.469858	0	C|0.991;G|0.009	0.009	strong	.	IFNA10	29	.	NM_002171	exon1	c.G492C	p.W164C	AACCTCCCAGGCA	.	PASS	Atlas-SNP
TMEM132A	54972	hgsc.bcm.edu	37	11	60696399	60696399	+	Missense_Mutation	SNP	G	G	A	rs61751216	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	84.0	35.0	83.0	0.0	0.416667	0	G|0.976;A|0.024	0.024	strong	.	TMEM132A	135	.	NM_178031	exon4	c.G833A	p.R278Q	TGCTTCGGCACAA	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96506633	96506633	+	Missense_Mutation	SNP	C	C	T	rs145358686	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	156.0	78.0	175.0	0.0	0.5	0	C|0.997;T|0.003	0.003	strong	.	UGGT2	127	.	NM_020121	exon35	c.G4105A	p.G1369R	GATATCCATCCAT	.	PASS	Atlas-SNP
USP48	84196	hgsc.bcm.edu	37	1	22084201	22084201	+	Silent	SNP	A	A	G	rs150521027	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	89.0	47.0	120.0	0.0	0.52809	0	A|0.996;G|0.004	0.004	strong	.	USP48	91	.	NM_001032730	exon2	c.T210C	p.N70N	AAAACTATTTTCA	.	PASS	Atlas-SNP
PANK4	55229	hgsc.bcm.edu	37	1	2445832	2445832	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	79.0	44.0	66.0	0.0	0.556962	0	.	.	none	.	PANK4	64	.	NM_018216	exon11	c.A1448G	p.K483R	CAGTACTTCTGCC	.	PASS	Atlas-SNP
TPR	7175	hgsc.bcm.edu	37	1	186314809	186314809	+	Missense_Mutation	SNP	G	G	A	rs200209324	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	72.0	35.0	64.0	0.0	0.486111	0	G|0.998;A|0.002	0.002	strong	.	TPR	441	.	NM_003292	exon24	c.C3116T	p.T1039I	GAAAGTGTTTTCT	.	PASS	Atlas-SNP
SNW1	22938	hgsc.bcm.edu	37	14	78205189	78205189	+	Silent	SNP	T	T	C	rs147154490	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	168.0	70.0	140.0	0.0	0.416667	0	T|0.999;C|0.001	0.001	strong	.	SNW1	44	.	NM_012245	exon5	c.A465G	p.V155V	CTGTGATACAGAT	.	PASS	Atlas-SNP
PRDM16	63976	hgsc.bcm.edu	37	1	3102852	3102852	+	Silent	SNP	G	G	A	rs199614349	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	240.0	123.0	198.0	0.0	0.5125	0	G|0.989;A|0.011	0.011	strong	.	PRDM16	147	.	NM_022114	exon2	c.G201A	p.P67P	CTCGCCGTACGAG	.	PASS	Atlas-SNP
CC2D1A	54862	hgsc.bcm.edu	37	19	14024269	14024269	+	Missense_Mutation	SNP	C	C	T	rs61740117	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	56.0	87.0	0.0	0.523364	0	C|0.995;T|0.005	0.005	strong	.	CC2D1A	67	.	NM_017721	exon6	c.C566T	p.A189V	ACGAAGCGGACAT	.	PASS	Atlas-SNP
SMU1	55234	hgsc.bcm.edu	37	9	33071879	33071879	+	Silent	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	122.0	51.0	113.0	0.0	0.418033	0	.	.	none	.	SMU1	29	.	NM_018225	exon3	c.A249G	p.E83E	TATCAATTCCAGA	.	PASS	Atlas-SNP
AURKAIP1	54998	hgsc.bcm.edu	37	1	1309803	1309803	+	Silent	SNP	G	G	A	rs9554		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	10.0	9.0	11.0	0.0	0.9	0	.	.	weak	.	AURKAIP1	12	.	NM_001127230	exon3	c.C75T	p.V25V	TCCAGAGACGGGC	.	PASS	Atlas-SNP
KRTAP5-1	387264	hgsc.bcm.edu	37	11	1605957	1605957	+	Missense_Mutation	SNP	C	C	T	rs151275365	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	163.0	57.0	142.0	0.0	0.349693	0	C|0.989;T|0.011	0.011	strong	.	KRTAP5-1	74	.	NM_001005922	exon1	c.G523A	p.G175R	AGCCCCCCTTGGA	.	PASS	Atlas-SNP
KIFC1	3833	hgsc.bcm.edu	37	6	33373341	33373341	+	Missense_Mutation	SNP	C	C	T	rs7770412	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	24.0	9.0	24.0	0.0	0.375	0	C|0.993;T|0.007	0.007	strong	.	KIFC1	47	.	NM_002263	exon7	c.C1469T	p.A490V	GCCGTGCAGGGCC	.	PASS	Atlas-SNP
LRRC8B	23507	hgsc.bcm.edu	37	1	90049577	90049577	+	Silent	SNP	C	C	T	rs140158391		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	64.0	4.0	50.0	0.0	0.0625	0	C|1.000;T|0.000	0.000	weak	.	LRRC8B	49	.	NM_015350	exon5	c.C1368T	p.P456P	GCTGCCCTCTGCA	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537288	88537288	+	Silent	SNP	C	C	T	rs368208607		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	175.0	9.0	217.0	0.0	0.0514286	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.C3474T	p.D1158D	CAGCGACAGCAGT	.	PASS	Atlas-SNP
C7orf29	113763	hgsc.bcm.edu	37	7	150027802	150027802	+	Silent	SNP	C	C	T	rs75555338	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	111.0	53.0	82.0	0.0	0.477477	0	C|0.990;T|0.010	0.010	strong	.	C7orf29	18	.	NM_138434	exon1	c.C309T	p.L103L	AGTCCTCGTGTAC	.	PASS	Atlas-SNP
CHL1	10752	hgsc.bcm.edu	37	3	361493	361493	+	Missense_Mutation	SNP	G	G	A	rs142251617	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	41.0	18.0	43.0	0.0	0.439024	0	G|0.990;A|0.010	0.010	strong	.	CHL1	242	.	NM_001253388	exon1	c.G34A	p.V12I	CTAATCGTATATC	.	PASS	Atlas-SNP
QRFP	347148	hgsc.bcm.edu	37	9	133768827	133768827	+	Silent	SNP	G	G	A	rs139926605	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	79.0	40.0	68.0	0.0	0.506329	0	G|0.998;A|0.002	0.002	strong	.	QRFP	14	.	NM_198180	exon1	c.C399T	p.F133F	CCGACCGAAGCGG	.	PASS	Atlas-SNP
VSIG4	11326	hgsc.bcm.edu	37	X	65253454	65253454	+	Missense_Mutation	SNP	C	C	A	rs41306131	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	135.0	134.0	139.0	1.0	0.992593	0.00719424	C|0.994;A|0.006	0.006	strong	.	VSIG4	54	.	NM_001100431	exon2	c.G274T	p.V92F	CTGGAACCTTGTG	.	PASS	Atlas-SNP
CPT1C	126129	hgsc.bcm.edu	37	19	50212024	50212024	+	Silent	SNP	C	C	T	rs61747405	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	108.0	63.0	91.0	0.0	0.583333	0	C|0.978;T|0.022	0.022	strong	.	CPT1C	93	.	NM_001199752	exon14	c.C1494T	p.D498D	AACAGACGGCCAC	.	PASS	Atlas-SNP
ZCCHC4	29063	hgsc.bcm.edu	37	4	25314478	25314478	+	Missense_Mutation	SNP	G	G	C	rs201763036	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	83.0	32.0	95.0	0.0	0.385542	0	G|0.999;C|0.001	0.001	strong	.	ZCCHC4	34	.	NM_024936	exon1	c.G47C	p.S16T	AGGGCAGCGCAGG	.	PASS	Atlas-SNP
SLC47A2	146802	hgsc.bcm.edu	37	17	19607432	19607432	+	Silent	SNP	C	C	T	rs34169093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	43.0	24.0	59.0	0.0	0.55814	0	C|0.935;T|0.065	0.065	strong	.	SLC47A2	61	.	NM_152908	exon11	c.G1077A	p.A359A	AGTATCCGCAGCC	.	PASS	Atlas-SNP
PRR5-ARHGAP8	553158	hgsc.bcm.edu	37	22	45258343	45258343	+	Silent	SNP	C	C	T	rs41278889	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	67.0	31.0	82.0	0.0	0.462687	0	C|0.995;T|0.005	0.005	strong	.	PRR5-ARHGAP8	53	.	NM_181334	exon15	c.C1536T	p.H512H	GGAGCACGGCCTG	.	PASS	Atlas-SNP
TOP3B	8940	hgsc.bcm.edu	37	22	22323003	22323003	+	Silent	SNP	C	C	A	rs114760416	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	104.0	44.0	109.0	0.0	0.423077	0	C|0.998;A|0.002	0.002	strong	.	TOP3B	107	.	NM_003935	exon7	c.G726T	p.V242V	CTGCAGCACCCAG	.	PASS	Atlas-SNP
SEZ6L2	26470	hgsc.bcm.edu	37	16	29899021	29899021	+	Missense_Mutation	SNP	C	C	T	rs117448844	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	62.0	137.0	0.0	0.54386	0	C|0.998;T|0.002	0.002	strong	SEZ6L2_ENST00000350527,NS,carcinoma,0,2	SEZ6L2	137	2	NM_001243332	exon7	c.G1157A	p.R386H	AGCCGGCGCCCCT	.	PASS	Atlas-SNP
EMR1	2015	hgsc.bcm.edu	37	19	6906469	6906469	+	Silent	SNP	T	T	C	rs78491083	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	259.0	130.0	254.0	0.0	0.50193	0	T|0.994;C|0.006	0.006	strong	EMR1,NS,carcinoma,+1,1	EMR1	153	1	NM_001256253	exon9	c.T975C	p.D325D	GGAAGATGTGATA	.	PASS	Atlas-SNP
ZNF57	126295	hgsc.bcm.edu	37	19	2917522	2917522	+	Silent	SNP	G	G	A	rs61754924	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	50.0	22.0	47.0	0.0	0.44	0	G|0.973;A|0.027	0.027	strong	.	ZNF57	57	.	NM_173480	exon4	c.G903A	p.T301T	GAAGACGCACACG	.	PASS	Atlas-SNP
KIAA0895	23366	hgsc.bcm.edu	37	7	36396735	36396735	+	Missense_Mutation	SNP	G	G	C	rs199774798	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	235.0	105.0	217.0	0.0	0.446809	0	.	.	weak	.	KIAA0895	89	.	NM_001100425	exon3	c.C643G	p.P215A	GCTTTGGAAGAGT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1537510	1537510	+	Silent	SNP	C	C	T	rs201970670	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	53.0	21.0	66.0	0.0	0.396226	0	C|0.997;T|0.003	0.003	strong	.	PTX4	46	.	NM_001013658	exon2	c.G588A	p.P196P	GGAGGTCGGGCCC	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97852443	97852443	+	Silent	SNP	C	C	T	rs61745947	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	96.0	50.0	118.0	0.0	0.520833	0	C|0.985;T|0.015	0.015	strong	.	TECPR1	77	.	NM_015395	exon21	c.G2787A	p.V929V	GGGGGGCACCTCC	.	PASS	Atlas-SNP
C10orf118	55088	hgsc.bcm.edu	37	10	115905428	115905428	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	156.0	91.0	144.0	0.0	0.583333	0	.	.	none	.	C10orf118	70	.	NM_018017	exon5	c.G981T	p.K327N	TTTTTCCTTTCGA	.	PASS	Atlas-SNP
CNTD2	79935	hgsc.bcm.edu	37	19	40732484	40732484	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	73.0	40.0	69.0	0.0	0.547945	0	.	.	none	.	CNTD2	22	.	NM_024877	exon1	c.C65A	p.A22D	CTGGGGGCCCAGC	.	PASS	Atlas-SNP
NLRP8	126205	hgsc.bcm.edu	37	19	56467167	56467167	+	Silent	SNP	C	C	T	rs375534172		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	150.0	58.0	115.0	0.0	0.386667	0	.	.	weak	.	NLRP8	225	.	NM_176811	exon3	c.C1743T	p.F581F	GTCTTTCGGTAAT	.	PASS	Atlas-SNP
KBTBD6	89890	hgsc.bcm.edu	37	13	41705110	41705110	+	Missense_Mutation	SNP	T	T	C	rs200203929		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	52.0	117.0	0.0	0.485981	0	T|0.999;C|0.001	0.001	weak	.	KBTBD6	83	.	NM_152903	exon1	c.A1538G	p.N513S	AAGTCATTGCGCT	.	PASS	Atlas-SNP
PLK4	10733	hgsc.bcm.edu	37	4	128811038	128811038	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	122.0	61.0	158.0	0.0	0.5	0	.	.	none	.	PLK4	65	.	NM_014264	exon7	c.A1477G	p.T493A	AAAACTACTGAAT	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364431	5364431	+	Silent	SNP	G	G	A	rs58233587	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	39.0	18.0	31.0	0.0	0.461538	0	G|0.886;A|0.114	0.114	strong	OR51B5,NS,carcinoma,-1,1	OR51B5	60	1	NM_001005567	exon5	c.C324T	p.L108L	AGACTCGAGAAAG	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085592	17085592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	27.0	105.0	0.0	0.236842	0	.	.	none	.	.	.	.	NM_001271733	exon9	c.C1129T	p.R377C	ACCAGCGCTGGCA	.	PASS	Atlas-SNP
SPHK1	8877	hgsc.bcm.edu	37	17	74383648	74383648	+	Missense_Mutation	SNP	C	C	T	rs56341546	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	27.0	15.0	19.0	0.0	0.555556	0	C|0.994;T|0.006	0.006	strong	.	SPHK1	24	.	NM_182965	exon6	c.C1394T	p.P465L	TGCCACCGCCAGA	.	PASS	Atlas-SNP
EP300	2033	hgsc.bcm.edu	37	22	41542753	41542753	+	Silent	SNP	A	A	G	rs61756763	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	43.0	24.0	32.0	0.0	0.55814	0	A|0.997;G|0.003	0.003	strong	.	EP300	367	.	NM_001429	exon11	c.A2064G	p.L688L	CCCTCTACCTGAC	.	PASS	Atlas-SNP
ZFP69B	65243	hgsc.bcm.edu	37	1	40929087	40929087	+	Silent	SNP	C	C	T	rs142494383	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	73.0	33.0	93.0	0.0	0.452055	0	C|0.991;T|0.009	0.009	strong	.	.	.	.	NM_023070	exon5	c.C1431T	p.C477C	TGAATGCAGTCAT	.	PASS	Atlas-SNP
SHMT2	6472	hgsc.bcm.edu	37	12	57624701	57624701	+	Missense_Mutation	SNP	C	C	T	rs73338162	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	241.0	108.0	225.0	1.0	0.448133	0.00444444	C|0.970;T|0.030	0.030	strong	.	SHMT2	40	.	NM_005412	exon2	c.C149T	p.S50L	GCCTGTCGGACAG	.	PASS	Atlas-SNP
INHA	3623	hgsc.bcm.edu	37	2	220439634	220439634	+	Missense_Mutation	SNP	G	G	A	rs149916845	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	147.0	74.0	133.0	0.0	0.503401	0	G|0.998;A|0.002	0.002	strong	INHA,NS,carcinoma,-1,1	INHA	30	1	NM_002191	exon2	c.G487A	p.V163M	GGACCCGTGGCTG	.	PASS	Atlas-SNP
KIAA0195	9772	hgsc.bcm.edu	37	17	73493217	73493217	+	Silent	SNP	G	G	A	rs372068615		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	144.0	62.0	138.0	0.0	0.430556	0	.	.	weak	.	KIAA0195	102	.	NM_014738	exon26	c.G3345A	p.L1115L	CCAGCTGCCGCCA	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104640098	104640098	+	Silent	SNP	G	G	A	rs61745565	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	64.0	64.0	23.0	0.0	1	0	G|0.981;A|0.019	0.019	strong	.	KIF26A	84	.	NM_015656	exon10	c.G1923A	p.A641A	GGCGGCGGCTGGC	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56405046	56405046	+	Missense_Mutation	SNP	C	C	T	rs61743284	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	76.0	37.0	88.0	0.0	0.486842	0	C|0.982;T|0.018	0.018	strong	.	BZRAP1	287	.	NM_024418	exon1	c.G236A	p.G79E	TCTGCTCCTTCAG	.	PASS	Atlas-SNP
WFIKKN2	124857	hgsc.bcm.edu	37	17	48917384	48917384	+	Silent	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	113.0	46.0	105.0	0.0	0.40708	0	.	.	none	.	WFIKKN2	69	.	NM_175575	exon2	c.G735A	p.K245K	GGAGAAGCAGTTG	.	PASS	Atlas-SNP
EPYC	1833	hgsc.bcm.edu	37	12	91363909	91363909	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	47.0	85.0	0.0	0.516484	0	.	.	none	.	EPYC	35	.	NM_004950	exon6	c.A710G	p.Y237C	AGATCATACATGT	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	124201699	124201699	+	Silent	SNP	C	C	T	rs61740058	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	169.0	88.0	210.0	0.0	0.52071	0	C|0.979;T|0.021	0.021	strong	.	KALRN	556	.	NM_003947	exon28	c.C4230T	p.Y1410Y	TTCCTACCTAATT	.	PASS	Atlas-SNP
CPNE8	144402	hgsc.bcm.edu	37	12	39299249	39299249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	63.0	27.0	66.0	0.0	0.428571	0	.	.	none	.	CPNE8	66	.	NM_153634	exon1	c.G88A	p.V30M	AGGACACGGACAC	.	PASS	Atlas-SNP
SLC4A2	6522	hgsc.bcm.edu	37	7	150768280	150768280	+	Missense_Mutation	SNP	G	G	A	rs201086697		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	48.0	132.0	0.0	0.45283	0	.	.	weak	SLC4A2,NS,carcinoma,0,1	SLC4A2	98	1	NM_003040	exon13	c.G1871A	p.R624H	TGCTGCGCTCTGT	.	PASS	Atlas-SNP
CRYBG3	131544	hgsc.bcm.edu	37	3	97634465	97634465	+	Missense_Mutation	SNP	A	A	G	rs17302349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	57.0	126.0	0.0	0.456	0	A|0.994;G|0.006	0.006	strong	.	CRYBG3	86	.	NM_153605	exon17	c.A8126G	p.Y2709C	TCCTCTATTACCA	.	PASS	Atlas-SNP
ANKRD52	283373	hgsc.bcm.edu	37	12	56638455	56638455	+	Silent	SNP	G	G	A	rs201117129	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	180.0	112.0	189.0	0.0	0.622222	0	G|0.998;A|0.002	0.002	strong	.	ANKRD52	81	.	NM_173595	exon24	c.C2703T	p.N901N	CTGCCCGTTCTCA	.	PASS	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	37	5	7893005	7893005	+	Silent	SNP	C	C	T	rs34172797	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	81.0	39.0	82.0	0.0	0.481481	0	C|0.981;T|0.019	0.019	strong	.	MTRR	74	.	NM_024010	exon11	c.C1617T	p.S539S	AGACAGCGGGAAA	.	PASS	Atlas-SNP
FAM86B1	85002	hgsc.bcm.edu	37	8	12044264	12044264	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	559.0	35.0	533.0	0.0	0.0626118	0	.	.	none	FAM86B1,NS,carcinoma,+2,1	FAM86B1	7	1	NM_001083537	exon4	c.G319A	p.A107T	GGGCGGCATCCCA	.	scavenged	Atlas-SNP
PPP2R1B	5519	hgsc.bcm.edu	37	11	111608216	111608216	+	Missense_Mutation	SNP	T	T	A	rs61756429	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	85.0	36.0	85.0	0.0	0.423529	0	T|0.992;A|0.008	0.008	strong	.	PPP2R1B	44	.	NM_181699	exon15	c.A1867T	p.N623Y	AGTGGTTCTTGTC	.	PASS	Atlas-SNP
ZGPAT	84619	hgsc.bcm.edu	37	20	62339959	62339959	+	Silent	SNP	C	C	G	rs148155917	alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	111.0	57.0	109.0	0.0	0.513514	0	C|1.000;T|0.000	.	alt	.	ZGPAT	57	.	NM_032527	exon2	c.C27G	p.A9A	GTCGGCCTTGCAG	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55268916	55268916	+	Silent	SNP	C	C	T	rs2293347	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	158.0	72.0	135.0	0.0	0.455696	0	C|0.894;T|0.106	0.106	strong	.	EGFR	20426	.	NM_005228	exon25	c.C2982T	p.D994D	TACAGACTCCAAC	.	PASS	Atlas-SNP
KRT20	54474	hgsc.bcm.edu	37	17	39037000	39037000	+	Missense_Mutation	SNP	G	G	A	rs143378689	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	38.0	93.0	0.0	0.475	0	G|0.996;A|0.004	0.004	strong	.	KRT20	38	.	NM_019010	exon3	c.C496T	p.R166C	TTAGACGTATTCC	.	PASS	Atlas-SNP
CDC42EP4	23580	hgsc.bcm.edu	37	17	71282132	71282132	+	Missense_Mutation	SNP	C	C	T	rs375486831		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	141.0	68.0	110.0	0.0	0.482269	0	.	.	weak	CDC42EP4,colon,carcinoma,0,1	CDC42EP4	19	1	NM_012121	exon2	c.G508A	p.A170T	GACCCGCGGCCCC	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104162272	104162272	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	63.0	26.0	78.0	0.0	0.412698	0	.	.	none	ZNF189,NS,carcinoma,+1,1	ZNF189	79	1	NM_003452	exon2	c.A140G	p.Y47C	AGAATTATGGAAA	.	PASS	Atlas-SNP
KIF16B	55614	hgsc.bcm.edu	37	20	16352344	16352344	+	Missense_Mutation	SNP	C	C	T	rs75989969	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	155.0	80.0	123.0	0.0	0.516129	0	C|0.989;T|0.011	0.011	strong	.	KIF16B	305	.	NM_001199866	exon21	c.G3413A	p.S1138N	CCTTCACTAATCA	.	PASS	Atlas-SNP
DOCK3	1795	hgsc.bcm.edu	37	3	51386357	51386357	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	120.0	63.0	114.0	0.0	0.525	0	.	.	none	.	DOCK3	397	.	NM_004947	exon39	c.C3990T	p.L1330L	GAGCCTCAGCTGG	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890153	7890153	+	Missense_Mutation	SNP	C	C	T	rs144178755	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	141.0	74.0	97.0	0.0	0.524823	0	C|0.998;T|0.002	0.002	strong	.	PER3	95	.	NM_016831	exon18	c.C3119T	p.T1040I	ATCCTACTGCCAC	.	PASS	Atlas-SNP
SLC25A10	1468	hgsc.bcm.edu	37	17	79686879	79686879	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	157.0	75.0	128.0	0.0	0.477707	0	.	.	none	SLC25A10,NS,carcinoma,0,1	SLC25A10	24	1	NM_001270888	exon10	c.G751A	p.V251M	TGCGCCGTGGAGA	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129833568	129833568	+	Missense_Mutation	SNP	C	C	A	rs145842163	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	172.0	78.0	149.0	0.0	0.453488	0	C|1.000;A|0.000	0.000	strong	.	LAMA2	481	.	NM_000426	exon63	c.C8918A	p.T2973K	CTACAACGACTGG	.	PASS	Atlas-SNP
ZKSCAN3	80317	hgsc.bcm.edu	37	6	28331573	28331573	+	Missense_Mutation	SNP	T	T	A	rs213227	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	77.0	34.0	75.0	0.0	0.441558	0	T|0.958;A|0.042	0.042	strong	.	ZKSCAN3	50	.	NM_024493	exon5	c.T738A	p.H246Q	GAACCATGGCAGC	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204417	56204417	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	43.0	143.0	0.0	0.472527	0	.	.	none	.	ALPK2	487	.	NM_052947	exon5	c.C3002T	p.A1001V	CTGGTCGCTTGAA	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	37	17	48745035	48745035	+	Silent	SNP	A	A	C	rs11568601	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	54.0	24.0	71.0	0.0	0.444444	0	A|0.984;C|0.016	0.016	strong	.	ABCC3	138	.	NM_003786	exon12	c.A1552C	p.R518R	GGCATCAGGCAGG	.	PASS	Atlas-SNP
AGTR1	185	hgsc.bcm.edu	37	3	148459129	148459129	+	Missense_Mutation	SNP	A	A	T	rs201745152		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	42.0	17.0	28.0	0.0	0.404762	0	A|0.999;T|0.001	0.001	weak	.	AGTR1	63	.	NM_031850	exon4	c.A412T	p.I138F	TGTAAGATTGCTT	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	738503	738503	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	118.0	52.0	134.0	0.0	0.440678	0	.	.	none	.	KANK1	231	.	NM_001256876	exon12	c.C3552T	p.A1184A	AGATGCCGGTATG	.	PASS	Atlas-SNP
FKBP10	60681	hgsc.bcm.edu	37	17	39976713	39976713	+	Missense_Mutation	SNP	C	C	T	rs146422412	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	43.0	72.0	0.0	0.472527	0	C|0.999;T|0.001	0.001	strong	.	FKBP10	57	.	NM_021939	exon7	c.C1256T	p.S419L	TCACCTCGTGGGT	.	PASS	Atlas-SNP
SHROOM4	57477	hgsc.bcm.edu	37	X	50350751	50350751	+	Missense_Mutation	SNP	G	G	C	rs201290098		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	52.0	6.0	66.0	0.0	0.115385	0	.	.	weak	.	SHROOM4	171	.	NM_020717	exon6	c.C3391G	p.Q1131E	CCTCCTGTTGCTT	.	PASS	Atlas-SNP
ZNF230	7773	hgsc.bcm.edu	37	19	44514422	44514422	+	Silent	SNP	C	C	T	rs146185685	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	84.0	40.0	95.0	0.0	0.47619	0	C|1.000;T|0.000	0.000	weak	.	ZNF230	44	.	NM_006300	exon5	c.C231T	p.G77G	TATAGGCGGCAAG	.	PASS	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10720305	10720305	+	Missense_Mutation	SNP	A	A	G	rs138985539	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	23.0	11.0	31.0	0.0	0.478261	0	A|0.994;G|0.006	0.006	strong	.	CASZ1	150	.	NM_001079843	exon6	c.T794C	p.V265A	TTGCCCACCCGCT	.	PASS	Atlas-SNP
GPBP1L1	60313	hgsc.bcm.edu	37	1	46105889	46105889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	93.0	45.0	78.0	0.0	0.483871	0	.	.	none	.	GPBP1L1	43	.	NM_021639	exon8	c.C737T	p.P246L	TTGGAAGGAGGTG	.	PASS	Atlas-SNP
PCOLCE2	26577	hgsc.bcm.edu	37	3	142548681	142548681	+	Missense_Mutation	SNP	C	C	T	rs140721173	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	64.0	34.0	55.0	0.0	0.53125	0	C|0.999;T|0.001	0.001	strong	.	PCOLCE2	63	.	NM_013363	exon6	c.G718A	p.V240M	CAGACACAATTGG	.	PASS	Atlas-SNP
SLC6A1	6529	hgsc.bcm.edu	37	3	11064091	11064091	+	Silent	SNP	G	G	A	rs6344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	104.0	59.0	101.0	0.0	0.567308	0	A|0.000;G|0.954;T|0.046	0.000	strong	.	SLC6A1	88	.	NM_003042	exon7	c.G651A	p.T217T	CATCACGCTGGCC	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	37	11	56000079	56000079	+	Missense_Mutation	SNP	C	C	T	rs77295387	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	255.0	118.0	207.0	0.0	0.462745	0	C|0.981;T|0.019	0.019	strong	.	OR5T2	107	.	NM_001004746	exon1	c.G583A	p.A195T	TAGTAGCATGTAA	.	PASS	Atlas-SNP
BNIP1	662	hgsc.bcm.edu	37	5	172581387	172581387	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	240.0	119.0	206.0	0.0	0.495833	0	.	.	none	.	BNIP1	30	.	NM_013979	exon4	c.A369G	p.E123E	CCAGGAAGTGGAG	.	PASS	Atlas-SNP
C1orf106	55765	hgsc.bcm.edu	37	1	200867572	200867572	+	Missense_Mutation	SNP	T	T	A	rs41269923	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	83.0	49.0	69.0	0.0	0.590361	0	T|0.993;A|0.007	0.007	strong	.	C1orf106	59	.	NM_018265	exon2	c.T341A	p.I114N	GCATCATCCTGCA	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108141988	108141988	+	Missense_Mutation	SNP	T	T	C	rs139552233	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	75.0	35.0	79.0	1.0	0.466667	0.0126582	T|1.000;C|0.000	0.000	strong	ATM_ENST00000278616,colon,carcinoma,-2,5	ATM	1657	5	NM_000051	exon20	c.T2932C	p.S978P	GTGTGTTCTTTGT	.	scavenged	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	33842400	33842400	+	Silent	SNP	A	A	T	rs41279202	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	103.0	46.0	66.0	0.0	0.446602	0	A|0.970;T|0.030	0.030	strong	.	RYR3	760	.	NM_001243996	exon10	c.A855T	p.R285R	TTTCCGACTCCGG	.	PASS	Atlas-SNP
TMEM216	51259	hgsc.bcm.edu	37	11	61161359	61161359	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	231.0	91.0	200.0	0.0	0.393939	0	.	.	none	.	TMEM216	14	.	NM_001173990	exon3	c.T140C	p.V47A	CAGGTGTCCTGCT	.	PASS	Atlas-SNP
UNC45A	55898	hgsc.bcm.edu	37	15	91496233	91496233	+	Missense_Mutation	SNP	G	G	A	rs149872991	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	49.0	27.0	42.0	0.0	0.55102	0	G|1.000;A|0.000	0.000	strong	.	UNC45A	57	.	NM_018671	exon18	c.G2378A	p.R793Q	TCCGCCGGGCAGC	.	PASS	Atlas-SNP
IL1R1	3554	hgsc.bcm.edu	37	2	102781629	102781629	+	Silent	SNP	G	G	A	rs3917286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	186.0	89.0	198.0	0.0	0.478495	0	G|0.984;A|0.016	0.016	strong	.	IL1R1	52	.	NM_000877	exon4	c.G351A	p.E117E	GAATGAGCCTAAC	.	PASS	Atlas-SNP
ZSCAN22	342945	hgsc.bcm.edu	37	19	58849789	58849789	+	Silent	SNP	G	G	A	rs368211476	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	59.0	113.0	0.0	0.487603	0	.	.	weak	ZSCAN22,NS,carcinoma,+1,1	ZSCAN22	47	1	NM_181846	exon3	c.G573A	p.G191G	ATCAGGGGAGATC	.	PASS	Atlas-SNP
IL12B	3593	hgsc.bcm.edu	37	5	158750329	158750329	+	Missense_Mutation	SNP	C	C	T	rs3213096	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	65.0	34.0	45.0	0.0	0.523077	0	C|0.994;T|0.006	0.006	strong	.	IL12B	30	.	NM_002187	exon3	c.G97A	p.V33I	ATTCTACGACATA	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29221584	29221584	+	Missense_Mutation	SNP	A	A	G	rs114345202	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	42.0	21.0	44.0	0.0	0.5	0	A|0.994;G|0.006	0.006	strong	.	ATAD5	150	.	NM_024857	exon22	c.A5300G	p.N1767S	ACAGCAATGCTTG	.	PASS	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	37	19	55143395	55143395	+	Missense_Mutation	SNP	T	T	G	rs370374304		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	109.0	46.0	99.0	0.0	0.422018	0	.	.	weak	.	LILRB1	140	.	NM_001081637	exon5	c.T368G	p.I123S	CCTACATCAAACC	.	PASS	Atlas-SNP
ABCA3	21	hgsc.bcm.edu	37	16	2327929	2327929	+	Silent	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	98.0	44.0	78.0	0.0	0.44898	0	.	.	none	.	ABCA3	176	.	NM_001089	exon31	c.A4860G	p.Q1620Q	CTCCTGTTGCCCT	.	PASS	Atlas-SNP
CDH9	1007	hgsc.bcm.edu	37	5	26885964	26885964	+	Silent	SNP	T	T	G	rs35328154	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	60.0	28.0	67.0	0.0	0.466667	0	T|0.992;G|0.008	0.008	strong	.	CDH9	305	.	NM_016279	exon11	c.A1641C	p.A547A	GATTCCTGCTGTA	.	PASS	Atlas-SNP
HSD3B2	3284	hgsc.bcm.edu	37	1	119964933	119964933	+	Missense_Mutation	SNP	T	T	C	rs75429891	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	170.0	72.0	154.0	0.0	0.423529	0	T|1.000;C|0.000	0.000	strong	.	HSD3B2	48	.	NM_001166120	exon4	c.T809C	p.I270T	ATTACATCCTGAG	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18379640	18379640	+	Silent	SNP	C	C	T	rs61739477	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	67.0	34.0	64.0	0.0	0.507463	0	C|0.987;T|0.013	0.013	strong	.	MICAL3	53	.	NM_015241	exon8	c.G1056A	p.P352P	CAGAGACGGCAGC	.	PASS	Atlas-SNP
VPS52	6293	hgsc.bcm.edu	37	6	33234454	33234454	+	Silent	SNP	G	G	A	rs34933266	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	83.0	45.0	86.0	0.0	0.542169	0	G|0.994;A|0.006	0.006	strong	.	VPS52	56	.	NM_022553	exon12	c.C1161T	p.Y387Y	GAGGGCGTAGTGC	.	PASS	Atlas-SNP
SHANK2	22941	hgsc.bcm.edu	37	11	70331716	70331716	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	153.0	76.0	147.0	0.0	0.496732	0	.	.	none	.	SHANK2	340	.	NM_133266	exon10	c.C2918G	p.A973G	TAAAGTGCATTGC	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43571347	43571347	+	Silent	SNP	G	G	A	rs35422033	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	166.0	87.0	167.0	0.0	0.524096	0	G|0.983;A|0.017	0.017	strong	.	THADA	131	.	NM_001083953	exon30	c.C4257T	p.D1419D	TTTGGAGTCTGAG	.	PASS	Atlas-SNP
S100P	6286	hgsc.bcm.edu	37	4	6698664	6698664	+	Silent	SNP	G	G	A	rs11737783	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	172.0	80.0	213.0	0.0	0.465116	0	G|0.972;A|0.028	0.028	strong	.	S100P	7	.	NM_005980	exon2	c.G183A	p.L61L	GGACCTGGATGCC	.	PASS	Atlas-SNP
RNF112	7732	hgsc.bcm.edu	37	17	19319353	19319353	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	47.0	26.0	60.0	0.0	0.553191	0	.	.	none	.	RNF112	37	.	NM_007148	exon14	c.C1761T	p.A587A	AGCTGCCGTGGGG	.	PASS	Atlas-SNP
SLURP1	57152	hgsc.bcm.edu	37	8	143823241	143823241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	53.0	26.0	56.0	0.0	0.490566	0	.	.	none	SLURP1,NS,carcinoma,0,1	SLURP1	16	1	NM_020427	exon2	c.C158T	p.T53M	ACCAGCGTGGTCA	.	PASS	Atlas-SNP
GCNT4	51301	hgsc.bcm.edu	37	5	74325101	74325101	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	106.0	52.0	103.0	0.0	0.490566	0	.	.	none	GCNT4,NS,carcinoma,-2,1	GCNT4	46	1	NM_016591	exon1	c.G762A	p.T254T	TTTCACCGTCTCC	.	PASS	Atlas-SNP
KLHL28	54813	hgsc.bcm.edu	37	14	45403616	45403616	+	Missense_Mutation	SNP	T	T	C	rs35728857	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	140.0	65.0	155.0	0.0	0.464286	0	T|0.997;C|0.003	0.003	strong	.	KLHL28	53	.	NM_017658	exon3	c.A1045G	p.I349V	TTCTGATAGTGAC	.	PASS	Atlas-SNP
E2F3	1871	hgsc.bcm.edu	37	6	20490428	20490428	+	Missense_Mutation	SNP	G	G	A	rs4134982	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	137.0	57.0	176.0	0.0	0.416058	0	G|0.993;A|0.007	0.007	strong	E2F3,NS,carcinoma,-2,1	E2F3	30	1	NM_001949	exon7	c.G1165A	p.D389N	CATAGCGATTGCT	.	PASS	Atlas-SNP
KDM5C	8242	hgsc.bcm.edu	37	X	53223819	53223819	+	Silent	SNP	C	C	T	rs76525703	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	279.0	278.0	245.0	1.0	0.996416	0.00408163	C|0.996;T|0.004	0.004	strong	.	KDM5C	385	.	NM_004187	exon23	c.G3540A	p.T1180T	GGAGGCCGTGCTC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105412335	105412335	+	Silent	SNP	C	C	T	rs202104959	byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	21.0	4.0	291.0	0.0	0.190476	0	C|0.963;T|0.037	0.037	strong	AHNAK2_ENST00000333244,NS,carcinoma,0,2	AHNAK2	719	2	NM_138420	exon7	c.G9453A	p.P3151P	GAACGACGGCATC	.	scavenged	Atlas-SNP
CNNM4	26504	hgsc.bcm.edu	37	2	97465379	97465379	+	Missense_Mutation	SNP	C	C	T	rs144495984	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	174.0	84.0	161.0	0.0	0.482759	0	C|1.000;T|0.000	0.000	weak	.	CNNM4	48	.	NM_020184	exon5	c.C1942T	p.P648S	TCGGTCCCCTCCG	.	PASS	Atlas-SNP
SLCO6A1	133482	hgsc.bcm.edu	37	5	101815888	101815888	+	Silent	SNP	T	T	C	rs150189521	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	69.0	31.0	73.0	0.0	0.449275	0	T|0.994;C|0.006	0.006	strong	.	SLCO6A1	153	.	NM_173488	exon2	c.A609G	p.G203G	TTCAATTCCTACC	.	PASS	Atlas-SNP
KRT82	3888	hgsc.bcm.edu	37	12	52788814	52788814	+	Missense_Mutation	SNP	C	C	T	rs61730587	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	65.0	138.0	1.0	0.52	0.00724638	C|0.991;T|0.009	0.009	strong	KRT82,NS,carcinoma,-1,1	KRT82	45	1	NM_033033	exon9	c.G1487A	p.R496Q	GATTTCCGCCCGC	.	scavenged	Atlas-SNP
VSIG4	11326	hgsc.bcm.edu	37	X	65242157	65242157	+	Missense_Mutation	SNP	G	G	A	rs41307375	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	139.0	138.0	132.0	0.0	0.992806	0	G|0.994;A|0.006	0.006	strong	.	VSIG4	54	.	NM_007268	exon8	c.C1148T	p.T383I	GGAACTGTGTCCA	.	PASS	Atlas-SNP
SLC38A8	146167	hgsc.bcm.edu	37	16	84050776	84050776	+	Missense_Mutation	SNP	T	T	C	rs142821762	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	77.0	51.0	56.0	0.0	0.662338	0	T|1.000;C|0.000	0.000	strong	.	SLC38A8	60	.	NM_001080442	exon7	c.A922G	p.T308A	AGACAGTTACGAT	.	PASS	Atlas-SNP
TONSL	4796	hgsc.bcm.edu	37	8	145657840	145657840	+	Missense_Mutation	SNP	G	G	A	rs146566654	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	55.0	113.0	0.0	0.482456	0	G|1.000;A|0.000	0.000	strong	.	TONSL	128	.	NM_013432	exon23	c.C3563T	p.A1188V	TGCTCAGCATCTG	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44248783	44248783	+	Missense_Mutation	SNP	G	G	T	rs142096969	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	354.0	110.0	331.0	0.0	0.310734	0	G|0.998;T|0.002	0.002	strong	KIAA1267,NS,carcinoma,0,1	.	.	1	NM_001193466	exon2	c.C727A	p.Q243K	TTCCTTGAAGTGC	.	PASS	Atlas-SNP
RRP9	9136	hgsc.bcm.edu	37	3	51969389	51969389	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	95.0	40.0	91.0	0.0	0.421053	0	.	.	none	.	RRP9	40	.	NM_004704	exon10	c.G940A	p.E314K	ACTCCTCGGGGAT	.	PASS	Atlas-SNP
FAM89A	375061	hgsc.bcm.edu	37	1	231155682	231155682	+	Missense_Mutation	SNP	C	C	T	rs141463019	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	47.0	75.0	0.0	0.516484	0	C|0.999;T|0.001	0.001	strong	.	FAM89A	8	.	NM_198552	exon2	c.G482A	p.R161Q	GGGCCTCGGTCCC	.	PASS	Atlas-SNP
ATG4B	23192	hgsc.bcm.edu	37	2	242606080	242606080	+	Missense_Mutation	SNP	G	G	A	rs35613684	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	131.0	65.0	153.0	0.0	0.496183	0	G|0.998;A|0.002	0.002	strong	.	ATG4B	35	.	NM_178326	exon8	c.G559A	p.V187I	ACCAGCGTTCCCT	.	PASS	Atlas-SNP
GPRC5C	55890	hgsc.bcm.edu	37	17	72436949	72436949	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	38.0	18.0	34.0	0.0	0.473684	0	.	.	none	.	GPRC5C	92	.	NM_022036	exon2	c.T1169C	p.M390T	TTTCCATGGATGA	.	PASS	Atlas-SNP
ARHGAP9	64333	hgsc.bcm.edu	37	12	57867907	57867907	+	Silent	SNP	G	G	A	rs61754174	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	56.0	23.0	74.0	0.0	0.410714	0	G|0.994;A|0.006	0.006	strong	.	ARHGAP9	79	.	NM_001080157	exon15	c.C1836T	p.T612T	GGCTCCGGTGACC	.	PASS	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	37	17	8416982	8416982	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	61.0	26.0	57.0	0.0	0.42623	0	.	.	none	.	MYH10	148	.	NM_001256012	exon23	c.G2619A	p.K873K	AAGCGGCTTCACC	.	PASS	Atlas-SNP
FRMD7	90167	hgsc.bcm.edu	37	X	131212944	131212944	+	Silent	SNP	A	A	G	rs7051368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	42.0	42.0	41.0	0.0	1	0	A|0.911;G|0.089	0.089	strong	.	FRMD7	69	.	NM_194277	exon12	c.T1101C	p.N367N	CACTCCATTCACA	.	PASS	Atlas-SNP
KRT72	140807	hgsc.bcm.edu	37	12	52992743	52992743	+	Missense_Mutation	SNP	C	C	T	rs142970524	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	215.0	110.0	193.0	0.0	0.511628	0	C|0.999;T|0.001	0.001	strong	.	KRT72	70	.	NM_001146225	exon2	c.G580A	p.G194R	TCACCCCGTCCCC	.	PASS	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103205779	103205779	+	Missense_Mutation	SNP	G	G	A	rs115913736	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	45.0	127.0	0.0	0.409091	0	G|0.994;A|0.006	0.006	strong	RELN,NS,lymphoid_neoplasm,+1,1	RELN	593	1	NM_173054	exon34	c.C5156T	p.S1719L	CTTTCCGAGGTGT	.	PASS	Atlas-SNP
NUP37	79023	hgsc.bcm.edu	37	12	102494849	102494849	+	Silent	SNP	T	T	C	rs17438178	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	144.0	62.0	163.0	0.0	0.430556	0	T|0.976;C|0.024	0.024	strong	.	NUP37	26	.	NM_024057	exon3	c.A315G	p.R105R	AAATAATCTAATT	.	PASS	Atlas-SNP
ZNF57	126295	hgsc.bcm.edu	37	19	2917509	2917509	+	Missense_Mutation	SNP	G	G	A	rs61754927	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	48.0	20.0	44.0	0.0	0.416667	0	G|0.974;A|0.026	0.026	strong	.	ZNF57	57	.	NM_173480	exon4	c.G890A	p.R297K	TTCAAAGACATGA	.	PASS	Atlas-SNP
TRPC4	7223	hgsc.bcm.edu	37	13	38237564	38237564	+	Silent	SNP	A	A	G	rs75514550	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	148.0	91.0	168.0	0.0	0.614865	0	A|0.988;G|0.012	0.012	strong	.	TRPC4	389	.	NM_003306	exon6	c.T1677C	p.N559N	AAATGCATTATTC	.	PASS	Atlas-SNP
TMPRSS11F	389208	hgsc.bcm.edu	37	4	68925094	68925094	+	Missense_Mutation	SNP	G	G	A	rs142412240	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	201.0	87.0	177.0	0.0	0.432836	0	G|0.999;A|0.001	0.001	strong	.	TMPRSS11F	79	.	NM_207407	exon9	c.C1108T	p.P370S	TTCCTGGAGTTAT	.	PASS	Atlas-SNP
ZNF101	94039	hgsc.bcm.edu	37	19	19790690	19790690	+	Missense_Mutation	SNP	C	C	T	rs35358946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	50.0	23.0	39.0	0.0	0.46	0	C|0.994;T|0.006	0.006	strong	.	ZNF101	43	.	NM_033204	exon4	c.C892T	p.H298Y	TCCCTTCACAGAC	.	PASS	Atlas-SNP
PHF2	5253	hgsc.bcm.edu	37	9	96436037	96436037	+	Missense_Mutation	SNP	G	G	A	rs41276200	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	150.0	75.0	119.0	0.0	0.5	0	G|0.990;A|0.010	0.010	strong	.	PHF2	113	.	NM_005392	exon18	c.G2519A	p.S840N	GCAAGAGTGCAGG	.	PASS	Atlas-SNP
PHF2	5253	hgsc.bcm.edu	37	9	96411414	96411414	+	Silent	SNP	G	G	A	rs16912641	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	194.0	81.0	201.0	0.0	0.417526	0	G|0.954;A|0.046	0.046	strong	.	PHF2	113	.	NM_005392	exon5	c.G522A	p.L174L	GAAGCTGAAGGAG	.	PASS	Atlas-SNP
DSEL	92126	hgsc.bcm.edu	37	18	65179657	65179657	+	Missense_Mutation	SNP	T	T	C	rs12953840	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	102.0	43.0	99.0	0.0	0.421569	0	T|0.998;C|0.002	0.002	strong	.	DSEL	196	.	NM_032160	exon2	c.A2219G	p.Y740C	CCCAGATAATTGA	.	PASS	Atlas-SNP
OR10G3	26533	hgsc.bcm.edu	37	14	22038276	22038276	+	Silent	SNP	C	C	T	rs28436899	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	239.0	132.0	243.0	1.0	0.552301	0.00411523	C|0.978;T|0.022	0.022	strong	.	OR10G3	40	.	NM_001005465	exon1	c.G600A	p.T200T	TACAAACGTCACC	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140050907	140050907	+	Missense_Mutation	SNP	C	C	T	rs1706742		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	764.0	132.0	490.0	0.0	0.172775	0	.	.	weak	.	DND1	15	.	NM_194249	exon4	c.G1033A	p.A345T	CCTCAGCCCCAGC	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42875258	42875258	+	Silent	SNP	T	T	C	rs61741710	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	117.0	58.0	106.0	0.0	0.495726	0	T|0.992;C|0.008	0.008	strong	.	AKAP11	146	.	NM_016248	exon8	c.T2376C	p.Y792Y	CCCATATCATATT	.	PASS	Atlas-SNP
ZNF37A	7587	hgsc.bcm.edu	37	10	38406359	38406359	+	Missense_Mutation	SNP	A	A	C	rs150470434	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	187.0	81.0	163.0	0.0	0.433155	0	A|0.998;C|0.002	0.002	strong	.	ZNF37A	118	.	NM_003421	exon7	c.A280C	p.N94H	AAGTTCAATGAGT	.	PASS	Atlas-SNP
ITLN1	55600	hgsc.bcm.edu	37	1	160853312	160853312	+	Silent	SNP	C	C	T	rs79969862	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	139.0	49.0	155.0	0.0	0.352518	0	C|0.984;T|0.016	0.016	strong	.	ITLN1	45	.	NM_017625	exon3	c.G63A	p.E21E	ATTAGCCTCATCT	.	PASS	Atlas-SNP
SLC37A2	219855	hgsc.bcm.edu	37	11	124951719	124951719	+	Missense_Mutation	SNP	G	G	A	rs34485243	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	76.0	27.0	73.0	0.0	0.355263	0	G|0.965;A|0.035	0.035	strong	.	SLC37A2	105	.	NM_001145290	exon9	c.G802A	p.G268S	GAGAGCGGCCTTG	.	PASS	Atlas-SNP
FBXO4	26272	hgsc.bcm.edu	37	5	41925431	41925431	+	Missense_Mutation	SNP	G	G	A	rs2231916	alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	20.0	10.0	16.0	0.0	0.5	0	.	.	alt	.	FBXO4	42	.	NM_033484	exon1	c.G20A	p.R7H	AGCCGCGCAGCGG	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129914162	129914162	+	Missense_Mutation	SNP	G	G	C	rs143381225	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	40.0	20.0	41.0	0.0	0.5	0	G|0.998;C|0.002	0.002	strong	.	MKI67	363	.	NM_002417	exon7	c.C510G	p.D170E	TTTTGAGTCATCT	.	PASS	Atlas-SNP
USP25	29761	hgsc.bcm.edu	37	21	17250244	17250244	+	Missense_Mutation	SNP	A	A	C	rs149241751	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	177.0	98.0	160.0	0.0	0.553672	0	A|0.999;C|0.001	0.001	strong	.	USP25	156	.	NM_013396	exon23	c.A2929C	p.K977Q	GAAGAAAAGGATA	.	PASS	Atlas-SNP
SRRM1	10250	hgsc.bcm.edu	37	1	24979487	24979487	+	Missense_Mutation	SNP	C	C	T	rs144082896	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	237.0	100.0	232.0	0.0	0.421941	0	C|0.997;T|0.003	0.003	strong	.	SRRM1	81	.	NM_005839	exon8	c.C1004T	p.P335L	CTCCTCCACCAAG	.	PASS	Atlas-SNP
SLC29A3	55315	hgsc.bcm.edu	37	10	73122284	73122284	+	Silent	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	144.0	79.0	137.0	0.0	0.548611	0	.	.	none	SLC29A3,NS,carcinoma,+1,1	SLC29A3	51	1	NM_018344	exon6	c.G1347A	p.T449T	GGCCACGGGAGTG	.	PASS	Atlas-SNP
COL23A1	91522	hgsc.bcm.edu	37	5	177674821	177674821	+	Missense_Mutation	SNP	T	T	C	rs200475672	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	146.0	68.0	157.0	0.0	0.465753	0	.	.	weak	.	COL23A1	47	.	NM_173465	exon21	c.A1224G	p.I408M	CTCCACTATGAGC	.	PASS	Atlas-SNP
GPR142	350383	hgsc.bcm.edu	37	17	72368383	72368383	+	Silent	SNP	C	C	A	rs144235997	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	145.0	69.0	183.0	0.0	0.475862	0	C|0.994;A|0.006	0.006	strong	GPR142,bladder,carcinoma,-2,1	GPR142	74	1	NM_181790	exon4	c.C1033A	p.R345R	AGGGGCCGGAGTG	.	PASS	Atlas-SNP
ZNF57	126295	hgsc.bcm.edu	37	19	2917798	2917798	+	Silent	SNP	A	A	G	rs61755868	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	147.0	67.0	140.0	0.0	0.455782	0	A|0.975;G|0.025	0.025	strong	.	ZNF57	57	.	NM_173480	exon4	c.A1179G	p.K393K	CTATAAATGTGAA	.	PASS	Atlas-SNP
LNX1	84708	hgsc.bcm.edu	37	4	54373579	54373579	+	Missense_Mutation	SNP	G	G	A	rs147992678	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	182.0	88.0	164.0	0.0	0.483516	0	G|0.998;A|0.002	0.002	strong	.	LNX1	139	.	NM_001126328	exon4	c.C680T	p.A227V	CTCAAAGCTCGAT	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117156603	117156603	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	174.0	89.0	161.0	0.0	0.511494	0	.	.	none	.	IGSF3	294	.	NM_001542	exon4	c.T616A	p.S206T	TGCTGGAGTGAAG	.	PASS	Atlas-SNP
PCSK9	255738	hgsc.bcm.edu	37	1	55505651	55505651	+	Silent	SNP	C	C	T	rs28385701	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	112.0	68.0	73.0	0.0	0.607143	0	C|0.993;T|0.007	0.007	strong	.	PCSK9	76	.	NM_174936	exon1	c.C141T	p.S47S	GCGTTCCGAGGAG	.	PASS	Atlas-SNP
TTLL5	23093	hgsc.bcm.edu	37	14	76259376	76259376	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	124.0	64.0	118.0	0.0	0.516129	0	.	.	none	.	TTLL5	102	.	NM_015072	exon27	c.G3104A	p.R1035Q	TTCAGCGGCTAGC	.	PASS	Atlas-SNP
PGLYRP2	114770	hgsc.bcm.edu	37	19	15587103	15587103	+	Silent	SNP	C	C	T	rs35973013	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	155.0	86.0	146.0	0.0	0.554839	0	C|0.981;T|0.019	0.019	strong	.	PGLYRP2	116	.	NM_052890	exon2	c.G378A	p.A126A	CAGCCCCGCCAGC	.	PASS	Atlas-SNP
PHF21A	51317	hgsc.bcm.edu	37	11	45987091	45987091	+	Silent	SNP	A	A	T	rs151169176	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	230.0	128.0	186.0	0.0	0.556522	0	A|0.994;T|0.006	0.006	strong	.	PHF21A	107	.	NM_016621	exon9	c.T771A	p.A257A	CTGAGGAGCTGCG	.	PASS	Atlas-SNP
UMOD	7369	hgsc.bcm.edu	37	16	20352532	20352532	+	Silent	SNP	G	G	A	rs141800038	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	66.0	37.0	73.0	0.0	0.560606	0	G|0.994;A|0.006	0.006	strong	.	UMOD	128	.	NM_003361	exon7	c.C1458T	p.Y486Y	GCCCACGTAGAGA	.	PASS	Atlas-SNP
TSEN2	80746	hgsc.bcm.edu	37	3	12538040	12538040	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	50.0	118.0	0.0	0.413223	0	.	.	none	.	TSEN2	46	.	NM_001145394	exon4	c.A295G	p.I99V	CCTATCATCACAT	.	PASS	Atlas-SNP
BMP2K	55589	hgsc.bcm.edu	37	4	79832488	79832488	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	306.0	155.0	289.0	1.0	0.506536	0.00346021	.	.	none	.	BMP2K	169	.	NM_198892	exon16	c.A2787G	p.V929V	AAGTGTAGATGTA	.	PASS	Atlas-SNP
EFCAB5	374786	hgsc.bcm.edu	37	17	28417576	28417576	+	Missense_Mutation	SNP	G	G	C	rs35724168	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	86.0	40.0	114.0	0.0	0.465116	0	G|0.984;C|0.016	0.016	strong	.	EFCAB5	122	.	NM_198529	exon20	c.G3821C	p.R1274T	AAAATAGGATGTT	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150901209	150901209	+	Silent	SNP	G	G	T	rs142359154	bycluster;by1000genomes;alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	89.0	44.0	53.0	0.0	0.494382	0	G|0.999;A|0.001	.	alt	.	FAT2	465	.	NM_001447	exon18	c.C10945A	p.R3649R	GGTTCCGCCAGTG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093778	1093778	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	87.0	4.0	81.0	0.0	0.045977	0	.	.	none	.	MUC2	614	.	NM_002457	exon31	c.C5585G	p.S1862C	CCACCTCTTCCCC	.	PASS	Atlas-SNP
SLC39A5	283375	hgsc.bcm.edu	37	12	56630444	56630444	+	Missense_Mutation	SNP	G	G	C	rs74812296	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	93.0	43.0	79.0	0.0	0.462366	0	G|0.987;C|0.013	0.013	strong	.	SLC39A5	52	.	NM_173596	exon10	c.G1121C	p.S374T	GCCACAGTCATGG	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134351655	134351655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	94.0	50.0	78.0	0.0	0.531915	0	.	.	none	.	PRRC2B	266	.	NM_013318	exon15	c.G4139A	p.S1380N	CCGAAAGCAGCGA	.	PASS	Atlas-SNP
OR10G9	219870	hgsc.bcm.edu	37	11	123893757	123893757	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	387.0	29.0	308.0	0.0	0.0749354	0	.	.	none	OR10G9,NS,carcinoma,0,2	OR10G9	80	2	NM_001001953	exon1	c.C38T	p.T13M	TCCTCACGGGCCT	.	scavenged	Atlas-SNP
OCA2	4948	hgsc.bcm.edu	37	15	28202804	28202804	+	Missense_Mutation	SNP	G	G	A	rs374415755	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	55.0	27.0	29.0	0.0	0.490909	0	.	.	weak	OCA2,caecum,carcinoma,0,1	OCA2	173	1	NM_000275	exon16	c.C1714T	p.R572C	GGCGGCGCACAGC	.	PASS	Atlas-SNP
DUSP4	1846	hgsc.bcm.edu	37	8	29207692	29207692	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	17.0	9.0	12.0	0.0	0.529412	0	.	.	none	.	DUSP4	58	.	NM_001394	exon1	c.G104A	p.G35D	AGGGTGCCGTGGC	.	PASS	Atlas-SNP
TTC24	164118	hgsc.bcm.edu	37	1	156551248	156551248	+	Missense_Mutation	SNP	G	G	A	rs192869620	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	122.0	67.0	120.0	0.0	0.54918	0	G|0.994;A|0.006	0.006	strong	TTC24,NS,carcinoma,0,2	TTC24	46	2	NM_001105669	exon2	c.G92A	p.R31Q	GGCTGCGGCAAGA	.	PASS	Atlas-SNP
RPL3L	6123	hgsc.bcm.edu	37	16	1996720	1996720	+	Missense_Mutation	SNP	C	C	T	rs147512517		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	32.0	15.0	47.0	0.0	0.46875	0	C|1.000;T|0.000	0.000	weak	RPL3L,caecum,carcinoma,-1,1	RPL3L	42	1	NM_005061	exon7	c.G857A	p.R286H	CCGATGCGGAAGA	.	PASS	Atlas-SNP
FAM189A1	23359	hgsc.bcm.edu	37	15	29421059	29421059	+	Missense_Mutation	SNP	A	A	C	rs200682124	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	52.0	16.0	56.0	0.0	0.307692	0	.	.	weak	.	FAM189A1	20	.	NM_015307	exon8	c.T936G	p.S312R	ACCTATACTTGTA	.	PASS	Atlas-SNP
SLC27A2	11001	hgsc.bcm.edu	37	15	50475035	50475035	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	44.0	20.0	45.0	0.0	0.454545	0	.	.	none	.	SLC27A2	50	.	NM_003645	exon1	c.C411T	p.N137N	TTACAACATCCGC	.	PASS	Atlas-SNP
PPEF2	5470	hgsc.bcm.edu	37	4	76797739	76797739	+	Nonsense_Mutation	SNP	G	G	A	rs149631239	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	289.0	144.0	312.0	0.0	0.49827	0	G|0.999;A|0.001	0.001	strong	.	PPEF2	108	.	NM_006239	exon11	c.C1021T	p.Q341X	GTCCCTGTGCAGA	.	PASS	Atlas-SNP
LDLRAD1	388633	hgsc.bcm.edu	37	1	54483792	54483792	+	Silent	SNP	G	G	T	rs116802374	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	116.0	52.0	96.0	0.0	0.448276	0	G|0.979;T|0.021	0.021	strong	.	LDLRAD1	22	.	NM_001276392	exon1	c.C58A	p.R20R	GTCTTCGGTTTCC	.	PASS	Atlas-SNP
TRIM14	9830	hgsc.bcm.edu	37	9	100862339	100862339	+	Silent	SNP	C	C	A	rs35830621	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	165.0	75.0	180.0	0.0	0.454545	0	C|0.951;A|0.049	0.049	strong	.	TRIM14	24	.	NM_033219	exon3	c.G411T	p.T137T	AAGCTGCGTGTTT	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	37	3	123419782	123419782	+	Missense_Mutation	SNP	G	G	A	rs3732485	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	43.0	22.0	23.0	0.0	0.511628	0	G|0.987;A|0.013	0.013	strong	.	MYLK	224	.	NM_053025	exon18	c.C2533T	p.R845C	CATAGCGGTCACT	.	PASS	Atlas-SNP
USPL1	10208	hgsc.bcm.edu	37	13	31231778	31231778	+	Missense_Mutation	SNP	G	G	C	rs17609459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	78.0	34.0	97.0	0.0	0.435897	0	C|0.020;G|0.980	0.020	strong	.	USPL1	82	.	NM_005800	exon9	c.G1564C	p.A522P	CAACACGCTCTCA	.	PASS	Atlas-SNP
MCM8	84515	hgsc.bcm.edu	37	20	5966626	5966626	+	Missense_Mutation	SNP	G	G	T	rs150257637	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	156.0	70.0	115.0	0.0	0.448718	0	G|0.999;T|0.001	0.001	strong	.	MCM8	125	.	NM_032485	exon16	c.G2012T	p.G671V	ACATTGGCTATGC	.	PASS	Atlas-SNP
SLCO1B7	338821	hgsc.bcm.edu	37	12	21174496	21174496	+	Missense_Mutation	SNP	C	C	T	rs12824121	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	105.0	46.0	119.0	0.0	0.438095	0	C|0.990;T|0.010	0.010	strong	.	SLCO1B7	85	.	NM_001009562	exon3	c.C320T	p.P107L	GAACACCGTCTGA	.	PASS	Atlas-SNP
SLC25A6	293	hgsc.bcm.edu	37	X	1510877	1510877	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	63.0	28.0	81.0	0.0	0.444444	0	.	.	none	.	SLC25A6	27	.	NM_001636	exon1	c.C26G	p.A9G	TCTTTGGCGAAGG	.	PASS	Atlas-SNP
FBXO11	80204	hgsc.bcm.edu	37	2	48059539	48059539	+	Silent	SNP	A	A	G	rs141756242	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	102.0	35.0	130.0	0.0	0.343137	0	A|0.998;G|0.002	0.002	strong	.	FBXO11	127	.	NM_001190274	exon11	c.T1347C	p.N449N	AATATGATTCCGT	.	PASS	Atlas-SNP
DDX55	57696	hgsc.bcm.edu	37	12	124102305	124102305	+	Missense_Mutation	SNP	T	T	A	rs147152712	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	125.0	63.0	104.0	0.0	0.504	0	T|0.999;A|0.001	0.001	strong	.	DDX55	51	.	NM_020936	exon11	c.T1050A	p.S350R	TCACAGTGCCTTC	.	PASS	Atlas-SNP
STRBP	55342	hgsc.bcm.edu	37	9	125895238	125895238	+	Missense_Mutation	SNP	C	C	T	rs79286922	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	130.0	61.0	139.0	0.0	0.469231	0	C|0.988;T|0.012	0.012	strong	.	STRBP	73	.	NM_018387	exon17	c.G1783A	p.V595I	TCACAACGCCCTT	.	PASS	Atlas-SNP
KDM5C	8242	hgsc.bcm.edu	37	X	53230909	53230909	+	Silent	SNP	C	C	T	rs74850270	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	110.0	90.0	0.0	1	0	C|0.988;T|0.012	0.012	strong	.	KDM5C	385	.	NM_004187	exon14	c.G1884A	p.Q628Q	AATGCACTGGCGC	.	PASS	Atlas-SNP
TAS1R1	80835	hgsc.bcm.edu	37	1	6639073	6639073	+	Missense_Mutation	SNP	G	G	A	rs149418903	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	220.0	115.0	169.0	1.0	0.522727	0.00591716	G|0.999;A|0.001	0.001	strong	TAS1R1,colon,carcinoma,0,1	TAS1R1	76	1	NM_138697	exon6	c.G1955A	p.R652H	CAGTTCGCTCATT	.	scavenged	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	37	11	12247813	12247813	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	124.0	5.0	95.0	0.0	0.0403226	0	.	.	none	MICAL2,NS,haematopoietic_neoplasm,0,1	MICAL2	114	1	NM_014632	exon14	c.C1784T	p.T595M	TGACCACGGGCAA	.	PASS	Atlas-SNP
GCNT1	2650	hgsc.bcm.edu	37	9	79118400	79118400	+	Missense_Mutation	SNP	C	C	T	rs147866228	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	258.0	129.0	182.0	0.0	0.5	0	C|0.994;T|0.006	0.006	strong	.	GCNT1	52	.	NM_001490	exon4	c.C1103T	p.P368L	GTGCTCCCTACCC	.	PASS	Atlas-SNP
ELP6	54859	hgsc.bcm.edu	37	3	47545911	47545911	+	Missense_Mutation	SNP	G	G	A	rs377204125		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	33.0	13.0	25.0	0.0	0.393939	0	.	.	weak	.	.	.	.	NM_001031703	exon4	c.C232T	p.R78C	GCCCACGCTCCCG	.	PASS	Atlas-SNP
DUSP10	11221	hgsc.bcm.edu	37	1	221912334	221912334	+	Silent	SNP	T	T	G	rs35552569	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	235.0	102.0	230.0	0.0	0.434043	0	T|0.997;G|0.003	0.003	strong	.	DUSP10	64	.	NM_007207	exon2	c.A753C	p.P251P	GTGAAGTGGCTGG	.	PASS	Atlas-SNP
SFTPA1	653509	hgsc.bcm.edu	37	10	81373810	81373810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	432.0	218.0	419.0	0.0	0.50463	0	.	.	none	.	SFTPA1	23	.	NM_001093770	exon6	c.G733A	p.D245N	TACACAGATGGGC	.	PASS	Atlas-SNP
MON2	23041	hgsc.bcm.edu	37	12	62965212	62965212	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	100.0	4.0	113.0	0.0	0.04	0	.	.	none	.	MON2	160	.	NM_015026	exon30	c.C4364T	p.S1455F	GCCCTTCTGAAAG	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158604391	158604391	+	Missense_Mutation	SNP	T	T	C	rs16830483	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	135.0	68.0	134.0	0.0	0.503704	0	T|0.947;C|0.053	0.053	strong	.	SPTA1	720	.	NM_003126	exon39	c.A5507G	p.N1836S	TTTTCATTGATCC	.	PASS	Atlas-SNP
NPTXR	23467	hgsc.bcm.edu	37	22	39222627	39222627	+	Missense_Mutation	SNP	G	G	A	rs34637063	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	109.0	58.0	91.0	1.0	0.53211	0.010989	G|0.996;A|0.004	0.004	strong	NPTXR,colon,carcinoma,0,2	NPTXR	34	2	NM_014293	exon3	c.C976T	p.R326W	TGGACCGCAGCCA	.	scavenged	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225237950	225237950	+	Missense_Mutation	SNP	A	A	G	rs78320839	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	193.0	84.0	186.0	0.0	0.435233	0	A|0.991;G|0.009	0.009	strong	.	DNAH14	300	.	NM_001373	exon16	c.A1951G	p.I651V	CTGTCTATCTTCA	.	PASS	Atlas-SNP
ZNF268	10795	hgsc.bcm.edu	37	12	133780033	133780033	+	Silent	SNP	C	C	T	rs189953075	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	6.0	5.0	2.0	0.0	0.833333	0	C|0.997;T|0.003	0.003	strong	.	ZNF268	71	.	NM_001165881	exon6	c.C1761T	p.T587T	ATGCACCGACTGT	.	PASS	Atlas-SNP
AKR1C2	1646	hgsc.bcm.edu	37	10	5043747	5043747	+	Missense_Mutation	SNP	C	C	G	rs142672563	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	327.0	158.0	274.0	0.0	0.48318	0	C|0.998;G|0.002	0.002	strong	.	AKR1C2	68	.	NM_001354	exon4	c.G211C	p.D71H	TGCCATCTGCAAT	.	PASS	Atlas-SNP
NF1	4763	hgsc.bcm.edu	37	17	29679401	29679401	+	Silent	SNP	A	A	G	rs55865524	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	121.0	66.0	119.0	0.0	0.545455	0	A|0.999;G|0.001	0.001	strong	.	NF1	1586	.	NM_001042492	exon51	c.A7584G	p.Q2528Q	GGGGCAACCTTCT	.	PASS	Atlas-SNP
CPNE7	27132	hgsc.bcm.edu	37	16	89657630	89657630	+	Missense_Mutation	SNP	C	C	G	rs377056293	alternate_allele	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	73.0	34.0	70.0	0.0	0.465753	0	.	.	alt	.	CPNE7	56	.	NM_014427	exon15	c.C1489G	p.R497G	GTGGCACGCGTGG	.	PASS	Atlas-SNP
POP1	10940	hgsc.bcm.edu	37	8	99146261	99146261	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	73.0	39.0	70.0	0.0	0.534247	0	.	.	none	POP1,NS,carcinoma,0,1	POP1	85	1	NM_001145860	exon6	c.A820G	p.T274A	ATAGACACAGGTA	.	PASS	Atlas-SNP
TMEM101	84336	hgsc.bcm.edu	37	17	42092267	42092267	+	Silent	SNP	C	C	T	rs35301047	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	243.0	102.0	223.0	0.0	0.419753	0	C|0.988;T|0.012	0.012	strong	.	TMEM101	18	.	NM_032376	exon1	c.G54A	p.L18L	CGAACCCAACTGC	.	PASS	Atlas-SNP
KAL1	3730	hgsc.bcm.edu	37	X	8538659	8538659	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	218.0	9.0	166.0	0.0	0.0412844	0	.	.	none	.	KAL1	78	.	NM_000216	exon7	c.T943G	p.W315G	GATCCCAAACTAT	.	PASS	Atlas-SNP
TMEM132D	121256	hgsc.bcm.edu	37	12	130387850	130387850	+	Missense_Mutation	SNP	T	T	A	rs142888394	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	180.0	95.0	166.0	0.0	0.527778	0	T|0.996;A|0.004	0.004	strong	.	TMEM132D	299	.	NM_133448	exon1	c.A35T	p.H12L	GACCAGTGGTGCC	.	PASS	Atlas-SNP
C2orf43	60526	hgsc.bcm.edu	37	2	20974586	20974586	+	Missense_Mutation	SNP	C	C	T	rs114010802	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	202.0	102.0	203.0	0.0	0.504951	0	C|0.993;T|0.007	0.007	strong	.	C2orf43	28	.	NM_021925	exon4	c.G452A	p.R151Q	GGGACTCGCTTCA	.	PASS	Atlas-SNP
FAM83E	54854	hgsc.bcm.edu	37	19	49107039	49107039	+	Silent	SNP	G	G	T	rs201027346	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	63.0	32.0	48.0	0.0	0.507937	0	G|0.999;T|0.001	0.001	weak	.	FAM83E	34	.	NM_017708	exon4	c.C888A	p.P296P	TTTCTGGGGGGGC	.	PASS	Atlas-SNP
MMP27	64066	hgsc.bcm.edu	37	11	102575442	102575442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	38.0	80.0	0.0	0.417582	0	.	.	none	.	MMP27	84	.	NM_022122	exon2	c.G167A	p.R56K	AGACTCCTATTCT	.	PASS	Atlas-SNP
FBXW5	54461	hgsc.bcm.edu	37	9	139835725	139835725	+	Missense_Mutation	SNP	C	C	T	rs374757784		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	24.0	13.0	16.0	0.0	0.541667	0	.	.	weak	.	FBXW5	36	.	NM_018998	exon8	c.G1435A	p.V479I	TGCTGACGTCCAG	.	PASS	Atlas-SNP
TEKT5	146279	hgsc.bcm.edu	37	16	10788219	10788219	+	Missense_Mutation	SNP	G	G	A	rs141349037	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	26.0	77.0	0.0	0.325	0	G|0.999;A|0.001	0.001	strong	.	TEKT5	66	.	NM_144674	exon1	c.C512T	p.T171M	TTGACCGTCTCCA	.	PASS	Atlas-SNP
RGS7	6000	hgsc.bcm.edu	37	1	240975229	240975229	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	76.0	30.0	69.0	0.0	0.394737	0	.	.	none	RGS7_ENST00000366565,right_upper_lobe,carcinoma,-1,2	RGS7	308	2	NM_002924	exon14	c.G1071A	p.S357S	ATTTTCCGAGCTG	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189862995	189862995	+	Silent	SNP	T	T	C	rs41263757	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	102.0	47.0	76.0	0.0	0.460784	0	T|0.998;C|0.002	0.002	strong	.	COL3A1	292	.	NM_000090	exon28	c.T1927C	p.L643L	TAGGGCTTGCCTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9091771	9091771	+	Missense_Mutation	SNP	C	C	T	rs375862521		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	144.0	62.0	153.0	1.0	0.430556	0.00653595	.	.	weak	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon1	c.G44A	p.R15H	AAGGAGCGGGTGG	.	scavenged	Atlas-SNP
LRGUK	136332	hgsc.bcm.edu	37	7	133884016	133884016	+	Silent	SNP	C	C	T	rs61749958	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	180.0	80.0	158.0	0.0	0.444444	0	C|1.000;T|0.000	0.000	weak	.	LRGUK	113	.	NM_144648	exon14	c.C1590T	p.I530I	TTATATCCTGGTG	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144944379	144944379	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	68.0	32.0	68.0	0.0	0.470588	0	.	.	none	.	EPPK1	199	.	NM_031308	exon1	c.T3043C	p.F1015L	CAGAGAAGGGGTC	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	37	14	96829302	96829302	+	Silent	SNP	C	C	T	rs72706804	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	142.0	63.0	132.0	0.0	0.443662	0	C|0.986;T|0.014	0.014	strong	.	ATG2B	169	.	NM_018036	exon1	c.G12A	p.P4P	CGAAAACGGCCAA	.	PASS	Atlas-SNP
FLT3	2322	hgsc.bcm.edu	37	13	28624294	28624294	+	Missense_Mutation	SNP	G	G	A	rs1933437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	160.0	160.0	199.0	1.0	1	0.00502513	G|0.465;A|0.535	0.535	strong	.	FLT3	15525	.	NM_004119	exon6	c.C680T	p.T227M	ATGTCCGTCCCAA	.	PASS	Atlas-SNP
FASTKD3	79072	hgsc.bcm.edu	37	5	7867027	7867027	+	Silent	SNP	A	A	G	rs77130393	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	151.0	68.0	165.0	0.0	0.450331	0	A|0.984;G|0.016	0.016	strong	.	FASTKD3	88	.	NM_024091	exon2	c.T1170C	p.N390N	CACTGCATTGAGG	.	PASS	Atlas-SNP
VEZF1	7716	hgsc.bcm.edu	37	17	56056607	56056607	+	Silent	SNP	C	C	T	rs73995411	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	193.0	9.0	123.0	0.0	0.0466321	0	C|0.969;T|0.031	0.031	strong	VEZF1,caecum,carcinoma,0,3	VEZF1	50	3	NM_007146	exon5	c.G1044A	p.Q348Q	TTGTTGCTGCTGC	.	scavenged	Atlas-SNP
KRTAP13-4	284827	hgsc.bcm.edu	37	21	31803054	31803054	+	Missense_Mutation	SNP	G	G	A	rs999597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	94.0	46.0	84.0	0.0	0.489362	0	G|0.979;A|0.021	0.021	strong	.	KRTAP13-4	46	.	NM_181600	exon1	c.G461A	p.R154H	GATCTCGCTTCTA	.	PASS	Atlas-SNP
OR11A1	26531	hgsc.bcm.edu	37	6	29395180	29395180	+	Missense_Mutation	SNP	A	A	G	rs61978565	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	50.0	28.0	63.0	0.0	0.56	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
HIST1H2AC	8334	hgsc.bcm.edu	37	6	26124781	26124781	+	Silent	SNP	C	C	T	rs143405410	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	190.0	95.0	169.0	1.0	0.5	0.00591716	C|0.998;T|0.002	0.002	strong	HIST1H2AC,colon,carcinoma,0,1	HIST1H2AC	29	1	NM_003512	exon1	c.C321T	p.G107G	GGGCGGCGTCCTT	.	scavenged	Atlas-SNP
PGLYRP2	114770	hgsc.bcm.edu	37	19	15580694	15580694	+	Missense_Mutation	SNP	G	G	A	rs61734899	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	47.0	17.0	33.0	0.0	0.361702	0	G|0.983;A|0.017	0.017	strong	.	PGLYRP2	116	.	NM_052890	exon4	c.C1390T	p.H464Y	CCCAGTGCCAGCC	.	PASS	Atlas-SNP
KIF22	3835	hgsc.bcm.edu	37	16	29816237	29816237	+	Missense_Mutation	SNP	G	G	A	rs146561986	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	64.0	33.0	52.0	0.0	0.515625	0	G|0.998;A|0.002	0.002	strong	.	KIF22	29	.	NM_007317	exon12	c.G1780A	p.D594N	ATACTGGATCTGC	.	PASS	Atlas-SNP
COMP	1311	hgsc.bcm.edu	37	19	18896823	18896823	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	49.0	22.0	58.0	0.0	0.44898	0	.	.	none	.	COMP	62	.	NM_000095	exon13	c.C1441T	p.R481W	TGTCCCGACTGTC	.	PASS	Atlas-SNP
ZHX2	22882	hgsc.bcm.edu	37	8	123964011	123964011	+	Silent	SNP	G	G	A	rs61752912	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	52.0	18.0	41.0	0.0	0.346154	0	G|0.965;A|0.035	0.035	strong	.	ZHX2	106	.	NM_014943	exon3	c.G261A	p.T87T	CTCCACGCAAAAC	.	PASS	Atlas-SNP
GLB1L2	89944	hgsc.bcm.edu	37	11	134239760	134239760	+	Silent	SNP	C	C	T	rs34063963	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	89.0	39.0	113.0	0.0	0.438202	0	C|0.976;T|0.024	0.024	strong	.	GLB1L2	79	.	NM_138342	exon11	c.C1089T	p.D363D	TCGAGACTTCTTC	.	PASS	Atlas-SNP
BAIAP3	8938	hgsc.bcm.edu	37	16	1384715	1384715	+	Missense_Mutation	SNP	T	T	C	rs200858324	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	192.0	79.0	138.0	0.0	0.411458	0	.	.	weak	.	BAIAP3	88	.	NM_003933	exon1	c.T53C	p.L18P	TGCACCTGGGCAC	.	PASS	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	37	1	16255799	16255799	+	Missense_Mutation	SNP	G	G	A	rs115566585	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	129.0	57.0	99.0	0.0	0.44186	0	G|0.998;A|0.002	0.002	strong	.	SPEN	374	.	NM_015001	exon11	c.G3064A	p.V1022M	CCTGACGTGTCCT	.	PASS	Atlas-SNP
RPS15	6209	hgsc.bcm.edu	37	19	1440374	1440374	+	Silent	SNP	C	C	T	rs139332437	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	170.0	87.0	186.0	0.0	0.511765	0	C|0.998;T|0.002	0.002	strong	.	RPS15	11	.	NM_001018	exon4	c.C351T	p.G117G	CCTGGGCGAGTTC	.	PASS	Atlas-SNP
C6orf132	647024	hgsc.bcm.edu	37	6	42074925	42074925	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	8.0	4.0	3.0	0.0	0.5	0	.	.	none	.	C6orf132	48	.	NM_001164446	exon4	c.C725T	p.P242L	GTGTGAGGAGATG	.	PASS	Atlas-SNP
TMEM9	252839	hgsc.bcm.edu	37	1	201115964	201115964	+	Silent	SNP	G	G	A	rs139286836	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	42.0	91.0	0.0	0.525	0	G|0.994;A|0.006	0.006	strong	.	TMEM9	12	.	NM_016456	exon4	c.C171T	p.H57H	CACCACGTGCAGG	.	PASS	Atlas-SNP
PARPBP	55010	hgsc.bcm.edu	37	12	102558369	102558369	+	Missense_Mutation	SNP	C	C	A	rs75438625	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	90.0	30.0	81.0	0.0	0.333333	0	C|0.974;A|0.026	0.026	strong	.	PARPBP	40	.	NM_017915	exon5	c.C649A	p.Q217K	GAGAAACAAATGT	.	PASS	Atlas-SNP
OSBPL9	114883	hgsc.bcm.edu	37	1	52250216	52250216	+	Silent	SNP	C	C	T	rs144748323		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	141.0	74.0	94.0	0.0	0.524823	0	C|1.000;T|0.000	0.000	weak	.	OSBPL9	192	.	NM_148909	exon20	c.C1821T	p.F607F	ACCCTTCTATGGG	.	PASS	Atlas-SNP
TBX6	6911	hgsc.bcm.edu	37	16	30100401	30100401	+	Missense_Mutation	SNP	C	C	T	rs56098093	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	45.0	94.0	0.0	0.5625	0	C|0.997;T|0.003	0.003	strong	.	TBX6	29	.	NM_004608	exon4	c.G484A	p.G162S	CCTTGCCGCTGGG	.	PASS	Atlas-SNP
ITPR1	3708	hgsc.bcm.edu	37	3	4714929	4714929	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	93.0	44.0	91.0	1.0	0.473118	0.010989	.	.	none	ITPR1_ENST00000357086,NS,carcinoma,0,3	ITPR1	659	3	NM_001099952	exon21	c.G2314A	p.E772K	TCTGACGAGAACC	.	scavenged	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	37	12	99139552	99139552	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	82.0	38.0	106.0	0.0	0.463415	0	.	.	none	.	ANKS1B	180	.	NM_181670	exon13	c.G1498A	p.G500S	TAATGCCCCTCTT	.	PASS	Atlas-SNP
DAB2	1601	hgsc.bcm.edu	37	5	39381651	39381651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	137.0	52.0	167.0	0.0	0.379562	0	.	.	none	.	DAB2	124	.	NM_001343	exon11	c.C1409T	p.A470V	GGTGACGCCTGGC	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32163541	32163541	+	Silent	SNP	A	A	C	rs1044507	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	31.0	30.0	20.0	0.0	0.967742	0	A|0.974;C|0.026	0.026	strong	.	NOTCH4	201	.	NM_004557	exon30	c.T5685G	p.S1895S	GCAATGAGAATAG	.	PASS	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237947171	237947171	+	Silent	SNP	G	G	A	rs41267517	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	44.0	94.0	0.0	0.4	0	G|0.999;A|0.001	0.001	weak	RYR2,NS,carcinoma,0,1	RYR2	1273	1	NM_001035	exon90	c.G12159A	p.E4053E	GATGGAGAGCCAT	.	PASS	Atlas-SNP
OR52W1	120787	hgsc.bcm.edu	37	11	6220596	6220596	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	165.0	81.0	172.0	0.0	0.490909	0	.	.	none	.	OR52W1	33	.	NM_001005178	exon1	c.G143C	p.G48A	GCAATGGAGCACT	.	PASS	Atlas-SNP
ANG	283	hgsc.bcm.edu	37	14	21161931	21161931	+	Missense_Mutation	SNP	A	A	G	rs121909541	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	163.0	85.0	172.0	0.0	0.521472	0	A|0.999;G|0.001	0.001	strong	.	ANG	8	.	NM_001097577	exon2	c.A208G	p.I70V	ACATTTATTCATG	.	PASS	Atlas-SNP
FAM181B	220382	hgsc.bcm.edu	37	11	82444668	82444668	+	Missense_Mutation	SNP	C	C	G	rs144429777	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	27.0	21.0	21.0	0.0	0.777778	0	C|0.997;G|0.003	0.003	strong	.	FAM181B	14	.	NM_175885	exon1	c.G104C	p.G35A	CAGCAGCCCTTGT	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33359093	33359093	+	Silent	SNP	T	T	C	rs74655292	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	228.0	106.0	206.0	0.0	0.464912	0	T|0.992;C|0.008	0.008	strong	.	FMN1	174	.	NM_001103184	exon1	c.A993G	p.K331K	AGTTGCTTTCTTC	.	PASS	Atlas-SNP
ZNF519	162655	hgsc.bcm.edu	37	18	14124427	14124427	+	Missense_Mutation	SNP	A	A	G	rs16941623	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	114.0	61.0	96.0	0.0	0.535088	0	A|0.988;G|0.012	0.012	strong	.	ZNF519	53	.	NM_145287	exon2	c.T52C	p.W18R	ATTTCCACTCTTC	.	PASS	Atlas-SNP
DPP10	57628	hgsc.bcm.edu	37	2	115822349	115822349	+	Missense_Mutation	SNP	G	G	T	rs114821649	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	268.0	131.0	301.0	1.0	0.488806	0.00332226	G|0.996;T|0.004	0.004	strong	.	DPP10	415	.	NM_001178037	exon1	c.G15T	p.E5D	CACAGAGGTGGCT	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158592781	158592781	+	Silent	SNP	G	G	A	rs75931146	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	167.0	70.0	162.0	0.0	0.419162	0	G|0.961;A|0.039	0.039	strong	.	SPTA1	720	.	NM_003126	exon43	c.C6112T	p.L2038L	TCTGTAGAGGCAG	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42875683	42875683	+	Missense_Mutation	SNP	A	A	G	rs41288309	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	96.0	51.0	83.0	0.0	0.53125	0	A|0.993;G|0.007	0.007	strong	.	AKAP11	146	.	NM_016248	exon8	c.A2801G	p.N934S	GTAGCAATAAGGA	.	PASS	Atlas-SNP
PPARGC1B	133522	hgsc.bcm.edu	37	5	149212614	149212614	+	Silent	SNP	G	G	T	rs115557257	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	166.0	89.0	175.0	0.0	0.536145	0	G|0.985;T|0.015	0.015	strong	.	PPARGC1B	74	.	NM_133263	exon5	c.G978T	p.R326R	ATCCCGGCCCTGG	.	PASS	Atlas-SNP
TEX15	56154	hgsc.bcm.edu	37	8	30702739	30702739	+	Missense_Mutation	SNP	G	G	C	rs117362953	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	134.0	58.0	130.0	0.0	0.432836	0	G|0.997;C|0.003	0.003	strong	TEX15,NS,carcinoma,0,1	TEX15	350	1	NM_031271	exon1	c.C3795G	p.D1265E	AAGTACGTCAGTT	.	PASS	Atlas-SNP
MICALL2	79778	hgsc.bcm.edu	37	7	1478525	1478525	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	36.0	18.0	45.0	0.0	0.5	0	.	.	none	.	MICALL2	63	.	NM_182924	exon10	c.G2073A	p.V691V	GCTCTGCACTCGG	.	PASS	Atlas-SNP
STK32B	55351	hgsc.bcm.edu	37	4	5333091	5333091	+	Silent	SNP	G	G	A	rs16837029	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	52.0	28.0	70.0	0.0	0.538462	0	G|0.926;A|0.074	0.074	strong	.	STK32B	87	.	NM_018401	exon4	c.G405A	p.E135E	CCTGGAGTATCTT	.	PASS	Atlas-SNP
RTEL1	51750	hgsc.bcm.edu	37	20	62322290	62322290	+	Missense_Mutation	SNP	G	G	A	rs190887884	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	37.0	20.0	37.0	0.0	0.540541	0	G|0.994;A|0.006	0.006	strong	.	RTEL1	114	.	NM_032957	exon27	c.G2618A	p.G873D	GCCCTGGCGAGGA	.	PASS	Atlas-SNP
TRPV6	55503	hgsc.bcm.edu	37	7	142574544	142574544	+	Silent	SNP	G	G	A	rs138110961	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	167.0	86.0	152.0	0.0	0.51497	0	G|0.999;A|0.001	0.001	strong	.	TRPV6	108	.	NM_018646	exon5	c.C534T	p.I178I	CCGCACGATCTCC	.	PASS	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29429733	29429733	+	Missense_Mutation	SNP	G	G	A	rs61732185	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	253.0	120.0	230.0	1.0	0.474308	0.00434783	G|0.964;A|0.036	0.036	strong	.	OR2H1	38	.	NM_030883	exon3	c.G187A	p.D63N	CTCTCTGACCTCT	.	PASS	Atlas-SNP
PRELID2	153768	hgsc.bcm.edu	37	5	145199531	145199531	+	Missense_Mutation	SNP	C	C	T	rs142301961	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	190.0	95.0	216.0	0.0	0.5	0	C|0.999;T|0.001	0.001	strong	.	PRELID2	16	.	NM_182960	exon3	c.G184A	p.V62M	GAACCACGTTCTG	.	PASS	Atlas-SNP
CCDC135	84229	hgsc.bcm.edu	37	16	57758727	57758727	+	Missense_Mutation	SNP	T	T	C	rs115241876	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	59.0	30.0	49.0	0.0	0.508475	0	T|0.997;C|0.003	0.003	strong	.	CCDC135	97	.	NM_032269	exon12	c.T1738C	p.S580P	GCAGAGTCAAACC	.	PASS	Atlas-SNP
CHD6	84181	hgsc.bcm.edu	37	20	40079655	40079655	+	Missense_Mutation	SNP	G	G	C	rs41278126	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	215.0	105.0	181.0	0.0	0.488372	0	G|0.971;C|0.029	0.029	strong	.	CHD6	312	.	NM_032221	exon23	c.C3614G	p.A1205G	CAGGTGGCTAGCC	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537324	88537324	+	Silent	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	183.0	11.0	236.0	0.0	0.0601093	0	.	.	none	DSPP,NS,carcinoma,0,2	DSPP	174	2	NM_014208	exon5	c.C3510T	p.D1170D	CAGCGACAGCAGC	.	PASS	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	37	2	62053677	62053677	+	Silent	SNP	A	A	G	rs138464813	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	215.0	95.0	224.0	0.0	0.44186	0	A|0.998;G|0.002	0.002	strong	.	FAM161A	200	.	NM_001201543	exon7	c.T2064C	p.I688I	GGTATCAATAAAA	.	PASS	Atlas-SNP
PEX26	55670	hgsc.bcm.edu	37	22	18561342	18561342	+	Missense_Mutation	SNP	A	A	G	rs201884779	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	26.0	11.0	31.0	0.0	0.423077	0	A|0.994;G|0.006	0.006	weak	.	PEX26	27	.	NM_001127649	exon1	c.A200G	p.N67S	TGGCCAACCACGC	.	PASS	Atlas-SNP
NUDT19	390916	hgsc.bcm.edu	37	19	33200275	33200275	+	Missense_Mutation	SNP	A	A	T	rs371226805		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	107.0	55.0	96.0	0.0	0.514019	0	.	.	weak	.	NUDT19	15	.	NM_001105570	exon2	c.A899T	p.D300V	CTGCTGATGGGAT	.	PASS	Atlas-SNP
NUP210L	91181	hgsc.bcm.edu	37	1	154115962	154115962	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	199.0	105.0	197.0	0.0	0.527638	0	.	.	none	.	NUP210L	181	.	NM_001159484	exon3	c.T432C	p.D144D	TGGCGAATCATCT	.	PASS	Atlas-SNP
EXD3	54932	hgsc.bcm.edu	37	9	140250749	140250749	+	Missense_Mutation	SNP	C	C	T	rs180687197	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	45.0	25.0	27.0	0.0	0.555556	0	C|0.999;T|0.001	0.001	strong	.	EXD3	86	.	NM_017820	exon8	c.G728A	p.R243H	TGCAGACGCAAGA	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140993737	140993737	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	230.0	13.0	266.0	0.0	0.0565217	0	.	.	none	.	MAGEC1	317	.	NM_005462	exon4	c.C547T	p.P183S	AGTTCCCCTGAGA	.	PASS	Atlas-SNP
DMRT2	10655	hgsc.bcm.edu	37	9	1056569	1056569	+	Missense_Mutation	SNP	G	G	A	rs140004479	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	129.0	75.0	99.0	0.0	0.581395	0	G|0.997;A|0.003	0.003	strong	.	DMRT2	70	.	NM_181872	exon4	c.G982A	p.V328M	GTCAGCGTGGCCA	.	PASS	Atlas-SNP
SNRNP35	11066	hgsc.bcm.edu	37	12	123950408	123950408	+	Silent	SNP	A	A	G	rs28728202	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	43.0	20.0	37.0	0.0	0.465116	0	A|0.995;G|0.005	0.005	strong	.	SNRNP35	28	.	NM_180699	exon2	c.A336G	p.K112K	GATCAAAGCTTAC	.	PASS	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	37	2	239049537	239049537	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	68.0	44.0	102.0	0.0	0.647059	0	.	.	none	.	KLHL30	79	.	NM_198582	exon2	c.C142T	p.R48C	TGCCACCGCGGCC	.	PASS	Atlas-SNP
EXOC3L2	90332	hgsc.bcm.edu	37	19	45716364	45716364	+	Missense_Mutation	SNP	C	C	T	rs189063316	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	29.0	18.0	26.0	0.0	0.62069	0	C|0.992;T|0.008	0.008	strong	EXOC3L2,NS,lymphoid_neoplasm,0,1	EXOC3L2	30	1	NM_138568	exon10	c.G1193A	p.R398Q	GGAGGCCGGGGCC	.	scavenged	Atlas-SNP
LYZL2	119180	hgsc.bcm.edu	37	10	30915078	30915078	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	210.0	93.0	164.0	0.0	0.442857	0	.	.	none	.	LYZL2	33	.	NM_183058	exon3	c.G392A	p.R131H	TTTCCGCGTCTGC	.	PASS	Atlas-SNP
SMARCA1	6594	hgsc.bcm.edu	37	X	128582381	128582381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	120.0	7.0	112.0	0.0	0.0583333	0	.	.	none	.	SMARCA1	126	.	NM_003069	exon24	c.G3070A	p.E1024K	CTTTCTCAATCAA	.	PASS	Atlas-SNP
SNX29	92017	hgsc.bcm.edu	37	16	12492322	12492322	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	180.0	80.0	145.0	0.0	0.444444	0	.	.	none	.	SNX29	60	.	NM_032167	exon17	c.A1919T	p.Q640L	TGAGTCAAACGTC	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56373536	56373536	+	Missense_Mutation	SNP	C	C	T	rs41271862	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	175.0	81.0	165.0	0.0	0.462857	0	C|0.967;T|0.033	0.033	strong	.	DST	1427	.	NM_015548	exon56	c.G11161A	p.D3721N	TTTGGTCAAGCTT	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2161153	2161153	+	Missense_Mutation	SNP	C	C	T	rs147141131	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	111.0	61.0	97.0	0.0	0.54955	0	C|0.999;T|0.001	0.001	strong	.	PKD1	184	.	NM_000296	exon15	c.G4015A	p.V1339M	CCCGCACGGTCGT	.	PASS	Atlas-SNP
RIPK1	8737	hgsc.bcm.edu	37	6	3083369	3083369	+	Silent	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	108.0	69.0	67.0	0.0	0.638889	0	.	.	none	.	RIPK1	56	.	NM_003804	exon4	c.T510C	p.N170N	GAATAATGAAGAG	.	PASS	Atlas-SNP
PRSS53	339105	hgsc.bcm.edu	37	16	31096495	31096495	+	Missense_Mutation	SNP	G	G	C	rs72785539	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	240.0	126.0	217.0	0.0	0.525	0	G|0.999;C|0.001	0.001	strong	.	PRSS53	29	.	NM_001039503	exon7	c.C970G	p.L324V	AGGCCAGCTGTCC	.	PASS	Atlas-SNP
TSHZ3	57616	hgsc.bcm.edu	37	19	31768890	31768890	+	Silent	SNP	G	G	A	rs138330927	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	244.0	108.0	262.0	1.0	0.442623	0.00381679	G|0.999;A|0.001	0.001	strong	.	TSHZ3	549	.	NM_020856	exon2	c.C1809T	p.P603P	TGTCTTGGGCATG	.	PASS	Atlas-SNP
RIN2	54453	hgsc.bcm.edu	37	20	19915769	19915769	+	Silent	SNP	C	C	T	rs181853315	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	84.0	40.0	87.0	0.0	0.47619	0	C|0.995;T|0.005	0.005	strong	.	RIN2	126	.	NM_001242581	exon3	c.C231T	p.I77I	GGAGATCGGAGAA	.	PASS	Atlas-SNP
POLD3	10714	hgsc.bcm.edu	37	11	74347275	74347275	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	163.0	60.0	151.0	0.0	0.368098	0	.	.	none	POLD3_ENST00000263681,NS,carcinoma,0,2	POLD3	87	2	NM_006591	exon11	c.C1153T	p.R385C	CGAAAACGCGTAC	.	PASS	Atlas-SNP
CCDC11	220136	hgsc.bcm.edu	37	18	47788544	47788544	+	Silent	SNP	T	T	G	rs112087763	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	100.0	52.0	74.0	0.0	0.52	0	T|0.997;G|0.003	0.003	strong	.	CCDC11	59	.	NM_145020	exon2	c.A115C	p.R39R	GGATTCTTTCTAG	.	PASS	Atlas-SNP
CREB3L3	84699	hgsc.bcm.edu	37	19	4159722	4159722	+	Silent	SNP	C	C	T	rs144868958	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	66.0	30.0	41.0	0.0	0.454545	0	C|0.998;T|0.002	0.002	strong	.	CREB3L3	53	.	NM_001271997	exon4	c.C519T	p.S173S	CCTGTCCCCACGA	.	PASS	Atlas-SNP
GPR35	2859	hgsc.bcm.edu	37	2	241569492	241569492	+	Silent	SNP	G	G	C	rs61734451	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	80.0	36.0	79.0	0.0	0.45	0	G|0.990;C|0.010	0.010	strong	.	GPR35	43	.	NM_001195382	exon6	c.G216C	p.A72A	CCTGGCGCTCTGG	.	PASS	Atlas-SNP
TFR2	7036	hgsc.bcm.edu	37	7	100226937	100226937	+	Silent	SNP	G	G	A	rs368298121		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	49.0	29.0	50.0	0.0	0.591837	0	.	.	weak	TFR2,NS,carcinoma,-1,1	TFR2	53	1	NM_003227	exon10	c.C1329T	p.S443S	CACAGCGGATTTA	.	PASS	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	37	19	39229075	39229075	+	Silent	SNP	C	C	T	rs201486563	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	41.0	16.0	41.0	0.0	0.390244	0	C|1.000;T|0.000	0.000	strong	.	CAPN12	43	.	NM_144691	exon7	c.G873A	p.T291T	GGCCCCCGTCCAC	.	PASS	Atlas-SNP
SP140L	93349	hgsc.bcm.edu	37	2	231256814	231256814	+	Missense_Mutation	SNP	A	A	G	rs183267141	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	155.0	78.0	150.0	0.0	0.503226	0	A|0.997;G|0.003	0.003	strong	.	SP140L	68	.	NM_138402	exon12	c.A977G	p.K326R	TGGCAAAGTGTAT	.	PASS	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43152366	43152366	+	Silent	SNP	C	C	A	rs41274928	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	185.0	84.0	154.0	0.0	0.454054	0	C|0.948;A|0.052	0.052	strong	.	CUL9	248	.	NM_015089	exon2	c.C318A	p.G106G	AGGAGGCCTGGAT	.	PASS	Atlas-SNP
OR1M1	125963	hgsc.bcm.edu	37	19	9203994	9203994	+	Missense_Mutation	SNP	C	C	T	rs61738474	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	185.0	75.0	178.0	0.0	0.405405	0	C|0.987;T|0.013	0.013	strong	OR1M1,NS,carcinoma,0,1	OR1M1	52	1	NM_001004456	exon1	c.C74T	p.T25M	AGGAGACGCTTCT	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124764176	124764176	+	Silent	SNP	T	T	C	rs11820142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	55.0	100.0	0.0	0.5	0	T|0.971;C|0.029	0.029	strong	.	ROBO4	130	.	NM_019055	exon8	c.A1239G	p.P413P	GGAGCCTGGCATA	.	PASS	Atlas-SNP
FTSJD1	55783	hgsc.bcm.edu	37	16	71317545	71317545	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	166.0	74.0	172.0	0.0	0.445783	0	.	.	none	.	FTSJD1	70	.	NM_018348	exon3	c.A2279G	p.E760G	ATTTCTTCTCTCT	.	PASS	Atlas-SNP
WDR49	151790	hgsc.bcm.edu	37	3	167217971	167217971	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	49.0	24.0	66.0	0.0	0.489796	0	.	.	none	.	WDR49	188	.	NM_178824	exon14	c.C1945A	p.Q649K	GAATTTGGGGACG	.	PASS	Atlas-SNP
ZC3H14	79882	hgsc.bcm.edu	37	14	89042232	89042232	+	Silent	SNP	G	G	A	rs147484262	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	76.0	40.0	82.0	0.0	0.526316	0	G|1.000;A|0.000	0.000	strong	.	ZC3H14	71	.	NM_001160104	exon8	c.G1071A	p.K357K	TTTGAAGGCTATA	.	PASS	Atlas-SNP
STAG1	10274	hgsc.bcm.edu	37	3	136062724	136062724	+	Missense_Mutation	SNP	C	C	G	rs34149860	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	164.0	73.0	155.0	0.0	0.445122	0	C|0.914;G|0.086	0.086	strong	.	STAG1	135	.	NM_005862	exon30	c.G3396C	p.Q1132H	TTGAATCTGGTCT	.	PASS	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	37	15	101593597	101593597	+	Silent	SNP	C	C	T	rs41418955	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	21.0	12.0	20.0	0.0	0.571429	0	C|0.993;T|0.007	0.007	strong	.	LRRK1	310	.	NM_024652	exon26	c.C4026T	p.L1342L	CAGCCTCAACACC	.	PASS	Atlas-SNP
NBEAL1	65065	hgsc.bcm.edu	37	2	203922075	203922075	+	Silent	SNP	A	A	G	rs146121994	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	49.0	28.0	53.0	0.0	0.571429	0	A|0.997;G|0.003	0.003	strong	.	NBEAL1	266	.	NM_001114132	exon6	c.A414G	p.E138E	GAAGGAAATGGCA	.	PASS	Atlas-SNP
PRKD3	23683	hgsc.bcm.edu	37	2	37518105	37518105	+	Silent	SNP	A	A	G	rs138302731	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	91.0	43.0	91.0	0.0	0.472527	0	A|1.000;G|0.000	0.000	strong	.	PRKD3	170	.	NM_005813	exon3	c.T465C	p.H155H	GAGAGTATGTGGA	.	PASS	Atlas-SNP
RNF112	7732	hgsc.bcm.edu	37	17	19316656	19316656	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	98.0	49.0	101.0	0.0	0.5	0	.	.	none	.	RNF112	37	.	NM_007148	exon5	c.G652A	p.A218T	TGGGGCGCCAATG	.	PASS	Atlas-SNP
GFM1	85476	hgsc.bcm.edu	37	3	158408032	158408032	+	Missense_Mutation	SNP	G	G	A	rs62288347	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	101.0	49.0	95.0	0.0	0.485149	0	G|0.986;A|0.014	0.014	strong	.	GFM1	83	.	NM_024996	exon16	c.G1990A	p.V664I	GGACAAGTAATTG	.	PASS	Atlas-SNP
CALCR	799	hgsc.bcm.edu	37	7	93108763	93108763	+	Silent	SNP	G	G	C	rs144326254	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	276.0	132.0	266.0	1.0	0.478261	0.0037594	G|0.995;C|0.005	0.005	strong	.	CALCR	200	.	NM_001164737	exon5	c.C162G	p.P54P	TGGCTTGGGCTCT	.	PASS	Atlas-SNP
EPHA10	284656	hgsc.bcm.edu	37	1	38184343	38184343	+	Missense_Mutation	SNP	T	T	C	rs201769517	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	149.0	83.0	138.0	0.0	0.557047	0	T|0.998;C|0.002	0.002	strong	.	EPHA10	120	.	NM_001099439	exon16	c.A2902G	p.M968V	CAGTCATCTCGGC	.	PASS	Atlas-SNP
TMEM81	388730	hgsc.bcm.edu	37	1	205052998	205052998	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	138.0	61.0	155.0	1.0	0.442029	0.00645161	.	.	none	TMEM81,NS,carcinoma,+2,1	TMEM81	23	1	NM_203376	exon1	c.C451A	p.Q151K	ACTCCTGAGCATA	.	scavenged	Atlas-SNP
SOX7	83595	hgsc.bcm.edu	37	8	10583616	10583616	+	Missense_Mutation	SNP	C	C	T	rs180762782	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	78.0	34.0	65.0	0.0	0.435897	0	C|0.997;T|0.003	0.003	strong	.	SOX7	50	.	NM_031439	exon2	c.G799A	p.G267S	AGACGCCGGGGGA	.	PASS	Atlas-SNP
ASAH2	56624	hgsc.bcm.edu	37	10	52005057	52005057	+	Silent	SNP	T	T	C	rs201282742	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	173.0	85.0	195.0	0.0	0.491329	0	T|0.999;C|0.001	0.001	weak	.	ASAH2	69	.	NM_019893	exon2	c.A285G	p.L95L	CTGAAATAGAGGA	.	PASS	Atlas-SNP
SLC46A1	113235	hgsc.bcm.edu	37	17	26731959	26731959	+	Silent	SNP	G	G	C	rs185900287	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	129.0	72.0	101.0	0.0	0.55814	0	G|0.999;C|0.001	0.001	strong	.	SLC46A1	17	.	NM_001242366	exon2	c.C756G	p.V252V	GAGCTGGACAATG	.	PASS	Atlas-SNP
KRIT1	889	hgsc.bcm.edu	37	7	91864857	91864857	+	Missense_Mutation	SNP	T	T	C	rs140396626	bycluster	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	118.0	61.0	110.0	0.0	0.516949	0	T|1.000;C|0.000	0.000	weak	.	KRIT1	66	.	NM_194456	exon9	c.A589G	p.T197A	ATTCAGTAGCATA	.	PASS	Atlas-SNP
MYSM1	114803	hgsc.bcm.edu	37	1	59126851	59126851	+	Silent	SNP	A	A	G	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	59.0	27.0	54.0	0.0	0.457627	0	.	.	none	.	MYSM1	50	.	NM_001085487	exon19	c.T2319C	p.C773C	CTGCAAACAAGTC	.	PASS	Atlas-SNP
ADAMTSL3	57188	hgsc.bcm.edu	37	15	84639314	84639314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	102.0	58.0	97.0	0.0	0.568627	0	.	.	none	.	ADAMTSL3	290	.	NM_207517	exon20	c.C2569T	p.P857S	CGCATCCCCCTCA	.	PASS	Atlas-SNP
FLT3	2322	hgsc.bcm.edu	37	13	28608459	28608459	+	Silent	SNP	T	T	C	rs34374211	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	137.0	71.0	134.0	0.0	0.518248	0	T|0.897;C|0.103	0.103	strong	FLT3,colon,carcinoma,-2,8	FLT3	15525	8	NM_004119	exon13	c.A1683G	p.L561L	ACAAATTAGCAGG	.	PASS	Atlas-SNP
RRP1B	23076	hgsc.bcm.edu	37	21	45106786	45106786	+	Missense_Mutation	SNP	T	T	G	rs138939671	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	27.0	12.0	36.0	0.0	0.444444	0	T|0.996;G|0.004	0.004	strong	.	RRP1B	51	.	NM_015056	exon12	c.T1111G	p.L371V	AAACTTTTAGAGA	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	37	17	48761385	48761385	+	Missense_Mutation	SNP	A	A	G	rs150601692	bycluster;byfrequency	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	85.0	60.0	56.0	0.0	0.705882	0	A|0.999;G|0.001	0.001	strong	.	ABCC3	138	.	NM_003786	exon28	c.A4030G	p.K1344E	GCGGCAAAGGGTG	.	PASS	Atlas-SNP
SCN8A	6334	hgsc.bcm.edu	37	12	52162823	52162823	+	Missense_Mutation	SNP	C	C	T	rs117217073	bycluster;byfrequency;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	110.0	45.0	91.0	0.0	0.409091	0	C|0.991;T|0.009	0.009	strong	.	SCN8A	331	.	NM_014191	exon17	c.C3076T	p.R1026C	AAGCAGCGTGAGG	.	PASS	Atlas-SNP
PTPRG	5793	hgsc.bcm.edu	37	3	61989028	61989028	+	Missense_Mutation	SNP	A	A	G	rs140777402	bycluster;by1000genomes	TCGA-G8-6326-01A-11D-2210-10	TCGA-G8-6326-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	6ae5496e-cf5b-4e6d-8bb1-a2c0cb904077	7b21bfff-b5f1-4796-b0bc-d4c529ebcbfd	87.0	40.0	103.0	0.0	0.45977	0	A|1.000;G|0.000	0.000	strong	PTPRG,NS,malignant_melanoma,-2,1	PTPRG	153	1	NM_002841	exon4	c.A376G	p.I126V	GTCGCCATCCTTC	.	PASS	Atlas-SNP
