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
C1orf170	84808	hgsc.bcm.edu	37	1	915431	915431	+	RNA	DEL	C	C	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	13	196	0	0.0684211	0	.	.	none	.	C1orf170	5	.	.	.	.	.	.	.	PASS	Atlas-Indel
HLA-B	3106	hgsc.bcm.edu	37	6	31324601	31324602	+	Frame_Shift_Ins	INS	-	-	G	rs9281379	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	12	128	0	0.324324	0	.	.	weak	.	HLA-B	54	.	NM_005514	exon2	c.207_208insC	p.E69fs	.	.	PASS	Atlas-Indel
HERC4	26091	hgsc.bcm.edu	37	10	69785435	69785436	+	Splice_Site	INS	-	-	A	rs3834396	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	19	61	.	0.452	.	-|0.798;A|0.202	0.202	strong	.	HERC4	78	.	NM_022079	exon9	c.778-2->T	.	.	.	PASS	Pindel,Atlas-Indel
NUP54	53371	hgsc.bcm.edu	37	4	77065318	77065319	+	In_Frame_Ins	INS	-	-	TGT	rs36024409	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	26	102	.	0.215	.	-|0.827;TGT|0.173	0.173	strong	NUP54,NS,carcinoma,0,1	NUP54	48	1	NM_017426	exon3	c.279_280insACA	p.Q93delinsQQ	.	.	PASS	Pindel,Atlas-Indel
KIAA0040	9674	hgsc.bcm.edu	37	1	175129946	175129946	+	Frame_Shift_Del	DEL	C	C	-	rs60195884	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	10	90	0	0.0884956	0	-|1.000	.	weak	.	KIAA0040	2	.	NM_001162893	exon5	c.205delA	p.K69fs	.	.	PASS	Atlas-Indel
ROBO3	64221	hgsc.bcm.edu	37	11	124750448	124750453	+	In_Frame_Del	DEL	CGGAGT	CGGAGT	-	rs71859853	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CGGAGT	CGGAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	15	44	.	0.254	.	CGGAGT|0.626;-|0.374	0.374	strong	.	ROBO3	199	.	NM_022370	exon27	c.4092_4097del	p.1364_1366del	.	.	PASS	Pindel,Atlas-Indel
KIAA1751	85452	hgsc.bcm.edu	37	1	1887112	1887112	+	Frame_Shift_Del	DEL	C	C	-	rs3838975	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	34	81	0	0.472222	0	C|0.783;-|0.217	0.217	strong	.	KIAA1751	92	.	NM_001080484	exon18	c.2195delC	p.A732fs	.	.	PASS	Atlas-Indel
RP1L1	94137	hgsc.bcm.edu	37	8	10467673	10467682	+	Frame_Shift_Del	DEL	CCTTCTGTTC	CCTTCTGTTC	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CCTTCTGTTC	CCTTCTGTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	10	90	0	0.178571	0	.	.	none	.	RP1L1	453	.	NM_178857	exon4	c.3927_3936del	p.1309_1312del	.	.	PASS	Atlas-Indel
PYGL	5836	hgsc.bcm.edu	37	14	51378591	51378591	+	Splice_Site	DEL	T	T	-	rs11356035	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	82	141	.	0.569	.	T|0.468;-|0.532	0.532	strong	.	PYGL	77	.	NM_001163940	exon16	c.1726-1A>-	.	.	.	PASS	Pindel,Atlas-Indel
KIAA1211	57482	hgsc.bcm.edu	37	4	57180576	57180577	+	In_Frame_Ins	INS	-	-	GGAGCGGAGGGAGCGGAG	rs138358443	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	11	20	0	0.578947	0	.	.	strong	.	KIAA1211	178	.	NM_020722	exon8	c.908_909insGGAGCGGAGGGAGCGGAG	p.A303delinsAERRERR	.	.	PASS	Atlas-Indel
ZNF271	10778	hgsc.bcm.edu	37	18	32890334	32890338	+	RNA	DEL	TATTT	TATTT	-	rs144804783	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TATTT	TATTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	52	81	.	0.413	.	TATTT|0.931;-|0.069	0.069	strong	.	ZNF271	16	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
DNAJC28	54943	hgsc.bcm.edu	37	21	34860750	34860754	+	Frame_Shift_Del	DEL	AATTA	AATTA	-	rs139852262	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AATTA	AATTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	38	119	.	0.336	.	AATTA|0.826;-|0.174	0.174	strong	.	DNAJC28	47	.	NM_001040192	exon2	c.948_952del	p.316_318del	.	.	PASS	Pindel,Atlas-Indel
TCEB3CL2	100506888	hgsc.bcm.edu	37	18	44543098	44543099	+	Frame_Shift_Ins	INS	-	-	GC	rs373334809		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	250	19	280	0	0.076	0	.	.	weak	.	.	.	.	NM_001242907	exon1	c.1274_1275insGC	p.Q425fs	.	.	PASS	Atlas-Indel
PRSS3	5646	hgsc.bcm.edu	37	9	33796691	33796693	+	In_Frame_Del	DEL	GAG	GAG	-	rs143332708	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	33	164	.	0.258	.	GAG|0.875;-|0.125	0.125	strong	.	PRSS3	79	.	NM_007343	exon2	c.261_263del	p.87_88del	.	.	PASS	Pindel,Atlas-Indel
FAM98B	283742	hgsc.bcm.edu	37	15	38776807	38776815	+	In_Frame_Del	DEL	GGTGGTGGT	GGTGGTGGT	-	rs201831942	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GGTGGTGGT	GGTGGTGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	10	59	0	0.188679	0	GGTGGTGGT|0.896;-|0.104	0.104	strong	.	FAM98B	53	.	NM_173611	exon8	c.1248_1256del	p.416_419del	.	.	PASS	Atlas-Indel
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885568	+	In_Frame_Ins	INS	-	-	AAGTCCCCTGAGAAGGCC	rs147489453	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	14	30	0	0.333333	0	.	.	strong	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.1938_1939insAAGTCCCCTGAGAAGGCC	p.A646delinsAKSPEKA	.	.	PASS	Atlas-Indel
KRT1	3848	hgsc.bcm.edu	37	12	53069223	53069243	+	In_Frame_Del	DEL	ACCTCCGGAGCCGTAGCTGCT	ACCTCCGGAGCCGTAGCTGCT	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ACCTCCGGAGCCGTAGCTGCT	ACCTCCGGAGCCGTAGCTGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	15	13	0	0.555556	0	.	.	none	.	KRT1	110	.	NM_006121	exon9	c.1670_1690del	p.557_564del	.	.	PASS	Atlas-Indel
ANP32E	81611	hgsc.bcm.edu	37	1	150199040	150199045	+	In_Frame_Del	DEL	TCCTCT	TCCTCT	-	rs68136184	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TCCTCT	TCCTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	33	67	0	0.305556	0	TCCTCT|0.685;-|0.315	0.315	strong	.	ANP32E	28	.	NM_030920	exon5	c.577_582del	p.193_194del	.	.	PASS	Atlas-Indel
HCLS1	3059	hgsc.bcm.edu	37	3	121351315	121351316	+	In_Frame_Ins	INS	-	-	GGCTCAGGCTCA	rs150627065	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	11	102	0	0.0982143	0	-|0.731;GGCTCAGGCTCA|0.269	0.269	strong	HCLS1,caecum,carcinoma,0,1	HCLS1	78	1	NM_005335	exon12	c.1104_1105insTGAGCCTGAGCC	p.P368delinsPEPEP	.	.	PASS	Atlas-Indel
UBTFL1	642623	hgsc.bcm.edu	37	11	89819888	89819889	+	Frame_Shift_Ins	INS	-	-	T	rs377696645	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	10	36	0	0.3125	0	.	.	weak	.	.	.	.	NM_001143975	exon1	c.771_772insT	p.R257fs	.	.	PASS	Atlas-Indel
TAP1	6890	hgsc.bcm.edu	37	6	32814856	32814859	+	Frame_Shift_Del	DEL	TGTT	TGTT	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TGTT	TGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	10	28	0	0.285714	0	.	.	none	.	TAP1	39	.	NM_000593	exon10	c.2207_2210del	p.736_737del	.	.	PASS	Atlas-Indel
OR2B11	127623	hgsc.bcm.edu	37	1	247615262	247615262	+	Frame_Shift_Del	DEL	A	A	-	rs35305980	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	62	88	.	0.614	.	A|0.570;-|0.430	0.430	strong	.	OR2B11	102	.	NM_001004492	exon1	c.24delC	p.F8fs	.	.	PASS	Pindel,Atlas-Indel
TOX2	84969	hgsc.bcm.edu	37	20	42694558	42694559	+	In_Frame_Ins	INS	-	-	CCG	rs199841880	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	11	31	.	0.204	.	-|0.893;CCG|0.107	0.107	strong	TOX2_ENST00000348077,colon,carcinoma,+2,2	TOX2	158	2	NM_001098797	exon7	c.1167_1168insCCG	p.S389delinsSP	.	.	PASS	Pindel,Atlas-Indel
KIAA1751	85452	hgsc.bcm.edu	37	1	1887092	1887092	+	Frame_Shift_Del	DEL	G	G	-	rs139735565	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	31	78	0	0.430556	0	G|0.777;-|0.223	0.223	strong	.	KIAA1751	92	.	NM_001080484	exon18	c.2215delG	p.G739fs	.	.	PASS	Atlas-Indel
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324229	39324230	+	In_Frame_Ins	INS	-	-	GCAGCAGGTGGTCAG	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	31	129	0	0.173184	0	.	.	none	.	KRTAP4-3	40	.	NM_033187	exon1	c.196_197insCTGACCACCTGCTGC	p.R66delinsLTTCCR	.	.	PASS	Atlas-Indel
ZP3	7784	hgsc.bcm.edu	37	7	76071183	76071184	+	Frame_Shift_Ins	INS	-	-	G	rs3215870	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	472	43	435	0	0.0911017	0	.	.	weak	.	ZP3	32	.	NM_001110354	exon8	c.1085_1086insG	p.V362fs	.	.	PASS	Atlas-Indel
PROSER1	80209	hgsc.bcm.edu	37	13	39588144	39588146	+	In_Frame_Del	DEL	AGC	AGC	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AGC	AGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	37	108	.	0.327	.	.	.	none	.	.	.	.	NM_025138	exon11	c.1244_1246del	p.415_416del	.	.	PASS	Pindel,Atlas-Indel
PRKRA	8575	hgsc.bcm.edu	37	2	179315735	179315736	+	Frame_Shift_Del	DEL	GC	GC	-	rs141354030	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	15	14	0	0.394737	0	GC|0.847;-|0.153	0.153	strong	.	PRKRA	56	.	NM_003690	exon1	c.23_24del	p.8_8del	.	.	PASS	Atlas-Indel
APBB2	323	hgsc.bcm.edu	37	4	41016418	41016418	+	Splice_Site	DEL	G	G	-	rs201401961	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	12	136	0	0.0991736	0	G|0.971;-|0.029	0.029	strong	.	APBB2	61	.	NM_001166050	exon7	c.20-2C>-	.	.	.	PASS	Atlas-Indel
ACTR8	93973	hgsc.bcm.edu	37	3	53910109	53910110	+	Splice_Site	INS	-	-	G	rs370490982	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	25	60	0	0.2	0	.	.	weak	.	ACTR8	56	.	NM_022899	exon8	c.779-2->C	.	.	.	PASS	Atlas-Indel
SLAMF8	56833	hgsc.bcm.edu	37	1	159799824	159799825	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	42	69	.	0.438	.	.	.	none	.	SLAMF8	30	.	NM_020125	exon2	c.208_209del	p.70_70del	.	.	PASS	Pindel,Atlas-Indel
RIMBP3	85376	hgsc.bcm.edu	37	22	20460113	20460115	+	In_Frame_Del	DEL	CCG	CCG	-	rs77846076	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	26	7	0	0.866667	0	.	.	alt	.	RIMBP3	42	.	NM_015672	exon1	c.1188_1190del	p.396_397del	.	.	PASS	Atlas-Indel
LINC00619	414260	hgsc.bcm.edu	37	10	44340783	44340784	+	RNA	INS	-	-	C	rs113953295	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	21	72	.	0.304	.	-|0.886;C|0.114	0.114	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
TDRD3	81550	hgsc.bcm.edu	37	13	61102576	61102578	+	In_Frame_Del	DEL	ATA	ATA	-	rs148917045	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ATA	ATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	14	63	.	0.233	.	ATA|0.894;-|0.106	0.106	strong	TDRD3_ENST00000535286,NS,carcinoma,0,4	TDRD3	123	4	NM_001146070	exon11	c.1216_1218del	p.406_406del	.	.	PASS	Pindel,Atlas-Indel
FAM193A	8603	hgsc.bcm.edu	37	4	2632799	2632800	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	12	113	0	0.0944882	0	.	.	none	.	FAM193A	103	.	NM_001256666	exon3	c.68_69insC	p.G23fs	.	.	PASS	Atlas-Indel
BEND7	222389	hgsc.bcm.edu	37	10	13481174	13481175	+	Frame_Shift_Del	DEL	AG	AG	-	rs10590401	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	45	113	.	0.300	.	AG|0.960;-|0.040	0.040	strong	.	BEND7	85	.	NM_152751	exon9	c.1405_1406del	p.469_469del	.	.	PASS	Pindel,Atlas-Indel
CC2D2A	57545	hgsc.bcm.edu	37	4	15513005	15513007	+	In_Frame_Del	DEL	GAA	GAA	-	rs112367037	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	21	90	.	0.273	.	GAA|0.958;-|0.042	0.042	strong	.	CC2D2A	158	.	NM_001080522	exon9	c.675_677del	p.225_226del	.	.	PASS	Pindel,Atlas-Indel
PRR25	388199	hgsc.bcm.edu	37	16	863356	863372	+	Frame_Shift_Del	DEL	GGACGCCGGACCGACAC	GGACGCCGGACCGACAC	-	rs113623365		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GGACGCCGGACCGACAC	GGACGCCGGACCGACAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	12	52	.	0.255	.	GGACGCCGGACCGACAC|0.500;-|0.500	0.500	weak	.	PRR25	27	.	NM_001013638	exon3	c.703_719del	p.235_240del	.	.	PASS	Pindel,Atlas-Indel
TP53TG5	27296	hgsc.bcm.edu	37	20	44004156	44004158	+	In_Frame_Del	DEL	ATT	ATT	-	rs10546815	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ATT	ATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	35	45	.	0.686	.	ATT|0.574;-|0.426	0.426	strong	.	TP53TG5	36	.	NM_014477	exon4	c.290_292del	p.97_98del	.	.	PASS	Pindel,Atlas-Indel
PNPLA7	375775	hgsc.bcm.edu	37	9	140444627	140444628	+	Frame_Shift_Ins	INS	-	-	T	rs372921391		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	19	42	.	0.528	.	.	.	weak	.	PNPLA7	124	.	NM_152286	exon1	c.23_24insA	p.S8fs	.	.	PASS	Pindel,Atlas-Indel
CHD9	80205	hgsc.bcm.edu	37	16	53338410	53338412	+	In_Frame_Del	DEL	TTC	TTC	-	rs56028815	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	242	59	233	.	0.244	.	TTC|0.986;-|0.014	0.014	strong	.	CHD9	203	.	NM_025134	exon31	c.6491_6493del	p.2164_2165del	.	.	PASS	Pindel,Atlas-Indel
SBNO1	55206	hgsc.bcm.edu	37	12	123794283	123794283	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	11	133	0	0.0791367	0	.	.	none	.	SBNO1	138	.	NM_001167856	exon25	c.3417delT	p.N1139fs	.	.	PASS	Atlas-Indel
APOB	338	hgsc.bcm.edu	37	2	21233099	21233101	+	In_Frame_Del	DEL	TCA	TCA	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	17	41	.	0.370	.	.	.	none	.	APOB	761	.	NM_000384	exon26	c.6640_6642del	p.2214_2214del	.	.	PASS	Pindel,Atlas-Indel
DHRS4L2	317749	hgsc.bcm.edu	37	14	24470690	24470691	+	Frame_Shift_Ins	INS	-	-	A	rs368539076		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	382	35	624	0	0.091623	0	.	.	weak	.	DHRS4L2	29	.	NM_198083	exon6	c.629_630insA	p.L210fs	.	.	PASS	Atlas-Indel
SPAG8	26206	hgsc.bcm.edu	37	9	35811486	35811497	+	In_Frame_Del	DEL	CCAGGACCAGAG	CCAGGACCAGAG	-	rs113712230		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CCAGGACCAGAG	CCAGGACCAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	12	34	0	0.352941	0	CCAGGACCAGAG|0.500;-|0.500	0.500	weak	.	SPAG8	67	.	NM_001039592	exon2	c.547_558del	p.183_186del	.	.	PASS	Atlas-Indel
SPATA21	374955	hgsc.bcm.edu	37	1	16727305	16727306	+	In_Frame_Ins	INS	-	-	CTT	rs139527123	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	41	117	.	0.313	.	-|0.888;CTT|0.112	0.112	strong	SPATA21,NS,carcinoma,+1,1	SPATA21	47	1	NM_198546	exon11	c.1084_1085insAAG	p.L362delinsKL	.	.	PASS	Pindel,Atlas-Indel
KRTAP29-1	100533177	hgsc.bcm.edu	37	17	39458574	39458586	+	Frame_Shift_Del	DEL	GTACAGATGGTTG	GTACAGATGGTTG	-	rs144150438	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GTACAGATGGTTG	GTACAGATGGTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	10	42	0	0.25641	0	.	.	strong	.	KRTAP29-1	2	.	NM_001257309	exon1	c.519_531del	p.173_177del	.	.	PASS	Atlas-Indel
ZBTB33	10009	hgsc.bcm.edu	37	X	119387833	119387834	+	In_Frame_Ins	INS	-	-	TGA	rs201958171	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	46	76	.	0.517	.	-|0.437;TGA|0.563	0.563	strong	.	ZBTB33	72	.	NM_006777	exon2	c.563_564insTGA	p.S188delinsSD	.	.	PASS	Pindel,Atlas-Indel
ANLN	54443	hgsc.bcm.edu	37	7	36447349	36447350	+	In_Frame_Ins	INS	-	-	CTT	rs143969069	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	28	61	.	0.255	.	-|0.542;CTT|0.458	0.458	strong	ANLN,caecum,carcinoma,0,2	ANLN	101	2	NM_018685	exon5	c.880_881insCTT	p.T294delinsTS	.	.	PASS	Pindel,Atlas-Indel
UGDH	7358	hgsc.bcm.edu	37	4	39515807	39515813	+	Splice_Site	DEL	AAAAAGA	AAAAAGA	-	rs151116497	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AAAAAGA	AAAAAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	23	88	.	0.307	.	.	.	strong	.	UGDH	52	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
ENO4	387712	hgsc.bcm.edu	37	10	118609160	118609160	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	41	124	.	0.287	.	.	.	none	.	ENO4	1	.	NM_001242699	exon1	c.82delC	p.R28fs	.	.	PASS	Pindel,Atlas-Indel
RP1L1	94137	hgsc.bcm.edu	37	8	10467685	10467686	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	10	86	0	0.15625	0	.	.	none	.	RP1L1	453	.	NM_178857	exon4	c.3923_3924insT	p.E1308fs	.	.	PASS	Atlas-Indel
ZNF772	400720	hgsc.bcm.edu	37	19	57988666	57988667	+	In_Frame_Ins	INS	-	-	GCC	rs34678661	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	31	176	.	0.189	.	GCC|1.000;|0.000	1.000	strong	ZNF772,colon,carcinoma,0,1	ZNF772	42	1	NM_001144068	exon1	c.12_13insGGC	p.A4delinsAA	.	.	PASS	Pindel,Atlas-Indel
PCDH12	51294	hgsc.bcm.edu	37	5	141324955	141324956	+	In_Frame_Ins	INS	-	-	CTGCTGCTG	rs5871792	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	14	88	.	0.187	.	.	.	strong	PCDH12,colon,carcinoma,0,1	PCDH12	133	1	NM_016580	exon4	c.3546_3547insCAGCAGCAG	p.R1182delinsSSSR	.	.	PASS	Pindel,Atlas-Indel
OR9K2	441639	hgsc.bcm.edu	37	12	55523587	55523587	+	Frame_Shift_Del	DEL	T	T	-	rs58036029	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	26	110	.	0.289	.	T|0.711;-|0.289	0.289	strong	.	OR9K2	63	.	NM_001005243	exon1	c.34delA	p.I12fs	.	.	PASS	Pindel,Atlas-Indel
SHROOM4	57477	hgsc.bcm.edu	37	X	50350758	50350759	+	In_Frame_Ins	INS	-	-	TGCTGCTGCTGT	rs201922875	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	10	55	.	0.370	.	-|0.664;TGCTGCTGCTGT|0.336	0.336	strong	.	SHROOM4	171	.	NM_020717	exon6	c.3384_3385insACAGCAGCAGCA	p.Q1128delinsQQQQQ	.	.	PASS	Pindel,Atlas-Indel
CARD10	29775	hgsc.bcm.edu	37	22	37906309	37906314	+	In_Frame_Del	DEL	CTCCTT	CTCCTT	-	rs113275238	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CTCCTT	CTCCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	11	26	.	0.478	.	CTCCTT|0.500;-|0.500	0.500	strong	.	CARD10	55	.	NM_014550	exon4	c.815_820del	p.272_274del	.	.	PASS	Pindel,Atlas-Indel
SLC38A10	124565	hgsc.bcm.edu	37	17	79219501	79219503	+	In_Frame_Del	DEL	ATG	ATG	-	rs10569617	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ATG	ATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	85	188	.	0.475	.	ATG|0.576;-|0.424	0.424	strong	.	SLC38A10	133	.	NM_001037984	exon16	c.3214_3216del	p.1072_1072del	.	.	PASS	Pindel,Atlas-Indel
AKD1	221264	hgsc.bcm.edu	37	6	109906330	109906332	+	In_Frame_Del	DEL	CTT	CTT	-	rs71770197	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	16	50	.	0.390	.	CTT|0.626;-|0.374	0.374	strong	.	AKD1	223	.	NM_001145128	exon19	c.2109_2111del	p.703_704del	.	.	PASS	Pindel,Atlas-Indel
MIR550A1	693133	hgsc.bcm.edu	37	7	30329454	30329456	+	RNA	DEL	TGT	TGT	-	rs373052300		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	241	39	74	.	0.162	.	.	.	weak	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
HACE1	57531	hgsc.bcm.edu	37	6	105192108	105192110	+	Splice_Site	DEL	AAC	AAC	-	rs72218235	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	35	116	.	0.372	.	AAC|0.835;-|0.165	0.165	strong	.	HACE1	96	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
OR52D1	390066	hgsc.bcm.edu	37	11	5510540	5510541	+	Frame_Shift_Ins	INS	-	-	GGCT	rs146317894	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	24	131	.	0.226	.	.	.	strong	.	OR52D1	66	.	NM_001005163	exon1	c.604_605insGGCT	p.G202fs	.	.	PASS	Pindel,Atlas-Indel
DEFB126	81623	hgsc.bcm.edu	37	20	126156	126159	+	Frame_Shift_Del	DEL	CAAA	CAAA	-	rs11467497	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CAAA	CAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	31	119	.	0.282	.	CAAA|0.834;-|0.166	0.166	strong	.	DEFB126	52	.	NM_030931	exon2	c.158_161del	p.53_54del	.	.	PASS	Pindel,Atlas-Indel
EFCAB4A	283229	hgsc.bcm.edu	37	11	831552	831553	+	Frame_Shift_Ins	INS	-	-	GC	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	20	60	.	0.282	.	.	.	none	.	EFCAB4A	16	.	NM_173584	exon9	c.876_877insGC	p.A292fs	.	.	PASS	Pindel,Atlas-Indel
HOMEZ	57594	hgsc.bcm.edu	37	14	23744801	23744803	+	In_Frame_Del	DEL	CAT	CAT	-	rs148005528	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CAT	CAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	33	114	.	0.324	.	.	.	strong	.	HOMEZ	80	.	NM_020834	exon2	c.1635_1637del	p.545_546del	.	.	PASS	Pindel,Atlas-Indel
CCDC66	285331	hgsc.bcm.edu	37	3	56650051	56650052	+	In_Frame_Ins	INS	-	-	CTT	rs77152637	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	40	85	.	0.367	.	-|0.298;CTT|0.702	0.702	strong	.	CCDC66	145	.	NM_001141947	exon13	c.1813_1814insCTT	p.T605delinsTS	.	.	PASS	Pindel,Atlas-Indel
TMEM87B	84910	hgsc.bcm.edu	37	2	112832536	112832538	+	In_Frame_Del	DEL	AAT	AAT	-	rs71385858	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	217	42	262	.	0.194	.	AAT|0.722;-|0.278	0.278	strong	.	TMEM87B	52	.	NM_032824	exon5	c.497_499del	p.166_167del	.	.	PASS	Pindel,Atlas-Indel
SCRN3	79634	hgsc.bcm.edu	37	2	175292581	175292593	+	Frame_Shift_Del	DEL	TCAAATTTATCAG	TCAAATTTATCAG	-	rs145699077	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TCAAATTTATCAG	TCAAATTTATCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	263	67	334	.	0.255	.	TCAAATTTATCAG|0.751;-|0.249	0.249	strong	.	SCRN3	76	.	NM_024583	exon8	c.1232_1244del	p.411_415del	.	.	PASS	Pindel,Atlas-Indel
PSORS1C2	170680	hgsc.bcm.edu	37	6	31105858	31105858	+	Frame_Shift_Del	DEL	G	G	-	rs79153019	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	11	53	.	0.208	.	G|0.946;-|0.054	0.054	strong	.	PSORS1C2	11	.	NM_014069	exon2	c.282delT	p.P94fs	.	.	PASS	Pindel,Atlas-Indel
ATF7IP2	80063	hgsc.bcm.edu	37	16	10524657	10524659	+	In_Frame_Del	DEL	GAC	GAC	-	rs56252625	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GAC	GAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	81	190	.	0.503	.	GAC|0.396;-|0.604	0.604	strong	.	ATF7IP2	40	.	NM_001256160	exon4	c.179_181del	p.60_61del	.	.	PASS	Pindel,Atlas-Indel
UBAC1	10422	hgsc.bcm.edu	37	9	138836942	138836944	+	In_Frame_Del	DEL	CCT	CCT	-	rs140946801	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	35	76	.	0.318	.	CCT|0.815;-|0.185	0.185	strong	.	UBAC1	40	.	NM_016172	exon7	c.807_809del	p.269_270del	.	.	PASS	Pindel,Atlas-Indel
MIR205HG	642587	hgsc.bcm.edu	37	1	209605637	209605648	+	In_Frame_Del	DEL	AGCAGCAGCAGC	AGCAGCAGCAGC	-	rs3842530	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AGCAGCAGCAGC	AGCAGCAGCAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	11	54	.	0.262	.	.	.	strong	.	.	.	.	NM_001104548	exon4	c.251_262del	p.84_88del	.	.	PASS	Pindel,Atlas-Indel
PPM1E	22843	hgsc.bcm.edu	37	17	56833457	56833458	+	In_Frame_Ins	INS	-	-	GAACCC	rs201186780	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	19	121	.	0.181	.	-|0.417;GAACCC|0.583	0.583	strong	PPM1E,colon,carcinoma,0,1	PPM1E	97	1	NM_014906	exon1	c.99_100insGAACCC	p.P33delinsPEP	.	.	PASS	Pindel,Atlas-Indel
FRMPD2	143162	hgsc.bcm.edu	37	10	49379224	49379224	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	214	42	279	0	0.196262	0	.	.	none	FRMPD2,NS,carcinoma,0,1	FRMPD2	157	1	NM_001018071	exon26	c.3252delG	p.K1084fs	.	.	PASS	Atlas-Indel
C22orf43	51233	hgsc.bcm.edu	37	22	23964283	23964285	+	In_Frame_Del	DEL	CAT	CAT	-	rs10564183	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CAT	CAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	10	50	.	0.200	.	.	.	weak	.	C22orf43	18	.	NM_016449	exon4	c.378_380del	p.126_127del	.	.	PASS	Pindel,Atlas-Indel
TCEB3C	162699	hgsc.bcm.edu	37	18	44554940	44554941	+	Frame_Shift_Ins	INS	-	-	GC	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	228	14	338	0	0.0614035	0	.	.	none	.	TCEB3C	49	.	NM_145653	exon1	c.1274_1275insGC	p.Q425fs	.	.	PASS	Atlas-Indel
MIR943	100126332	hgsc.bcm.edu	37	4	1988188	1988189	+	RNA	INS	-	-	CT	rs3034718	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	31	121	.	0.337	.	CT|1.000;|0.000	1.000	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
RIMBP3C	150221	hgsc.bcm.edu	37	22	21904075	21904077	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	189	20	167	0	0.10582	0	.	.	none	.	RIMBP3C	6	.	NM_001128633	exon1	c.1190_1192del	p.397_398del	.	.	PASS	Atlas-Indel
ZNF687	57592	hgsc.bcm.edu	37	1	151263677	151263678	+	In_Frame_Ins	INS	-	-	ACA	rs145032688	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	10	23	.	0.370	.	-|0.977;ACA|0.023	0.023	strong	.	ZNF687	94	.	NM_020832	exon9	c.3706_3707insACA	p.D1236delinsDN	.	.	PASS	Pindel,Atlas-Indel
WDR63	126820	hgsc.bcm.edu	37	1	85598679	85598680	+	Frame_Shift_Ins	INS	-	-	A	rs145165915	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	12	30	.	0.375	.	-|0.938;A|0.062	0.062	strong	.	WDR63	91	.	NM_145172	exon23	c.2674_2675insA	p.X892delinsX	.	.	PASS	Pindel,Atlas-Indel
KRTAP17-1	83902	hgsc.bcm.edu	37	17	39471753	39471767	+	In_Frame_Del	DEL	GCCCCCGCAGCCAGA	GCCCCCGCAGCCAGA	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GCCCCCGCAGCCAGA	GCCCCCGCAGCCAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	12	26	.	0.273	.	.	.	none	.	KRTAP17-1	14	.	NM_031964	exon1	c.137_151del	p.46_51del	.	.	PASS	Pindel,Atlas-Indel
DDX58	23586	hgsc.bcm.edu	37	9	32457307	32457308	+	Frame_Shift_Ins	INS	-	-	AGAA	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	33	108	.	0.320	.	.	.	none	.	DDX58	82	.	NM_014314	exon18	c.2591_2592insTTCT	p.C864fs	.	.	PASS	Pindel,Atlas-Indel
OR2V2	285659	hgsc.bcm.edu	37	5	180582257	180582260	+	Frame_Shift_Del	DEL	TGTC	TGTC	-	rs140598308	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TGTC	TGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	62	198	.	0.297	.	TGTC|0.926;-|0.074	0.074	strong	.	OR2V2	56	.	NM_206880	exon1	c.314_317del	p.105_106del	.	.	PASS	Pindel,Atlas-Indel
OR2A14	135941	hgsc.bcm.edu	37	7	143826730	143826732	+	In_Frame_Del	DEL	CTT	CTT	-	rs66549240	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	40	192	.	0.274	.	CTT|0.441;-|0.559	0.559	strong	.	OR2A14	66	.	NM_001001659	exon1	c.524_526del	p.175_176del	.	.	PASS	Pindel,Atlas-Indel
CCDC66	285331	hgsc.bcm.edu	37	3	56650054	56650055	+	In_Frame_Ins	INS	-	-	CTC	rs112267342	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	26	88	.	0.222	.	CTC|0.250;CTT|0.750	0.250	strong	CCDC66_ENST00000394672,caecum,carcinoma,0,2	CCDC66	145	2	NM_001141947	exon13	c.1816_1817insCTC	p.S606delinsSP	.	.	PASS	Pindel,Atlas-Indel
PKD1L2	114780	hgsc.bcm.edu	37	16	81242149	81242150	+	Frame_Shift_Del	DEL	TT	TT	-	rs55980345	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	11	50	0	0.423077	0	TT|0.500;-|0.500	0.500	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.707_708del	p.236_236del	.	.	PASS	Atlas-Indel
LAD1	3898	hgsc.bcm.edu	37	1	201356001	201356001	+	Frame_Shift_Del	DEL	C	C	-	rs35016536	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	71	122	0	0.514493	0	C|0.948;-|0.052	0.052	strong	.	LAD1	42	.	NM_005558	exon3	c.489delC	p.G163fs	.	.	PASS	Atlas-Indel
CLEC17A	388512	hgsc.bcm.edu	37	19	14694175	14694176	+	In_Frame_Ins	INS	-	-	GGA	rs34295949	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	41	193	0	0.230337	0	-|0.500;GGA|0.500	0.500	weak	.	CLEC17A	27	.	NM_207390	exon2	c.50_51insGGA	p.M17delinsME	.	.	PASS	Atlas-Indel
CDAN1	146059	hgsc.bcm.edu	37	15	43020456	43020457	+	Frame_Shift_Ins	INS	-	-	TGAC	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	19	63	.	0.317	.	.	.	none	.	CDAN1	70	.	NM_138477	exon21	c.2814_2815insGTCA	p.Q938fs	.	.	PASS	Pindel,Atlas-Indel
OR52N1	79473	hgsc.bcm.edu	37	11	5809807	5809807	+	Frame_Shift_Del	DEL	A	A	-	rs142442713	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	33	120	.	0.344	.	A|0.979;-|0.021	0.021	strong	.	OR52N1	70	.	NM_001001913	exon1	c.241delC	p.P81fs	.	.	PASS	Pindel,Atlas-Indel
NCOA3	8202	hgsc.bcm.edu	37	20	46279837	46279839	+	In_Frame_Del	DEL	CAG	CAG	-	rs147879509	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	21	76	0	0.28	0	CAG|0.669;-|0.331	0.331	strong	NCOA3,NS,carcinoma,0,1	NCOA3	156	1	NM_181659	exon20	c.3762_3764del	p.1254_1255del	.	.	PASS	Atlas-Indel
GPR50	9248	hgsc.bcm.edu	37	X	150349558	150349569	+	In_Frame_Del	DEL	CACCACTGGCCA	CACCACTGGCCA	-	rs68058591	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CACCACTGGCCA	CACCACTGGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	16	75	.	0.444	.	CACCACTGGCCA|0.500;-|0.500	0.500	weak	.	GPR50	195	.	NM_004224	exon2	c.1502_1513del	p.501_505del	.	.	PASS	Pindel,Atlas-Indel
FCN3	8547	hgsc.bcm.edu	37	1	27699671	27699671	+	Frame_Shift_Del	DEL	G	G	-	rs28357092	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	50	184	.	0.286	.	G|0.985;-|0.015	0.015	strong	.	FCN3	30	.	NM_003665	exon5	c.350delT	p.L117fs	.	.	PASS	Pindel,Atlas-Indel
HLA-B	3106	hgsc.bcm.edu	37	6	31324604	31324604	+	Frame_Shift_Del	DEL	T	T	-	rs200186034	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	12	131	0	0.352941	0	T|0.467;-|0.533	0.533	strong	.	HLA-B	54	.	NM_005514	exon2	c.205delG	p.E69fs	.	.	PASS	Atlas-Indel
CCDC33	80125	hgsc.bcm.edu	37	15	74536401	74536403	+	In_Frame_Del	DEL	AAG	AAG	-	rs10552820	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	55	77	.	0.688	.	AAG|0.590;-|0.410	0.410	strong	.	CCDC33	160	.	NM_025055	exon2	c.96_98del	p.32_33del	.	.	PASS	Pindel,Atlas-Indel
SMEK2	57223	hgsc.bcm.edu	37	2	55777083	55777085	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	15	42	.	0.333	.	.	.	none	SMEK2_ENST00000345102,colon,carcinoma,+1,4	SMEK2	86	4	NM_001122964	exon17	c.2513_2515del	p.838_839del	.	.	PASS	Pindel,Atlas-Indel
NUP155	9631	hgsc.bcm.edu	37	5	37309372	37309374	+	Splice_Site	DEL	AGA	AGA	-	rs3835198	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	27	66	.	0.643	.	AGA|0.730;-|0.270	0.270	strong	.	NUP155	116	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
AMBN	258	hgsc.bcm.edu	37	4	71468346	71468348	+	In_Frame_Del	DEL	AGG	AGG	-	rs141384720	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AGG	AGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	64	224	.	0.322	.	AGG|0.889;-|0.111	0.111	strong	.	AMBN	73	.	NM_016519	exon7	c.536_538del	p.179_180del	.	.	PASS	Pindel,Atlas-Indel
MDS2	259283	hgsc.bcm.edu	37	1	23966894	23966895	+	RNA	INS	-	-	AAG	rs3072132	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	44	66	.	0.657	.	-|0.718;AAG|0.282	0.282	strong	.	MDS2	4	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
PCDHGB4	8641	hgsc.bcm.edu	37	5	140767492	140767497	+	In_Frame_Del	DEL	TGCCAG	TGCCAG	-	rs145222727	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TGCCAG	TGCCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	383	46	442	0	0.120104	0	.	.	weak	.	PCDHGB4	125	.	NM_032098	exon1	c.40_45del	p.14_15del	.	.	PASS	Atlas-Indel
DLX4	1748	hgsc.bcm.edu	37	17	48050500	48050501	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	10	140	0	0.0724638	0	.	.	none	.	DLX4	25	.	NM_138281	exon2	c.347_348insC	p.K116fs	.	.	PASS	Atlas-Indel
ORC3	23595	hgsc.bcm.edu	37	6	88315742	88315742	+	Splice_Site	DEL	A	A	-	rs2307391	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	44	124	.	0.331	.	A|0.407;-|0.593	0.593	strong	.	ORC3	51	.	NM_181837	exon5	c.427+2A>-	.	.	.	PASS	Pindel,Atlas-Indel
SPDYE6	729597	hgsc.bcm.edu	37	7	101988929	101988930	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	686	48	347	0	0.0699708	0	.	.	none	.	SPDYE6	1	.	NM_001146210	exon6	c.944_945del	p.315_315del	.	.	PASS	Atlas-Indel
CTSA	5476	hgsc.bcm.edu	37	20	44520238	44520240	+	In_Frame_Del	DEL	CTG	CTG	-	rs3080212	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	10	23	.	0.250	.	CTG|0.332;-|0.668	0.668	strong	.	CTSA	52	.	NM_000308	exon2	c.84_86del	p.28_29del	.	.	PASS	Pindel,Atlas-Indel
ARHGEF17	9828	hgsc.bcm.edu	37	11	73020375	73020376	+	In_Frame_Ins	INS	-	-	CTC	rs139105330	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	32	143	.	0.198	.	-|0.734;CTC|0.266	0.266	strong	.	ARHGEF17	117	.	NM_014786	exon1	c.692_693insCTC	p.C231delinsCS	.	.	PASS	Pindel,Atlas-Indel
NADK	65220	hgsc.bcm.edu	37	1	1684347	1684348	+	In_Frame_Ins	INS	-	-	CCT	rs150880809	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	16	88	.	0.180	.	.	.	strong	.	NADK	79	.	NM_001198994	exon14	c.1772_1773insAGG	p.G591delinsEG	.	.	PASS	Pindel,Atlas-Indel
C11orf40	143501	hgsc.bcm.edu	37	11	4594558	4594559	+	Frame_Shift_Ins	INS	-	-	G	rs146711685	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	41	133	.	0.328	.	-|0.969;G|0.031	0.031	strong	.	C11orf40	37	.	NM_144663	exon2	c.286_287insC	p.K96fs	.	.	PASS	Pindel,Atlas-Indel
OR5K3	403277	hgsc.bcm.edu	37	3	98110406	98110407	+	Frame_Shift_Ins	INS	-	-	A	rs144759043	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	29	30	.	0.630	.	-|0.649;A|0.351	0.351	strong	.	OR5K3	60	.	NM_001005516	exon1	c.897_898insA	p.M299fs	.	.	PASS	Pindel,Atlas-Indel
LAD1	3898	hgsc.bcm.edu	37	1	201356005	201356006	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	71	123	0	0.510791	0	.	.	none	LAD1,trunk,malignant_melanoma,-1,1	LAD1	42	1	NM_005558	exon3	c.484_485del	p.162_162del	.	.	PASS	Atlas-Indel
TBP	6908	hgsc.bcm.edu	37	6	170871013	170871014	+	In_Frame_Ins	INS	-	-	CAG	rs201732168	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	22	44	0	0.44	0	-|0.138;CAG|0.862	0.862	strong	TBP,NS,carcinoma,0,5	TBP	58	5	NM_003194	exon3	c.189_190insCAG	p.Q63delinsQQ	.	.	PASS	Atlas-Indel
SLC22A1	6580	hgsc.bcm.edu	37	6	160560881	160560883	+	In_Frame_Del	DEL	ATG	ATG	-	rs202220802	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ATG	ATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	11	56	0	0.234043	0	ATG|0.880;-|0.120	0.120	strong	SLC22A1,NS,carcinoma,+2,1	SLC22A1	69	1	NM_153187	exon7	c.1257_1259del	p.419_420del	.	.	PASS	Atlas-Indel
ZCCHC6	79670	hgsc.bcm.edu	37	9	88937852	88937854	+	In_Frame_Del	DEL	TTT	TTT	-	rs34431437	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	61	203	.	0.347	.	.	.	weak	.	ZCCHC6	105	.	NM_024617	exon13	c.2812_2814del	p.938_938del	.	.	PASS	Pindel,Atlas-Indel
MIR5694	100847064	hgsc.bcm.edu	37	10	122358877	122358878	+	RNA	DEL	GA	GA	-	rs71853551	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	29	82	.	0.659	.	GA|0.769;-|0.231	0.231	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
RBBP6	5930	hgsc.bcm.edu	37	16	24583713	24583718	+	In_Frame_Del	DEL	AAAGAG	AAAGAG	-	rs148143334	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AAAGAG	AAAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	14	27	0	0.608696	0	AAAGAG|0.968;-|0.032	0.032	strong	.	RBBP6	158	.	NM_006910	exon18	c.5325_5330del	p.1775_1777del	.	.	PASS	Atlas-Indel
BPNT1	10380	hgsc.bcm.edu	37	1	220231181	220231181	+	RNA	DEL	T	T	-	rs34887640	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	30	114	.	0.270	.	T|0.776;-|0.224	0.224	strong	.	BPNT1	29	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
ALMS1	7840	hgsc.bcm.edu	37	2	73675227	73675228	+	In_Frame_Ins	INS	-	-	CTC	rs34628045	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	66	154	.	0.496	.	CTC|1.000;|0.000	1.000	strong	ALMS1,NS,carcinoma,0,1	ALMS1	384	1	NM_015120	exon8	c.1570_1571insCTC	p.S524delinsSP	.	.	PASS	Pindel,Atlas-Indel
PSORS1C1	170679	hgsc.bcm.edu	37	6	31106501	31106501	+	Frame_Shift_Del	DEL	C	C	-	rs138474986	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	43	111	.	0.394	.	.	.	strong	.	PSORS1C1	11	.	NM_014068	exon5	c.111delT	p.R37fs	.	.	PASS	Pindel,Atlas-Indel
ADM2	79924	hgsc.bcm.edu	37	22	50921149	50921166	+	In_Frame_Del	DEL	ACACTCGGGCCCCCGAAG	ACACTCGGGCCCCCGAAG	-	rs72438078	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ACACTCGGGCCCCCGAAG	ACACTCGGGCCCCCGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	23	82	.	0.219	.	ACACTCGGGCCCCCGAAG|0.874;-|0.126	0.126	strong	.	ADM2	15	.	NM_001253845	exon3	c.263_280del	p.88_94del	.	.	PASS	Pindel,Atlas-Indel
CPNE1	8904	hgsc.bcm.edu	37	20	34215234	34215235	+	Frame_Shift_Ins	INS	-	-	A	rs147019139	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	21	75	.	0.276	.	-|0.911;A|0.089	0.089	strong	.	CPNE1	44	.	NM_003915	exon14	c.1219_1220insT	p.A407fs	.	.	PASS	Pindel,Atlas-Indel
ZNF34	80778	hgsc.bcm.edu	37	8	145999617	145999619	+	In_Frame_Del	DEL	TTT	TTT	-	rs3830702	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	40	123	.	0.317	.	TTT|0.834;-|0.166	0.166	strong	.	ZNF34	38	.	NM_030580	exon6	c.716_718del	p.239_240del	.	.	PASS	Pindel,Atlas-Indel
MIR631	693216	hgsc.bcm.edu	37	15	75645966	75645967	+	RNA	DEL	CT	CT	-	rs5745925	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	10	64	.	0.256	.	CT|0.959;-|0.041	0.041	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
CACNA1E	777	hgsc.bcm.edu	37	1	181732594	181732594	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	34	80	.	0.312	.	.	.	none	.	CACNA1E	778	.	NM_000721	exon34	c.4741delG	p.A1581fs	.	.	PASS	Pindel,Atlas-Indel
POMZP3	22932	hgsc.bcm.edu	37	7	76240786	76240786	+	Frame_Shift_Del	DEL	A	A	-	rs71819724	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	55	145	0	0.447154	0	A|0.541;-|0.459	0.459	strong	.	POMZP3	19	.	NM_012230	exon6	c.561delG	p.L187fs	.	.	PASS	Atlas-Indel
TMPRSS6	164656	hgsc.bcm.edu	37	22	37465386	37465390	+	Splice_Site	DEL	TGGGG	TGGGG	-	rs200434923	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TGGGG	TGGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	20	51	.	0.299	.	TGGGG|0.528;-|0.472	0.472	strong	.	TMPRSS6	99	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
NBEAL1	65065	hgsc.bcm.edu	37	2	204002925	204002926	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	58	165	.	0.330	.	.	.	none	.	NBEAL1	266	.	NM_001114132	exon29	c.4518_4519del	p.1506_1507del	.	.	PASS	Pindel,Atlas-Indel
C14orf23	387978	hgsc.bcm.edu	37	14	29261309	29261310	+	RNA	INS	-	-	AAC	rs56025822	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	17	102	.	0.200	.	AAC|1.000	.	strong	.	C14orf23	5	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
NEDD8-MDP1	100528064	hgsc.bcm.edu	37	14	24683267	24683267	+	Frame_Shift_Del	DEL	A	A	-	rs3215610	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	33	114	.	0.317	.	A|0.812;-|0.188	0.188	strong	.	.	.	.	NM_001199823	exon7	c.546delG	p.L182fs	.	.	PASS	Pindel,Atlas-Indel
KIAA0040	9674	hgsc.bcm.edu	37	1	175129948	175129955	+	Frame_Shift_Del	DEL	TCTTCTTG	TCTTCTTG	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TCTTCTTG	TCTTCTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	10	88	0	0.0884956	0	.	.	none	.	KIAA0040	2	.	NM_001162893	exon5	c.196_203del	p.66_68del	.	.	PASS	Atlas-Indel
SETBP1	26040	hgsc.bcm.edu	37	18	42456670	42456671	+	Frame_Shift_Ins	INS	-	-	TCTT	rs3085861	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	51	165	.	0.313	.	-|0.500;TCTT|0.500	0.500	strong	.	SETBP1	577	.	NM_001130110	exon4	c.681_682insTCTT	p.L227fs	.	.	PASS	Pindel,Atlas-Indel
LAD1	3898	hgsc.bcm.edu	37	1	201356003	201356006	+	Frame_Shift_Del	DEL	CACC	CACC	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CACC	CACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	47	123	.	0.333	.	.	.	none	.	LAD1	42	.	NM_005558	exon3	c.484_487del	p.162_163del	.	.	PASS	Pindel
CLTCL1	8218	hgsc.bcm.edu	37	22	19189005	19189036	+	Splice_Site	DEL	TACGGATAATAGGGTAGCTCGACTGAGACACT	TACGGATAATAGGGTAGCTCGACTGAGACACT	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TACGGATAATAGGGTAGCTCGACTGAGACACT	TACGGATAATAGGGTAGCTCGACTGAGACACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	12	75	.	0.316	.	.	.	none	.	CLTCL1	115	.	.	.	.	.	.	.	PASS	Pindel
ASPN	54829	hgsc.bcm.edu	37	9	95237024	95237025	+	In_Frame_Ins	INS	-	-	TCA	rs111419727	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	20	109	.	0.180	.	-|0.500;TCA|0.500	0.500	strong	.	ASPN	52	.	NM_001193335	exon2	c.156_157insTGA	p.E52delinsDE	.	.	PASS	Pindel
KIAA0040	9674	hgsc.bcm.edu	37	1	175129925	175129933	+	In_Frame_Del	DEL	CTTCTTCTT	CTTCTTCTT	-	rs150137790	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CTTCTTCTT	CTTCTTCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	21	91	.	0.178	.	.	.	strong	.	KIAA0040	2	.	NM_001162893	exon5	c.218_226del	p.73_76del	.	.	PASS	Pindel
ZNF516	9658	hgsc.bcm.edu	37	18	74090958	74090958	+	Frame_Shift_Del	DEL	G	G	-	rs56087742	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	15	19	.	0.500	.	G|0.016;-|0.984	0.984	strong	.	ZNF516	102	.	NM_014643	exon5	c.3112delG	p.V1038fs	.	.	PASS	Pindel
KAT6B	23522	hgsc.bcm.edu	37	10	76781906	76781908	+	In_Frame_Del	DEL	GAA	GAA	-	rs71929101	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	24	90	.	0.229	.	GAA|0.500;-|0.500	0.500	strong	MYST4,colon,carcinoma,0,1	.	.	1	NM_012330	exon16	c.3288_3290del	p.1096_1097del	.	.	PASS	Pindel
KANK3	256949	hgsc.bcm.edu	37	19	8398950	8398961	+	In_Frame_Del	DEL	TCGCTGTCGCCA	TCGCTGTCGCCA	-	rs111751275	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	TCGCTGTCGCCA	TCGCTGTCGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	11	10	15	.	0.909	.	TCGCTGTCGCCA|0.697;-|0.303	0.303	strong	.	KANK3	35	.	NM_198471	exon5	c.1468_1479del	p.490_493del	.	.	PASS	Pindel
ZFHX3	463	hgsc.bcm.edu	37	16	72822563	72822564	+	In_Frame_Ins	INS	-	-	TGC	rs376311468		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	16	101	.	0.152	.	.	.	weak	.	ZFHX3	404	.	NM_006885	exon10	c.9612_9613insGCA	p.Q3204delinsQQ	.	.	PASS	Pindel
KRTAP10-7	386675	hgsc.bcm.edu	37	21	46020656	46020670	+	Frame_Shift_Del	DEL	CTGCTGCGCCCCCAG	CTGCTGCGCCCCCAG	-	rs36208679	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CTGCTGCGCCCCCAG	CTGCTGCGCCCCCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	14	40	.	0.212	.	.	.	weak	.	KRTAP10-7	41	.	NM_198689	exon1	c.134_134del	p.45_45del	.	.	PASS	Pindel
KDM4A	9682	hgsc.bcm.edu	37	1	44170034	44170035	+	Frame_Shift_Ins	INS	-	-	GGAGTAGGTGCTTCCA	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	15	89	.	0.221	.	.	.	none	.	KDM4A	74	.	NM_014663	exon22	c.3188_3189insGGAGTAGGTGCTTCCA	p.M1063_E1064delinsMEX	.	.	PASS	Pindel
OR51B5	282763	hgsc.bcm.edu	37	11	5364542	5364558	+	Frame_Shift_Del	DEL	CAGCCCCAGGTCTGTGG	CAGCCCCAGGTCTGTGG	-	rs147062602	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CAGCCCCAGGTCTGTGG	CAGCCCCAGGTCTGTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	10	49	.	0.286	.	.	.	strong	.	OR51B5	60	.	NM_001005567	exon5	c.198_214del	p.66_72del	.	.	PASS	Pindel
RIMBP3C	150221	hgsc.bcm.edu	37	22	21739333	21739335	+	In_Frame_Del	DEL	GAG	GAG	-	rs201364657	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	29	175	.	0.164	.	GAG|0.990;-|0.010	0.010	strong	.	RIMBP3C	6	.	NM_001128633	exon1	c.1185_1187del	p.395_396del	.	.	PASS	Pindel
ZNF555	148254	hgsc.bcm.edu	37	19	2853905	2853906	+	Frame_Shift_Ins	INS	-	-	GA	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	46	107	.	0.348	.	.	.	none	.	ZNF555	61	.	NM_152791	exon4	c.1842_1843insGA	p.Q614fs	.	.	PASS	Pindel
OVGP1	5016	hgsc.bcm.edu	37	1	111957515	111957583	+	In_Frame_Del	DEL	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	21	116	.	0.206	.	.	.	none	.	OVGP1	177	.	NM_002557	exon11	c.1541_1609del	p.514_537del	.	.	PASS	Pindel
RHBG	57127	hgsc.bcm.edu	37	1	156354348	156354348	+	Frame_Shift_Del	DEL	C	C	-	rs11303415	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	59	72	.	0.465	.	-|1.000;|0.000	1.000	strong	.	RHBG	133	.	NM_020407	exon9	c.1264delT	p.S422fs	.	.	PASS	Pindel
MAP3K1	4214	hgsc.bcm.edu	37	5	56177849	56177851	+	In_Frame_Del	DEL	CAA	CAA	-	rs5868032	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	25	108	.	0.225	.	CAA|0.500;-|0.500	0.500	strong	.	MAP3K1	355	.	NM_005921	exon14	c.2821_2823del	p.941_941del	.	.	PASS	Pindel
ZNF280D	54816	hgsc.bcm.edu	37	15	56946704	56946704	+	Splice_Site	DEL	A	A	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	13	69	.	0.151	.	.	.	none	.	ZNF280D	82	.	NM_017661	exon19	c.2058-2T>-	.	.	.	PASS	Pindel
EFCAB13	124989	hgsc.bcm.edu	37	17	45438887	45438890	+	Frame_Shift_Del	DEL	AGTG	AGTG	-	rs10538163	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AGTG	AGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	28	96	.	0.286	.	AGTG|0.561;-|0.439	0.439	strong	.	.	.	.	NM_152347	exon10	c.804_805del	p.268_269del	.	.	PASS	Pindel
KDM6B	23135	hgsc.bcm.edu	37	17	7751859	7751864	+	In_Frame_Del	DEL	CACCAC	CACCAC	-	rs377654044		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CACCAC	CACCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	12	75	.	0.226	.	.	.	weak	.	KDM6B	95	.	NM_001080424	exon11	c.2252_2257del	p.751_753del	.	.	PASS	Pindel
POC1B	282809	hgsc.bcm.edu	37	12	89866055	89866064	+	Splice_Site	DEL	AGAAAGAAGA	AGAAAGAAGA	-	rs59139895	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AGAAAGAAGA	AGAAAGAAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	13	59	.	0.464	.	-|1.000;|0.000	1.000	strong	.	POC1B	41	.	.	.	.	.	.	.	PASS	Pindel
L1TD1	54596	hgsc.bcm.edu	37	1	62675645	62675674	+	In_Frame_Del	DEL	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	28	106	.	0.350	.	.	.	none	L1TD1,NS,carcinoma,-2,1	L1TD1	114	1	NM_001164835	exon5	c.1198_1227del	p.400_409del	.	.	PASS	Pindel
DLEC1	9940	hgsc.bcm.edu	37	3	38164071	38164073	+	In_Frame_Del	DEL	ATG	ATG	-	rs144512522	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	ATG	ATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	10	39	.	0.312	.	ATG|0.877;-|0.123	0.123	strong	.	DLEC1	278	.	NM_007337	exon36	c.5311_5313del	p.1771_1771del	.	.	PASS	Pindel
CD3EAP	10849	hgsc.bcm.edu	37	19	45912490	45912492	+	In_Frame_Del	DEL	AAG	AAG	-	rs35729377	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	34	47	.	0.486	.	.	.	strong	.	CD3EAP	27	.	NM_012099	exon3	c.1263_1265del	p.421_422del	.	.	PASS	Pindel
MUC4	4585	hgsc.bcm.edu	37	3	195506713	195506760	+	In_Frame_Del	DEL	GCTGAGGAAGTGTCGGTGACAGGAAGAGGGGTGGCGTGACGTGTGGAT	GCTGAGGAAGTGTCGGTGACAGGAAGAGGGGTGGCGTGACGTGTGGAT	-	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GCTGAGGAAGTGTCGGTGACAGGAAGAGGGGTGGCGTGACGTGTGGAT	GCTGAGGAAGTGTCGGTGACAGGAAGAGGGGTGGCGTGACGTGTGGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	15	82	.	0.341	.	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.11692_11739del	p.3898_3913del	.	.	PASS	Pindel
SSC5D	284297	hgsc.bcm.edu	37	19	56029616	56029617	+	In_Frame_Ins	INS	-	-	CCA	rs150781976	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	12	54	.	0.176	.	.	.	strong	.	SSC5D	65	.	NM_001144950	exon14	c.3973_3974insCCA	p.P1325delinsPT	.	.	PASS	Pindel
CDCP2	200008	hgsc.bcm.edu	37	1	54605319	54605320	+	Frame_Shift_Ins	INS	-	-	C	rs36013100	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	36	65	.	0.545	.	.	.	strong	.	CDCP2	52	.	NM_201546	exon4	c.1224_1225insG	p.P408fs	.	.	PASS	Pindel
SPATA3	130560	hgsc.bcm.edu	37	2	231861033	231861059	+	In_Frame_Del	DEL	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	-	rs72362780	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	23	68	.	0.397	.	.	.	strong	.	SPATA3	52	.	NM_139073	exon1	c.84_110del	p.28_37del	.	.	PASS	Pindel
KIAA1751	85452	hgsc.bcm.edu	37	1	1887092	1887112	+	In_Frame_Del	DEL	GCCCGCCCACCCTGGCTTGGC	GCCCGCCCACCCTGGCTTGGC	-	rs139735565	bycluster;by1000genomes;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	GCCCGCCCACCCTGGCTTGGC	GCCCGCCCACCCTGGCTTGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	14	80	.	0.192	.	-|0.223;G|0.777	0.223	alt	.	KIAA1751	92	.	NM_001080484	exon18	c.2195_2215del	p.732_739del	.	.	PASS	Pindel
FLG	2312	hgsc.bcm.edu	37	1	152280691	152280691	+	Missense_Mutation	SNP	A	A	T	rs117945779		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	332	36	222	0	0.108434	0	.	.	weak	FLG,NS,malignant_melanoma,+1,1	FLG	900	1	NM_002016	exon3	c.T6671A	p.L2224Q	CCCACCAGTGAGT	.	scavenged	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1540706	1540706	+	Missense_Mutation	SNP	A	A	G	rs35466875	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	470	467	561	1	0.993617	0.00178253	A|0.834;G|0.166	0.166	strong	.	ASMTL	56	.	NM_004192	exon9	c.T1090C	p.Y364H	CCAGGTAGACGTT	.	PASS	Atlas-SNP
CHAMP1	283489	hgsc.bcm.edu	37	13	115091399	115091399	+	Silent	SNP	T	T	C	rs9525332	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	54	140	0	0.457627	0	T|0.893;C|0.107	0.107	strong	.	.	.	.	NM_001164144	exon3	c.T2082C	p.S694S	TATCTCTGAAGAG	.	PASS	Atlas-SNP
CCRL2	9034	hgsc.bcm.edu	37	3	46450070	46450070	+	Missense_Mutation	SNP	T	T	A	rs3204849	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	52	78	0	0.571429	0	T|0.631;A|0.369	0.369	strong	.	CCRL2	23	.	NM_001130910	exon2	c.T536A	p.F179Y	CTGAATTCGTGGT	.	PASS	Atlas-SNP
ADAM33	80332	hgsc.bcm.edu	37	20	3651742	3651742	+	Silent	SNP	C	C	G	rs528557	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	73	145	0	0.496599	0	C|0.599;G|0.401	0.401	strong	.	ADAM33	76	.	NM_025220	exon19	c.G2151C	p.G717G	GCCGGCCCCTGGG	.	PASS	Atlas-SNP
EI24	9538	hgsc.bcm.edu	37	11	125452313	125452313	+	Missense_Mutation	SNP	A	A	G	rs4627097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	26	35	0	0.577778	0	A|0.658;G|0.342	0.342	strong	.	EI24	33	.	NM_001007277	exon9	c.A745G	p.I249V	CAAAGCATAGTAA	.	PASS	Atlas-SNP
OR4F4	26682	hgsc.bcm.edu	37	15	102462857	102462857	+	Missense_Mutation	SNP	C	C	T	rs200667206	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	1421	155	1380	2	0.109078	0.00144928	C|0.972;T|0.028	0.028	strong	OR4F4,NS,carcinoma,0,1	OR4F4	6	1	NM_001004195	exon1	c.G406A	p.G136S	TAATGCCGACACA	.	scavenged	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84779248	84779248	+	Silent	SNP	T	T	G	rs7185949	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	41	68	0	0.525641	0	T|0.769;G|0.231	0.231	strong	.	USP10	51	.	NM_001272075	exon5	c.T1173G	p.V391V	TCCGGTTTCAGAG	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11561577	11561577	+	Silent	SNP	C	C	T	rs181120200	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	22	45	0	0.458333	0	C|0.997;T|0.003	0.003	strong	.	PTCHD2	193	.	NM_020780	exon2	c.C528T	p.P176P	CATCCCCGCGGCC	.	PASS	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	37	2	227946893	227946893	+	Missense_Mutation	SNP	C	C	G	rs1800516	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	33	62	0	0.515625	0	C|0.972;G|0.029	0.029	strong	.	COL4A4	215	.	NM_000092	exon23	c.G1634C	p.G545A	GAGGCACCATGCT	.	PASS	Atlas-SNP
ABRA	137735	hgsc.bcm.edu	37	8	107782065	107782065	+	Silent	SNP	A	A	G	rs13259080	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	87	166	0	0.55414	0	A|0.847;G|0.153	0.153	strong	.	ABRA	57	.	NM_139166	exon1	c.T354C	p.Y118Y	TCTCTCATAAGTC	.	PASS	Atlas-SNP
HEXDC	284004	hgsc.bcm.edu	37	17	80377690	80377690	+	Silent	SNP	T	T	G	rs1141463	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	214	102	199	0	0.476636	0	T|0.535;G|0.465	0.465	strong	.	HEXDC	43	.	NM_173620	exon2	c.T15G	p.T5T	TTCCACTCCATTT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536380	1536380	+	Missense_Mutation	SNP	G	G	T	rs2667672	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	37	61	0	0.521127	0	G|0.655;T|0.345	0.345	strong	.	PTX4	46	.	NM_001013658	exon3	c.C982A	p.L328M	GCAGCAGGGAGTC	.	PASS	Atlas-SNP
XYLT2	64132	hgsc.bcm.edu	37	17	48431032	48431032	+	Silent	SNP	G	G	A	rs739990	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	28	48	0	0.444444	0	G|0.851;A|0.149	0.149	strong	XYLT2,NS,carcinoma,0,1	XYLT2	51	1	NM_022167	exon2	c.G177A	p.E59E	TGGCGAGGGTTCC	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140605078	140605078	+	Silent	SNP	C	C	T	rs2907322	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	13	17	0	0.65	0	C|0.835;T|0.165	0.165	strong	.	PCDHB14	132	.	NM_018934	exon1	c.C2001T	p.S667S	CTTCTCCCAGCCC	.	PASS	Atlas-SNP
C7orf72	100130988	hgsc.bcm.edu	37	7	50173777	50173777	+	Missense_Mutation	SNP	A	A	G	rs998928	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	82	35	0	0.97619	0	A|0.426;G|0.574	0.574	strong	C7orf72,NS,carcinoma,0,1	C7orf72	26	1	NM_001161834	exon4	c.A802G	p.T268A	GAAAAAACCGCTG	.	PASS	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	37	2	71654450	71654450	+	Silent	SNP	A	A	G	rs60163900	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	18	43	0	0.580645	0	A|0.893;G|0.107	0.107	strong	.	ZNF638	179	.	NM_014497	exon24	c.A5451G	p.K1817K	CACAAAAAAGACA	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86278309	86278309	+	Missense_Mutation	SNP	G	G	A	rs2241268	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	65	106	0	0.570175	0	G|0.820;A|0.180	0.180	strong	.	AKAP13	394	.	NM_006738	exon31	c.G7381A	p.G2461S	GTGGTCGGTCCCG	.	PASS	Atlas-SNP
MCF2L2	23101	hgsc.bcm.edu	37	3	182897920	182897920	+	Missense_Mutation	SNP	A	A	G	rs35070271	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	74	100	0	0.592	0	A|0.833;G|0.167	0.167	strong	.	MCF2L2	164	.	NM_015078	exon28	c.T3044C	p.M1015T	GTGTCCATGGAGC	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74206658	74206658	+	Silent	SNP	G	G	A	rs758773	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	50	99	0	0.520833	0	G|0.859;A|0.141	0.141	strong	.	.	.	.	NM_194278	exon2	c.C54T	p.F18F	GCCCCCGAAGAGG	.	PASS	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86518566	86518566	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	96	196	0	0.438356	0	.	.	none	.	KIF27	103	.	NM_017576	exon4	c.A867G	p.S289S	AATATGTGAACTC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910693	29910693	+	Missense_Mutation	SNP	A	A	G	rs41559716	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	212	15	154	10	0.0707547	0.0649351	A|0.979;G|0.021	0.021	strong	HLA-A,bladder,carcinoma,0,8	HLA-A	89	8	NM_001242758	exon2	c.A233G	p.Q78R	TAGAGCAGGAGGG	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239116	31239116	+	Missense_Mutation	SNP	G	G	A	rs1131119	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	7	39	0	0.291667	0	G|0.815;A|0.185	0.185	strong	HLA-C_ENST00000383329,colon,carcinoma,0,6	HLA-C	92	6	NM_002117	exon3	c.C353T	p.T118I	TGGAGGGTGTGAG	.	scavenged	Atlas-SNP
CD226	10666	hgsc.bcm.edu	37	18	67534642	67534642	+	Missense_Mutation	SNP	C	C	T	rs72481820	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	57	81	0	1	0	C|0.926;T|0.074	0.074	strong	.	CD226	51	.	NM_006566	exon6	c.G836A	p.R279K	CTCCTTCTCCTTC	.	PASS	Atlas-SNP
ACO2	50	hgsc.bcm.edu	37	22	41911525	41911525	+	Silent	SNP	C	C	T	rs1799932	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	14	57	0	0.341463	0	C|0.666;T|0.334	0.334	strong	.	ACO2	58	.	NM_001098	exon5	c.C670T	p.L224L	TGGGAGCTGAAGT	.	PASS	Atlas-SNP
PVRL2	5819	hgsc.bcm.edu	37	19	45381649	45381649	+	Silent	SNP	C	C	T	rs373022885		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	36	75	0	0.521739	0	.	.	weak	.	PVRL2	58	.	NM_002856	exon6	c.C1212T	p.D404D	TGGCGACGGGGGA	.	PASS	Atlas-SNP
SLC39A4	55630	hgsc.bcm.edu	37	8	145642002	145642002	+	Missense_Mutation	SNP	C	C	T	rs2280838	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	54	99	0	0.482143	0	C|0.520;T|0.480	0.480	strong	.	SLC39A4	54	.	NM_130849	exon1	c.G172A	p.A58T	CGTTGGCGCAGTG	.	PASS	Atlas-SNP
ARID3A	1820	hgsc.bcm.edu	37	19	971949	971949	+	Missense_Mutation	SNP	G	G	A	rs1051505	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	24	7	0	1	0	G|0.272;A|0.728	0.728	strong	.	ARID3A	35	.	NM_005224	exon9	c.G1666A	p.G556S	GGCGGCGGCAGCA	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129297255	129297255	+	Missense_Mutation	SNP	T	T	C	rs112755880	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	81	78	0	0.648	0	T|0.997;C|0.003	0.003	strong	.	PLXND1	149	.	NM_015103	exon9	c.A2263G	p.T755A	GCAGGGTCCGGGG	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61834573	61834573	+	Silent	SNP	G	G	A	rs17208576	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	99	123	1	0.99	0.00813008	G|0.933;A|0.067	0.067	strong	ANK3,NS,carcinoma,-1,1	ANK3	703	1	NM_020987	exon37	c.C6066T	p.A2022A	GGAGGCGGCTTTT	.	PASS	Atlas-SNP
ADAMTS17	170691	hgsc.bcm.edu	37	15	100636586	100636586	+	Silent	SNP	G	G	A	rs4965583	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	14	32	0	0.608696	0	G|0.801;A|0.199	0.199	strong	.	ADAMTS17	127	.	NM_139057	exon15	c.C2112T	p.G704G	GAAGTCGCCCTTC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13900345	13900345	+	Silent	SNP	A	A	G	rs1445823	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	45	108	0	0.463918	0	A|0.423;G|0.577	0.577	strong	.	DNAH5	868	.	NM_001369	exon15	c.T2229C	p.D743D	GTATCTATCTCGT	.	PASS	Atlas-SNP
B9D2	80776	hgsc.bcm.edu	37	19	41869392	41869392	+	Missense_Mutation	SNP	T	T	C	rs2241714	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	92	88	0	1	0	T|0.311;C|0.689	0.689	strong	.	B9D2	9	.	NM_030578	exon2	c.A33G	p.I11M	GGCCCCTATGATC	.	PASS	Atlas-SNP
COG3	83548	hgsc.bcm.edu	37	13	46067593	46067593	+	Silent	SNP	G	G	A	rs2985959	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	93	111	1	0.978947	0.00900901	G|0.624;A|0.376	0.376	strong	COG3,NS,carcinoma,0,1	COG3	52	1	NM_031431	exon12	c.G1299A	p.E433E	AAATGAGGTGCTT	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141752215	141752215	+	Missense_Mutation	SNP	A	A	C	rs116536012	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	23	55	0	0.46	0	A|0.956;C|0.044	0.044	strong	MGAM_ENST00000473011,NS,carcinoma,0,1	MGAM	767	1	NM_004668	exon25	c.A2927C	p.E976A	CTGCCGAAAACTG	.	PASS	Atlas-SNP
RPL36AL	6166	hgsc.bcm.edu	37	14	50085571	50085571	+	Missense_Mutation	SNP	G	G	A	rs76888601		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	29	82	0	0.467742	0	G|0.250;A|0.750	0.750	weak	.	RPL36AL	6	.	NM_001001	exon2	c.A252T	p.Q84H	CTTAATGGCCAGC	.	PASS	Atlas-SNP
UNC13C	440279	hgsc.bcm.edu	37	15	54919047	54919047	+	Silent	SNP	A	A	G	rs1520411	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	28	93	0	0.277228	0	A|0.436;G|0.564	0.564	strong	UNC13C_ENST00000260323,NS,carcinoma,+2,2	UNC13C	674	2	NM_001080534	exon31	c.A6381G	p.R2127R	AAATCGACCAGGG	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	37	17	8792171	8792171	+	Silent	SNP	T	T	C	rs11650737	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	12	6	17	0	0.5	0	T|0.722;C|0.278	0.278	strong	PIK3R5,NS,carcinoma,0,1	PIK3R5	79	1	NM_001142633	exon10	c.A933G	p.L311L	CTGGAGTAGCTCC	.	PASS	Atlas-SNP
NAGPA	51172	hgsc.bcm.edu	37	16	5075633	5075633	+	Missense_Mutation	SNP	G	G	A	rs7188856	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	172	159	0	1	0	G|0.758;A|0.242	0.242	strong	.	NAGPA	30	.	NM_016256	exon10	c.C1394T	p.T465I	GCTGCAGTGCTGA	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50134150	50134150	+	Silent	SNP	A	A	G	rs17073150	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	83	144	0	0.542484	0	A|0.751;G|0.249	0.249	strong	.	RCBTB1	34	.	NM_018191	exon5	c.T348C	p.I116I	GGGAGCAATGCCT	.	PASS	Atlas-SNP
C22orf28	51493	hgsc.bcm.edu	37	22	32784051	32784051	+	Silent	SNP	T	T	C	rs11635	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	78	137	0	0.561151	0	T|0.883;C|0.117	0.117	strong	.	C22orf28	43	.	NM_014306	exon12	c.A1446G	p.V482V	GGTATTTACCACA	.	PASS	Atlas-SNP
PRDM1	639	hgsc.bcm.edu	37	6	106543533	106543533	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	6	63	0	0.0882353	0	.	.	none	PRDM1,colon,carcinoma,0,1	PRDM1	195	1	NM_001198	exon3	c.G335A	p.R112H	GCACACGTTTTGG	.	PASS	Atlas-SNP
ZSWIM3	140831	hgsc.bcm.edu	37	20	44506418	44506418	+	Silent	SNP	G	G	A	rs1045493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	46	107	0	0.464646	0	G|0.506;A|0.494	0.494	strong	.	ZSWIM3	96	.	NM_080752	exon2	c.G1221A	p.R407R	CTTTCGGGAACAG	.	PASS	Atlas-SNP
OPN4	94233	hgsc.bcm.edu	37	10	88414570	88414570	+	Silent	SNP	G	G	A	rs11202106	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	35	67	0	0.522388	0	G|0.763;A|0.237	0.237	strong	OPN4,NS,carcinoma,+1,1	OPN4	61	1	NM_033282	exon1	c.G30A	p.P10P	AGTCCCGCCCAGC	.	PASS	Atlas-SNP
GSDMA	284110	hgsc.bcm.edu	37	17	38122686	38122686	+	Missense_Mutation	SNP	G	G	A	rs7212944	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	36	102	0	0.455696	0	G|0.646;A|0.354	0.354	strong	.	GSDMA	26	.	NM_178171	exon3	c.G388A	p.E130K	GTGCAGGAGAGGT	.	PASS	Atlas-SNP
OR52I1	390037	hgsc.bcm.edu	37	11	4616062	4616062	+	Missense_Mutation	SNP	C	C	T	rs61997187	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	88	176	0	0.511628	0	C|0.937;T|0.063	0.063	strong	.	OR52I1	29	.	NM_001005169	exon1	c.C794T	p.A265V	TCTATGCGGCCTG	.	PASS	Atlas-SNP
HLA-DQA2	3118	hgsc.bcm.edu	37	6	32713625	32713625	+	Missense_Mutation	SNP	C	C	T	rs116163401	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	307	27	242	0	0.0879479	0	C|0.998;T|0.002	0.002	weak	.	HLA-DQA2	27	.	NM_020056	exon3	c.C389T	p.T130I	CCAACACCCTCAT	.	PASS	Atlas-SNP
OR8H1	219469	hgsc.bcm.edu	37	11	56058535	56058535	+	Missense_Mutation	SNP	C	C	T	rs11600896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	8	27	0	0.5	0	C|0.902;T|0.098	0.098	strong	.	OR8H1	89	.	NM_001005199	exon1	c.G4A	p.G2S	TTCTACCCATGAT	.	PASS	Atlas-SNP
NKAIN3	286183	hgsc.bcm.edu	37	8	63659610	63659610	+	Silent	SNP	G	G	A	rs1319275	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	81	81	1	1	0.0123457	G|0.548;A|0.452	0.452	strong	NKAIN3,NS,carcinoma,+1,1	NKAIN3	32	1	NM_173688	exon4	c.G393A	p.T131T	TTACACGTACGTC	.	scavenged	Atlas-SNP
IGSF5	150084	hgsc.bcm.edu	37	21	41165462	41165462	+	Missense_Mutation	SNP	C	C	A	rs2837225	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	42	119	0	0.333333	0	C|0.600;A|0.400	0.400	strong	IGSF5,NS,carcinoma,0,1	IGSF5	62	1	NM_001080444	exon8	c.C1050A	p.D350E	TGCAGACACCGCT	.	PASS	Atlas-SNP
CCDC141	285025	hgsc.bcm.edu	37	2	179721046	179721046	+	Missense_Mutation	SNP	G	G	A	rs17362588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	106	191	0	0.579235	0	G|0.940;A|0.060	0.060	strong	CCDC141_ENST00000420890,lymph_node,lymphoid_neoplasm,0,2	CCDC141	362	2	NM_173648	exon18	c.C2803T	p.R935W	GATTCCGAGATTT	.	PASS	Atlas-SNP
CHIC1	53344	hgsc.bcm.edu	37	X	72797296	72797296	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	25	41	0	0.555556	0	.	.	none	.	CHIC1	13	.	NM_001039840	exon2	c.A350T	p.K117M	CAGGGAAGGTAAG	.	PASS	Atlas-SNP
ANKRD66	100287718	hgsc.bcm.edu	37	6	46726500	46726500	+	Missense_Mutation	SNP	C	C	A	rs9472839	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	20	44	0	0.425532	0	C|0.903;A|0.097	0.097	strong	.	.	.	.	NM_001162435	exon5	c.C598A	p.Q200K	GCCCAGCAGAAGG	.	PASS	Atlas-SNP
BTK	695	hgsc.bcm.edu	37	X	100608191	100608191	+	Silent	SNP	G	G	A	rs1135363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	80	63	0	0.987654	0	0|0.003;T|0.000;G|0.558;A|0.439	0.439	strong	.	BTK	87	.	NM_000061	exon18	c.C1899T	p.C633C	ATGCCAGCAACTG	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632782	32632782	+	Missense_Mutation	SNP	G	G	A	rs12722115	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	14	94	0	0.264151	0	G|0.644;C|0.073;A|0.283	0.283	strong	.	HLA-DQB1	15	.	NM_002123	exon2	c.C172T	p.L58F	TCACAAGACGCAC	.	PASS	Atlas-SNP
P2RX7	5027	hgsc.bcm.edu	37	12	121622239	121622239	+	Silent	SNP	C	C	T	rs3751144	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	20	24	0	0.47619	0	C|0.880;T|0.120	0.120	strong	.	P2RX7	53	.	NM_002562	exon13	c.C1422T	p.P474P	TAGCCCCGTCTGG	.	PASS	Atlas-SNP
INTS8	55656	hgsc.bcm.edu	37	8	95877787	95877787	+	Silent	SNP	T	T	C	rs713113	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	76	157	0	0.484076	0	T|0.462;C|0.538	0.538	strong	.	INTS8	92	.	NM_017864	exon17	c.T2130C	p.S710S	AGAAAGTAGACGG	.	PASS	Atlas-SNP
MRPL9	65005	hgsc.bcm.edu	37	1	151733327	151733327	+	Missense_Mutation	SNP	T	T	C	rs74228558	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	11	5	19	0	0.454545	0	T|0.909;C|0.091	0.091	strong	.	MRPL9	21	.	NM_031420	exon6	c.A637G	p.I213V	GTGTGATAGGCTC	.	PASS	Atlas-SNP
SELE	6401	hgsc.bcm.edu	37	1	169696946	169696946	+	Missense_Mutation	SNP	G	G	A	rs5368	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	106	142	0	0.588889	0	G|0.882;A|0.118	0.118	strong	SELE,NS,carcinoma,0,1	SELE	84	1	NM_000450	exon9	c.C1402T	p.H468Y	ATCCATGTAATTC	.	PASS	Atlas-SNP
POSTN	10631	hgsc.bcm.edu	37	13	38158992	38158992	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	3	150	0	0.0186335	0	.	.	none	POSTN,NS,carcinoma,-1,3	POSTN	161	3	NM_006475	exon8	c.G969A	p.T323T	TTCCAGCGTCTCA	.	scavenged	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136268897	136268897	+	Silent	SNP	G	G	A	rs36079470	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	32	58	0	0.450704	0	G|0.952;A|0.048	0.048	strong	.	C9orf96	77	.	NM_153710	exon15	c.G1548A	p.A516A	CCCTGCGGATGGG	.	PASS	Atlas-SNP
RPS6KA1	6195	hgsc.bcm.edu	37	1	26887592	26887592	+	Silent	SNP	T	T	C	rs1064196	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	37	75	0	0.468354	0	T|0.604;C|0.396	0.396	strong	.	RPS6KA1	65	.	NM_001006665	exon15	c.T1425C	p.Y475Y	GCGGTATGGCCAG	.	PASS	Atlas-SNP
NUF2	83540	hgsc.bcm.edu	37	1	163309219	163309219	+	Silent	SNP	A	A	T	rs1509022	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	121	113	0	0.991803	0	A|0.599;T|0.401	0.401	strong	.	NUF2	138	.	NM_145697	exon8	c.A558T	p.G186G	AGATGGAATTCAG	.	PASS	Atlas-SNP
COL11A2	1302	hgsc.bcm.edu	37	6	33138677	33138677	+	Silent	SNP	G	G	A	rs1799911	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	83	90	0	0.988095	0	G|0.763;A|0.237	0.237	strong	.	COL11A2	124	.	NM_080680	exon46	c.C3384T	p.P1128P	AGCTCCGGGCTCC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29759225	29759225	+	Silent	SNP	A	A	G	rs11007607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	66	126	1	0.4125	0.00793651	A|0.769;G|0.231	0.231	strong	SVIL,NS,carcinoma,0,1	SVIL	226	1	NM_021738	exon32	c.T5823C	p.A1941A	GTTCGCAGCGGTC	.	scavenged	Atlas-SNP
PRPF4B	8899	hgsc.bcm.edu	37	6	4031998	4031998	+	Missense_Mutation	SNP	A	A	G	rs9503893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	78	168	0	0.453488	0	A|0.296;G|0.704	0.704	strong	.	PRPF4B	140	.	NM_003913	exon2	c.A247G	p.I83V	AAAGAGATTATTG	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78363033	78363033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	89	151	0	0.497207	0	.	.	none	.	RNF213	766	.	NM_001256071	exon65	c.G15061A	p.A5021T	AGCGATGCCTGTG	.	PASS	Atlas-SNP
MTSS1	9788	hgsc.bcm.edu	37	8	125565328	125565328	+	Missense_Mutation	SNP	T	T	C	rs3829037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	166	188	1	0.994012	0.00531915	T|0.816;C|0.184	0.184	strong	.	MTSS1	79	.	NM_014751	exon14	c.A2173G	p.T725A	GTGGAGTATCCCT	.	PASS	Atlas-SNP
MICALCL	84953	hgsc.bcm.edu	37	11	12315186	12315186	+	Missense_Mutation	SNP	G	G	A	rs10741578	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	34	82	0	0.453333	0	G|0.506;A|0.494	0.494	strong	.	MICALCL	59	.	NM_032867	exon3	c.G208A	p.V70I	CGAGCCGTAGCCC	.	PASS	Atlas-SNP
NLRP7	199713	hgsc.bcm.edu	37	19	55450746	55450746	+	Missense_Mutation	SNP	C	C	T	rs61747414	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	34	84	1	0.453333	0.0119048	C|0.893;T|0.107	0.107	strong	NLRP7_ENST00000328092,NS,carcinoma,+1,2	NLRP7	411	2	NM_001127255	exon4	c.G1441A	p.A481T	CCAGGGCGTAGAA	.	scavenged	Atlas-SNP
RPA1	6117	hgsc.bcm.edu	37	17	1782957	1782957	+	Silent	SNP	C	C	T	rs2230930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	75	47	0	1	0	C|0.802;N|0.000	.	strong	.	RPA1	48	.	NM_002945	exon11	c.C1056T	p.S352S	CACATCCGGGAAG	.	PASS	Atlas-SNP
DAPK1	1612	hgsc.bcm.edu	37	9	90321293	90321293	+	Missense_Mutation	SNP	G	G	A	rs200627640	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	221	99	175	0	0.447964	0	G|0.999;A|0.001	0.001	strong	.	DAPK1	329	.	NM_004938	exon26	c.G3307A	p.V1103I	GTGGACGTCCCAG	.	PASS	Atlas-SNP
MS4A6A	64231	hgsc.bcm.edu	37	11	59945745	59945745	+	Silent	SNP	T	T	C	rs12453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	146	123	0	1	0	T|0.688;C|0.312	0.312	strong	MS4A6A_ENST00000529054,NS,carcinoma,0,3	MS4A6A	85	3	NM_001247999	exon5	c.A411G	p.L137L	CTTGGTTAACCTT	.	PASS	Atlas-SNP
NPY2R	4887	hgsc.bcm.edu	37	4	156136027	156136027	+	Silent	SNP	C	C	T	rs2880415	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	109	88	0	1	0	C|0.384;T|0.616	0.616	strong	.	NPY2R	87	.	NM_000910	exon2	c.C936T	p.I312I	CCACATCATCGCC	.	PASS	Atlas-SNP
GLG1	2734	hgsc.bcm.edu	37	16	74499589	74499589	+	Silent	SNP	G	G	A	rs2303275	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	70	113	0	0.564516	0	G|0.883;A|0.117	0.117	strong	.	GLG1	106	.	NM_001145667	exon19	c.C2652T	p.C884C	CTGCTTGCAGACC	.	PASS	Atlas-SNP
NID1	4811	hgsc.bcm.edu	37	1	236144951	236144951	+	Silent	SNP	A	A	G	rs3738525	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	42	82	0	0.506024	0	A|0.729;G|0.271	0.271	strong	.	NID1	196	.	NM_002508	exon16	c.T3187C	p.L1063L	TCACCAAGTCAGT	.	PASS	Atlas-SNP
SLC22A18	5002	hgsc.bcm.edu	37	11	2924591	2924591	+	Missense_Mutation	SNP	G	G	A	rs1048046	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	99	115	0	0.980198	0	G|0.814;A|0.186	0.186	strong	.	SLC22A18	20	.	NM_002555	exon2	c.G16A	p.A6T	GCTCGGGCTCCCA	.	PASS	Atlas-SNP
SNAP47	116841	hgsc.bcm.edu	37	1	227954742	227954742	+	Silent	SNP	C	C	T	rs34209229	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	55	91	0	0.518868	0	C|0.975;T|0.025	0.025	strong	.	SNAP47	42	.	NM_053052	exon4	c.C1206T	p.S402S	GACAAGCCTGCCA	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240781	39240781	+	Missense_Mutation	SNP	C	C	G	rs372960430	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	2	50	1	0.105263	0.02	.	.	alt	KRTAP4-9_ENST00000377734,NS,carcinoma,0,2	KRTAP4-7	49	2	NM_033061	exon1	c.C323G	p.T108S	AGCCCACCTGCTG	.	scavenged	Atlas-SNP
FGFR4	2264	hgsc.bcm.edu	37	5	176518784	176518784	+	Silent	SNP	C	C	T	rs452885	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	76	134	0	0.524138	0	C|0.248;T|0.752	0.752	strong	.	FGFR4	174	.	NM_022963	exon5	c.C702T	p.R234R	CATCCGCTATAAC	.	PASS	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	37	1	158517353	158517353	+	Silent	SNP	G	G	A	rs16840314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	39	86	0	0.39	0	G|0.800;A|0.200	0.200	strong	.	OR6Y1	73	.	NM_001005189	exon1	c.C543T	p.H181H	AAAGTAGTGATTG	.	PASS	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	37	5	140256920	140256920	+	Silent	SNP	G	G	C	rs115718636	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	262	124	195	0	0.473282	0	G|0.959;C|0.041	0.041	strong	PCDHA12,colon,carcinoma,0,2	PCDHA12	196	2	NM_018903	exon1	c.G1863C	p.P621P	CATCCCGTTCCAC	.	PASS	Atlas-SNP
FRRS1	391059	hgsc.bcm.edu	37	1	100203693	100203693	+	Silent	SNP	G	G	A	rs7514021	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	84	200	0	0.454054	0	G|0.486;A|0.514	0.514	strong	.	FRRS1	50	.	NM_001013660	exon7	c.C708T	p.S236S	GGGGCCGCTCATT	.	PASS	Atlas-SNP
PLEKHG6	55200	hgsc.bcm.edu	37	12	6427052	6427052	+	Silent	SNP	C	C	T	rs1468603	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	90	83	0	1	0	C|0.580;T|0.420	0.420	strong	.	PLEKHG6	62	.	NM_001144856	exon10	c.C1047T	p.H349H	GCGACACATCAAT	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548632	32548632	+	Missense_Mutation	SNP	T	T	A	rs78817721	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	45	200	0	0.234375	0	T|0.711;A|0.289	0.289	strong	.	HLA-DRB1	41	.	NM_002124	exon4	c.A654T	p.R218S	CCGTGCTCCTGAG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239114	31239114	+	Missense_Mutation	SNP	G	G	T	rs1071649	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	7	43	0	0.241379	0	T|0.197;G|0.798;A|0.005	0.197	strong	HLA-C_ENST00000383329,colon,carcinoma,0,4	HLA-C	92	4	NM_002117	exon3	c.C355A	p.L119I	TCTGGAGGGTGTG	.	scavenged	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023818	6023818	+	Silent	SNP	G	G	A	rs10839221	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	94	96	0	1	0	G|0.801;A|0.199	0.199	strong	.	OR56A4	66	.	NM_001005179	exon1	c.C561T	p.Y187Y	AGACGGGTATCTC	.	PASS	Atlas-SNP
CA8	767	hgsc.bcm.edu	37	8	61178574	61178574	+	Silent	SNP	T	T	C	rs7464181	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	33	63	0	0.445946	0	T|0.488;C|0.512	0.512	strong	.	CA8	31	.	NM_004056	exon3	c.A327G	p.E109E	TTCAAATTCATGC	.	PASS	Atlas-SNP
EYA4	2070	hgsc.bcm.edu	37	6	133789728	133789728	+	Missense_Mutation	SNP	G	G	A	rs9493627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	33	137	0	0.388235	0	G|0.600;A|0.400	0.400	strong	.	EYA4	196	.	NM_172105	exon11	c.G829A	p.G277S	GCCTTTGGCCAAA	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116931666	116931666	+	Missense_Mutation	SNP	A	A	T	rs2567705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	29	35	0	0.54717	0	A|0.648;T|0.352	0.352	strong	.	COL27A1	200	.	NM_032888	exon3	c.A1831T	p.I611F	TATTCGATCTTCC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105412347	105412347	+	Silent	SNP	C	C	T	rs55842266		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	7	84	2	0.0777778	0.0238095	.	.	weak	AHNAK2_ENST00000333244,NS,neuroblastoma,0,1	AHNAK2	719	1	NM_138420	exon7	c.G9441A	p.K3147K	CTTGAACTTGGGC	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179638721	179638721	+	Missense_Mutation	SNP	C	C	T	rs4894048	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	56	99	0	0.495575	0	C|0.947;T|0.053	0.053	strong	TTN_ENST00000360870,NS,carcinoma,0,6	TTN	18412	6	NM_001267550	exon31	c.G7174A	p.G2392S	CTTGGCCGTCTTT	.	PASS	Atlas-SNP
SLC25A24	29957	hgsc.bcm.edu	37	1	108728484	108728484	+	Silent	SNP	T	T	C	rs862493	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	179	190	0	1	0	C|0.183;N|0.000	0.183	strong	.	SLC25A24	65	.	NM_013386	exon2	c.A276G	p.K92K	TGCCAATTTCATT	.	PASS	Atlas-SNP
OR5R1	219479	hgsc.bcm.edu	37	11	56185689	56185689	+	Missense_Mutation	SNP	A	A	G	rs7931261	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	10	13	0	0.454545	0	A|0.675;G|0.325	0.325	strong	OR5R1,NS,carcinoma,0,1	OR5R1	83	1	NM_001004744	exon1	c.T20C	p.I7T	ACATAAATGATAT	.	PASS	Atlas-SNP
PMF1	11243	hgsc.bcm.edu	37	1	156202173	156202173	+	Missense_Mutation	SNP	A	A	G	rs1052053	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	114	117	0	0.59375	0	A|0.544;C|0.003	.	strong	.	PMF1	12	.	NM_001199653	exon2	c.A224G	p.Q75R	CACAGCAAATCTA	.	PASS	Atlas-SNP
EPB41L4A	64097	hgsc.bcm.edu	37	5	111519758	111519758	+	Missense_Mutation	SNP	T	T	A	rs75508009	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	252	112	261	1	0.444444	0.00383142	T|0.994;A|0.006	0.006	strong	.	EPB41L4A	130	.	NM_022140	exon18	c.A1577T	p.N526I	GCTTGGTTTTTTT	.	PASS	Atlas-SNP
LRIT1	26103	hgsc.bcm.edu	37	10	85992255	85992255	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	19	100	0	0.231707	0	.	.	none	.	LRIT1	73	.	NM_015613	exon4	c.G1300A	p.V434M	CCTTCACAGACCT	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3188778	3188778	+	Missense_Mutation	SNP	C	C	T	rs139422575	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	126	157	0	0.602871	0	C|0.995;T|0.005	0.005	strong	.	MYOM1	192	.	NM_003803	exon4	c.G739A	p.E247K	CCTTTTCTCGAAT	.	PASS	Atlas-SNP
SENP8	123228	hgsc.bcm.edu	37	15	72432140	72432140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	5	106	0	0.04	0	.	.	none	.	SENP8	18	.	NM_001166340	exon2	c.C176T	p.T59I	AAGTCACCCAGTT	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169541513	169541513	+	Missense_Mutation	SNP	C	C	G	rs6019	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	31	40	0	0.378049	0	C|0.863;G|0.137	0.137	strong	.	F5	301	.	NM_000130	exon3	c.G319C	p.D107H	GCTTATCTGCCTT	.	PASS	Atlas-SNP
ZP2	7783	hgsc.bcm.edu	37	16	21215672	21215672	+	Silent	SNP	A	A	G	rs2075526	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	66	118	0	0.519685	0	A|0.721;G|0.279	0.279	strong	.	ZP2	92	.	NM_003460	exon8	c.T747C	p.P249P	CTGTCCAGGAGAT	.	PASS	Atlas-SNP
TNS4	84951	hgsc.bcm.edu	37	17	38645125	38645125	+	Missense_Mutation	SNP	A	A	G	rs3764424	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	84	107	1	0.988235	0.00934579	A|0.708;G|0.292	0.292	strong	TNS4,NS,carcinoma,0,2	TNS4	72	2	NM_032865	exon3	c.T536C	p.L179P	CTGCGAAGGGAGC	.	PASS	Atlas-SNP
SCLT1	132320	hgsc.bcm.edu	37	4	129867280	129867280	+	Missense_Mutation	SNP	T	T	A	rs10028124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	132	127	1	1	0.00787402	T|0.257;A|0.743	0.743	strong	.	SCLT1	136	.	NM_144643	exon16	c.A1321T	p.S441C	AATCACTCTCATT	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545913	47545913	+	Silent	SNP	G	G	A	rs2839114	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	122	117	0	1	0	G|0.690;A|0.310	0.310	strong	.	COL6A2	351	.	NM_058175	exon26	c.G2184A	p.V728V	TGCGGTGGTCATC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506747	195506747	+	Missense_Mutation	SNP	C	C	T	rs62282470	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	24	74	0	0.727273	0	C|0.920;T|0.080	0.080	strong	MUC4_ENST00000463781,NS,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.G11704A	p.A3902T	GGGTGGCGTGACG	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295763	20295763	+	Silent	SNP	C	C	T	rs11621854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	319	74	254	0	0.231975	0	C|0.764;T|0.236	0.236	strong	.	OR4N2	125	.	NM_001004723	exon1	c.C156T	p.D52D	GTCAGACCCTGGG	.	PASS	Atlas-SNP
EPHX1	2052	hgsc.bcm.edu	37	1	226032229	226032229	+	Silent	SNP	C	C	T	rs1051741	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	49	69	0	0.538462	0	C|0.899;T|0.101	0.101	strong	EPHX1,NS,carcinoma,0,1	EPHX1	57	1	NM_001136018	exon8	c.C1071T	p.N357N	GACCAACGTCATG	.	PASS	Atlas-SNP
GFER	2671	hgsc.bcm.edu	37	16	2035868	2035868	+	Silent	SNP	C	C	T	rs1046502	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	15	28	0	0.625	0	C|0.785;T|0.215	0.215	strong	.	GFER	8	.	NM_005262	exon3	c.C457T	p.L153L	CACAGGCTGTGCA	.	PASS	Atlas-SNP
SYT15	83849	hgsc.bcm.edu	37	10	46965017	46965017	+	Missense_Mutation	SNP	C	C	T	rs200586361	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	26	107	0	0.226087	0	C|0.998;T|0.002	0.002	weak	SYT15_ENST00000374328,NS,carcinoma,-1,1	SYT15	165	1	NM_031912	exon6	c.G928A	p.D310N	CTCTGTCCTCCTG	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629755	32629755	+	Missense_Mutation	SNP	G	G	A	rs1130399	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	14	73	0	0.318182	0	G|0.812;A|0.188	0.188	strong	.	HLA-DQB1	15	.	NM_002123	exon3	c.C650T	p.T217I	TCCACGGTGATGG	.	PASS	Atlas-SNP
FLT1	2321	hgsc.bcm.edu	37	13	28893642	28893642	+	Silent	SNP	A	A	G	rs2296189	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	35	98	0	0.486111	0	A|0.792;G|0.208	0.208	strong	.	FLT1	393	.	NM_002019	exon24	c.T3204C	p.P1068P	AGATTCAGGAGCC	.	PASS	Atlas-SNP
SOGA2	23255	hgsc.bcm.edu	37	18	8784612	8784612	+	Missense_Mutation	SNP	A	A	G	rs1965665	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	31	61	0	0.442857	0	A|0.697;G|0.303	0.303	strong	.	.	.	.	NM_015210	exon6	c.A1502G	p.Q501R	AGGAGCAGGGTGA	.	PASS	Atlas-SNP
GMEB2	26205	hgsc.bcm.edu	37	20	62221766	62221766	+	Silent	SNP	C	C	T	rs2297428	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	34	28	0	0.576271	0	C|0.763;T|0.237	0.237	strong	.	GMEB2	44	.	NM_012384	exon10	c.G1269A	p.P423P	GGAGGCCGGGGAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9080462	9080462	+	Missense_Mutation	SNP	C	C	G	rs2547065	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	49	54	0	1	0	C|0.370;G|0.630	0.630	strong	.	MUC16	4315	.	NM_024690	exon2	c.G9569C	p.S3190T	GGACTGCTCCCCG	.	PASS	Atlas-SNP
KIAA0196	9897	hgsc.bcm.edu	37	8	126044527	126044527	+	Silent	SNP	C	C	T	rs11542889	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	27	74	0	0.5	0	C|0.847;T|0.153	0.153	strong	.	KIAA0196	90	.	NM_014846	exon27	c.G3291A	p.A1097A	AATCAGCGCCAGG	.	PASS	Atlas-SNP
RGL4	266747	hgsc.bcm.edu	37	22	24036563	24036563	+	Silent	SNP	G	G	A	rs2070447	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	61	87	0	0.539823	0	G|0.908;A|0.092	0.092	strong	.	RGL4	29	.	NM_153615	exon5	c.G942A	p.S314S	CTCCTCGGTGCAC	.	PASS	Atlas-SNP
KIR2DL3	3804	hgsc.bcm.edu	37	19	55258808	55258808	+	Missense_Mutation	SNP	C	C	T	rs35861855	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	55	69	0	0.390071	0	C|0.882;T|0.118	0.118	strong	.	KIR2DL3	68	.	NM_015868	exon5	c.C686T	p.P229L	GTTGGCCTTCACC	.	PASS	Atlas-SNP
PLEKHA6	22874	hgsc.bcm.edu	37	1	204242838	204242838	+	Silent	SNP	A	A	C	rs33911350	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	147	97	4	1	0.0412371	A|0.831;C|0.169	0.169	strong	PLEKHA6,NS,carcinoma,0,1	PLEKHA6	115	1	NM_014935	exon3	c.T18G	p.G6G	TTTCCCACCTGTT	.	scavenged	Atlas-SNP
PLEKHG3	26030	hgsc.bcm.edu	37	14	65208026	65208026	+	Silent	SNP	T	T	C	rs229650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	112	87	0	1	0	T|0.756;C|0.244	0.244	strong	.	PLEKHG3	89	.	NM_015549	exon14	c.T1623C	p.S541S	ACCCTCTGTGCTG	.	PASS	Atlas-SNP
EFR3A	23167	hgsc.bcm.edu	37	8	132999936	132999936	+	Silent	SNP	A	A	G	rs2270875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	60	93	0	0.582524	0	A|0.899;G|0.101	0.101	strong	EFR3A,rectum,carcinoma,0,2	EFR3A	96	2	NM_015137	exon18	c.A2052G	p.V684V	GTATGTACCACAA	.	PASS	Atlas-SNP
CLSPN	63967	hgsc.bcm.edu	37	1	36225948	36225948	+	Missense_Mutation	SNP	T	T	C	rs7537203	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	70	143	0	0.551181	0	T|0.628;C|0.372	0.372	strong	.	CLSPN	248	.	NM_001190481	exon8	c.A1574G	p.N525S	CCTCTGTTGGTTT	.	PASS	Atlas-SNP
AMDHD1	144193	hgsc.bcm.edu	37	12	96346594	96346594	+	Silent	SNP	T	T	C	rs1982138	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	19	35	0	0.59375	0	T|0.779;C|0.221	0.221	strong	.	AMDHD1	56	.	NM_152435	exon2	c.T237C	p.I79I	ATGTATTCTACCA	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201174215	201174215	+	Missense_Mutation	SNP	C	C	A	rs11584104	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	25	73	0	0.3125	0	C|0.971;A|0.029	0.029	strong	.	IGFN1	220	.	NM_001164586	exon11	c.C922A	p.P308T	GCCATCCCCCCAA	.	PASS	Atlas-SNP
SLC16A7	9194	hgsc.bcm.edu	37	12	60173356	60173356	+	Missense_Mutation	SNP	A	A	T	rs3763980	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	28	88	0	0.466667	0	T|0.245;N|0.000	0.245	strong	.	SLC16A7	82	.	NM_001270622	exon6	c.A1333T	p.T445S	CAGAAGACCAGAG	.	PASS	Atlas-SNP
CHGA	1113	hgsc.bcm.edu	37	14	93399101	93399101	+	Missense_Mutation	SNP	C	C	T	rs729940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	35	48	0	0.538462	0	C|0.876;T|0.124	0.124	strong	.	CHGA	32	.	NM_001275	exon7	c.C1195T	p.R399W	TCCTCCCGGGAGG	.	PASS	Atlas-SNP
CCDC71	64925	hgsc.bcm.edu	37	3	49201140	49201140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	16	56	0	0.210526	0	.	.	none	.	CCDC71	33	.	NM_022903	exon2	c.G502A	p.G168S	AGACACCTGGATA	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178608112	178608112	+	Silent	SNP	G	G	A	rs35462609	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	37	84	0	0.513889	0	G|0.974;A|0.026	0.026	strong	.	ADAMTS2	190	.	NM_021599	exon5	c.C936T	p.N312N	GACCACGTTGATG	.	PASS	Atlas-SNP
CA6	765	hgsc.bcm.edu	37	1	9030964	9030964	+	Silent	SNP	C	C	T	rs3737665	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	32	69	0	0.380952	0	C|0.763;T|0.237	0.237	strong	.	CA6	47	.	NM_001270500	exon7	c.C768T	p.N256N	CCGCAACAAGACC	.	PASS	Atlas-SNP
GPLD1	2822	hgsc.bcm.edu	37	6	24437458	24437458	+	Missense_Mutation	SNP	T	T	C	rs1042303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	26	66	0	0.412698	0	T|0.628;C|0.372	0.372	strong	.	GPLD1	91	.	NM_001503	exon21	c.A2080G	p.M694V	CGTACATGCGAGT	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96506664	96506664	+	Silent	SNP	A	A	G	rs11070154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	76	139	1	0.598425	0.00719424	A|0.648;G|0.352	0.352	strong	UGGT2,NS,carcinoma,0,1	UGGT2	127	1	NM_020121	exon35	c.T4074C	p.T1358T	AAATGGAGTATAC	.	scavenged	Atlas-SNP
RBM23	55147	hgsc.bcm.edu	37	14	23371268	23371268	+	Silent	SNP	A	A	G	rs56708790	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	11	32	0	0.366667	0	A|0.887;G|0.113	0.113	strong	RBM23,NS,carcinoma,0,3	RBM23	44	3	NM_001077351	exon12	c.T1167C	p.A389A	GGCGGCAGCAGCA	.	PASS	Atlas-SNP
PDE11A	50940	hgsc.bcm.edu	37	2	178682603	178682603	+	Silent	SNP	T	T	C	rs6720891	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	28	79	0	0.4	0	T|0.578;C|0.422	0.422	strong	.	PDE11A	283	.	NM_016953	exon8	c.A1626G	p.A542A	TTGATCTGCATCA	.	PASS	Atlas-SNP
CLCN7	1186	hgsc.bcm.edu	37	16	1509123	1509123	+	Silent	SNP	G	G	A	rs12923538	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	53	146	0	0.373239	0	G|0.854;A|0.146	0.146	strong	CLCN7,colon,carcinoma,-1,1	CLCN7	53	1	NM_001287	exon7	c.C660T	p.H220H	CACCACGTGGGGG	.	PASS	Atlas-SNP
AHDC1	27245	hgsc.bcm.edu	37	1	27878162	27878162	+	Silent	SNP	C	C	T	rs112179924	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	58	98	0	0.527273	0	C|0.918;T|0.082	0.082	strong	.	AHDC1	98	.	NM_001029882	exon6	c.G465A	p.P155P	TGCAGGCGGGCGG	.	PASS	Atlas-SNP
GOLGA6L6	727832	hgsc.bcm.edu	37	15	20740192	20740192	+	Missense_Mutation	SNP	G	G	A	rs145446071	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	242	67	164	0	0.276859	0	G|0.854;A|0.146	0.146	strong	GOLGA6L6,NS,carcinoma,0,2	GOLGA6L6	37	2	NM_001145004	exon8	c.C1558T	p.R520W	GCTCCCGTATCTT	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100933407	100933407	+	Silent	SNP	G	G	A	rs139646398	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	31	89	0	0.430556	0	G|0.999;A|0.001	0.001	strong	.	PGR	115	.	NM_000926	exon4	c.C1983T	p.G661G	TGGAACGCCCACT	.	PASS	Atlas-SNP
SYCP2L	221711	hgsc.bcm.edu	37	6	10964015	10964015	+	Silent	SNP	G	G	A	rs115084361	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	32	79	0	0.5	0	G|0.987;A|0.013	0.013	strong	.	SYCP2L	101	.	NM_001040274	exon29	c.G2415A	p.R805R	TTCCAGGTTCAAT	.	PASS	Atlas-SNP
P4HB	5034	hgsc.bcm.edu	37	17	79805134	79805134	+	Silent	SNP	G	G	A	rs2070871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	78	112	0	0.545455	0	G|0.869;A|0.131	0.131	strong	.	P4HB	43	.	NM_000918	exon5	c.C714T	p.I238I	GAACTCGATGACA	.	PASS	Atlas-SNP
ALDH9A1	223	hgsc.bcm.edu	37	1	165652273	165652273	+	Silent	SNP	A	A	G	rs1143659	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	75	50	0	1	0	A|0.299;G|0.701	0.701	strong	.	ALDH9A1	75	.	NM_000696	exon3	c.T402C	p.I134I	AATGTCAATGTCC	.	PASS	Atlas-SNP
PATL1	219988	hgsc.bcm.edu	37	11	59410479	59410479	+	Silent	SNP	A	A	T	rs77793148	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	43	64	0	0.530864	0	A|0.995;G|0.000;T|0.005	0.005	strong	.	PATL1	92	.	NM_152716	exon16	c.T1923A	p.S641S	AAGGAGAGAGAAG	.	PASS	Atlas-SNP
FFAR2	2867	hgsc.bcm.edu	37	19	35940721	35940721	+	Silent	SNP	G	G	C	rs117215242	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	24	70	0	0.428571	0	C|0.043;G|0.956;T|0.001	0.043	strong	.	FFAR2	39	.	NM_005306	exon1	c.G105C	p.R35R	GGGGCGGATCCGC	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82387960	82387960	+	Silent	SNP	G	G	A	rs62465931	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	40	0	0.454545	0	G|0.987;A|0.013	0.013	strong	.	PCLO	1506	.	NM_033026	exon25	c.C15360T	p.D5120D	CACTTTGTCAAGC	.	PASS	Atlas-SNP
RFTN1	23180	hgsc.bcm.edu	37	3	16364919	16364919	+	Silent	SNP	A	A	C	rs690216	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	114	68	0	0.991304	0	A|0.402;C|0.598	0.598	strong	.	RFTN1	79	.	NM_015150	exon9	c.T1296G	p.P432P	TAGACAAGGTCTC	.	PASS	Atlas-SNP
SIDT1	54847	hgsc.bcm.edu	37	3	113320477	113320477	+	Missense_Mutation	SNP	C	C	T	rs33990195	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	53	102	1	0.344156	0.00980392	C|0.924;T|0.076	0.076	strong	SIDT1,colon,carcinoma,-1,1	SIDT1	99	1	NM_017699	exon11	c.C1088T	p.T363I	CCAGCACACCCGA	.	scavenged	Atlas-SNP
LSP1	4046	hgsc.bcm.edu	37	11	1874404	1874404	+	Silent	SNP	C	C	T	rs2089910	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	55	66	0	1	0	C|0.721;T|0.279	0.279	strong	LSP1_ENST00000311604,rectum,carcinoma,0,1	LSP1	59	1	NM_002339	exon1	c.C30T	p.A10A	GGGTGCCGAGGAG	.	PASS	Atlas-SNP
BPIFC	254240	hgsc.bcm.edu	37	22	32810378	32810378	+	Missense_Mutation	SNP	T	T	G	rs35856742	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	97	0	0.511628	0	T|0.936;G|0.064	0.064	strong	.	.	.	.	NM_174932	exon15	c.A1436C	p.E479A	GATGTTTCATACT	.	PASS	Atlas-SNP
GCC1	79571	hgsc.bcm.edu	37	7	127222157	127222157	+	Silent	SNP	G	G	A	rs3735644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	200	104	181	0	0.52	0	G|0.799;A|0.201	0.201	strong	.	GCC1	83	.	NM_024523	exon2	c.C2239T	p.L747L	TAGTCAGTATGGC	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	712156	712156	+	Missense_Mutation	SNP	T	T	G	rs912174	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	28	59	0	0.571429	0	T|0.781;G|0.219	0.219	strong	KANK1,NS,carcinoma,0,1	KANK1	231	1	NM_001256876	exon7	c.T1390G	p.S464A	ATAGAATCCTTGA	.	PASS	Atlas-SNP
CCDC51	79714	hgsc.bcm.edu	37	3	48474249	48474249	+	Silent	SNP	A	A	G	rs2279077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	37	65	0	0.544118	0	A|0.636;G|0.364	0.364	strong	.	CCDC51	34	.	NM_024661	exon4	c.T805C	p.L269L	CCCTCAAGTCCAC	.	PASS	Atlas-SNP
FAM175A	84142	hgsc.bcm.edu	37	4	84383810	84383810	+	Missense_Mutation	SNP	C	C	T	rs12642536	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	264	263	313	0	0.996212	0	C|0.642;T|0.358	0.358	strong	.	FAM175A	36	.	NM_139076	exon9	c.G1042A	p.A348T	CTAAGGCTTTATG	.	PASS	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127215772	127215772	+	Missense_Mutation	SNP	C	C	G	rs72616654	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	15	26	0	0.789474	0	C|0.491;G|0.509	0.509	strong	.	GPR144	33	.	NM_001161808	exon4	c.C796G	p.H266D	GTGCGTCACGCCC	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28507452	28507452	+	Missense_Mutation	SNP	G	G	T	rs370148393	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	7	2	22	1	0.285714	0.0454545	.	.	alt	APOBR,caecum,carcinoma,0,1	APOBR	89	1	NM_018690	exon2	c.G1090T	p.G364W	GAGGCCGGGACAG	.	scavenged	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	37	10	135012652	135012652	+	Silent	SNP	T	T	C	rs3008388	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	45	40	0	1	0	T|0.587;C|0.413	0.413	strong	KNDC1,rectum,carcinoma,0,2	KNDC1	155	2	NM_152643	exon14	c.T2640C	p.D880D	CGTGGATGCCTCG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179593352	179593352	+	Missense_Mutation	SNP	C	C	T	rs11888217	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	53	111	0	0.434426	0	C|0.952;T|0.048	0.048	strong	.	TTN	18412	.	NM_001267550	exon66	c.G19301A	p.S6434N	TCAAAACTCATTG	.	PASS	Atlas-SNP
CCDC11	220136	hgsc.bcm.edu	37	18	47777244	47777244	+	Missense_Mutation	SNP	C	C	T	rs35193847	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	368	200	303	0	0.543478	0	C|0.738;T|0.262	0.262	strong	.	CCDC11	59	.	NM_145020	exon5	c.G880A	p.E294K	TCCTCTCTTGTAG	.	PASS	Atlas-SNP
PABPC1	26986	hgsc.bcm.edu	37	8	101724606	101724606	+	Missense_Mutation	SNP	G	G	A	rs202060459		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	4	170	1	0.0227273	0.00588235	.	.	weak	PABPC1,NS,carcinoma,0,2	PABPC1	76	2	NM_002568	exon7	c.C956T	p.T319I	GTGATTGTACCAA	.	scavenged	Atlas-SNP
HSPH1	10808	hgsc.bcm.edu	37	13	31725260	31725260	+	Silent	SNP	A	A	G	rs11556147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	67	139	0	0.553719	0	A|0.653;G|0.347	0.347	strong	.	HSPH1	65	.	NM_006644	exon7	c.T732C	p.F244F	TGCACAAAAATGT	.	PASS	Atlas-SNP
GTSE1	51512	hgsc.bcm.edu	37	22	46722531	46722531	+	Silent	SNP	C	C	T	rs9615949	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	56	0	0.506667	0	C|0.928;T|0.072	0.072	strong	.	GTSE1	100	.	NM_016426	exon9	c.C1704T	p.P568P	TGAGCCCCGCAAG	.	PASS	Atlas-SNP
ALKBH3	221120	hgsc.bcm.edu	37	11	43940644	43940644	+	Silent	SNP	G	G	T	rs1048928	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	20	44	0	0.408163	0	G|0.420;T|0.580	0.580	strong	.	ALKBH3	33	.	NM_139178	exon9	c.G726T	p.G242G	TCATGGGACCTTG	.	PASS	Atlas-SNP
C18orf21	83608	hgsc.bcm.edu	37	18	33557466	33557466	+	Missense_Mutation	SNP	A	A	G	rs2276314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	31	59	0	0.378049	0	A|0.742;G|0.258	0.258	strong	.	C18orf21	15	.	NM_031446	exon4	c.A394G	p.T132A	ACTCCTACAAGTA	.	PASS	Atlas-SNP
XPO4	64328	hgsc.bcm.edu	37	13	21429776	21429776	+	Missense_Mutation	SNP	T	T	C	rs17320607	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	14	25	0	0.518519	0	T|0.986;C|0.014	0.014	strong	.	XPO4	153	.	NM_022459	exon4	c.A446G	p.N149S	GTGGGATTGCCAC	.	PASS	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162909687	162909687	+	Silent	SNP	G	G	A	rs17600938	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	234	111	225	0	0.474359	0	G|0.890;A|0.110	0.110	strong	.	HMMR	64	.	NM_001142556	exon13	c.G1425A	p.K475K	TCTTAAGCTGGAG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1272858	1272858	+	Silent	SNP	C	C	T	rs4963059	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	33	66	0	0.492537	0	C|0.663;T|0.337	0.337	strong	.	MUC5B	473	.	NM_002458	exon31	c.C14748T	p.F4916F	AACCTTCAGCGTG	.	PASS	Atlas-SNP
RNF169	254225	hgsc.bcm.edu	37	11	74546905	74546905	+	Silent	SNP	G	G	A	rs1125609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	28	67	0	0.41791	0	G|0.788;A|0.212	0.212	strong	RNF169,colon,carcinoma,0,1	RNF169	36	1	NM_001098638	exon6	c.G1257A	p.Q419Q	CCTGCAGAAGCAG	.	PASS	Atlas-SNP
PRB3	5544	hgsc.bcm.edu	37	12	11420904	11420904	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	10	42	0	0.263158	0	.	.	none	PRB3_ENST00000538488,colon,carcinoma,0,2	PRB3	84	2	NM_006249	exon3	c.A279G	p.P93P	ACGAGGTGGGGGA	.	scavenged	Atlas-SNP
OR4P4	81300	hgsc.bcm.edu	37	11	55406022	55406022	+	Nonsense_Mutation	SNP	C	C	G	rs76160133	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	49	50	0	0.576471	0	C|0.813;G|0.187	0.187	strong	OR4P4,NS,carcinoma,0,1	OR4P4	84	1	NM_001004124	exon1	c.C189G	p.Y63X	CAATTACCTCTCA	.	PASS	Atlas-SNP
TARBP1	6894	hgsc.bcm.edu	37	1	234529552	234529552	+	Silent	SNP	C	C	T	rs2175594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	71	134	0	0.496504	0	C|0.508;T|0.492	0.492	strong	.	TARBP1	111	.	NM_005646	exon27	c.G4275A	p.A1425A	CCACTCCGCTTGG	.	PASS	Atlas-SNP
TMEM89	440955	hgsc.bcm.edu	37	3	48658924	48658924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	108	144	0	0.556701	0	.	.	none	TMEM89,NS,carcinoma,+1,1	TMEM89	10	1	NM_001008269	exon1	c.G266A	p.R89Q	CGCCGCCGCCCCT	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	37	15	27772697	27772697	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	37	126	0	0.352381	0	.	.	none	GABRG3,NS,carcinoma,0,2	GABRG3	115	2	NM_033223	exon8	c.C984A	p.F328L	TGTCTTCGCCGCG	.	PASS	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	37	11	6652618	6652618	+	Silent	SNP	C	C	T	rs2659871	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	61	103	0	0.544643	0	C|0.532;T|0.468	0.468	strong	DCHS1,colon,carcinoma,0,1	DCHS1	277	1	NM_003737	exon8	c.G3696A	p.P1232P	TGTTCCCGGAGGC	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140558345	140558345	+	Missense_Mutation	SNP	G	G	C	rs2950844	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	325	114	430	0	0.350769	0	G|0.884;C|0.116	0.116	strong	.	PCDHB8	199	.	NM_019120	exon1	c.G730C	p.E244Q	GAATTTGAGCAGC	.	PASS	Atlas-SNP
ZC3HC1	51530	hgsc.bcm.edu	37	7	129663496	129663496	+	Missense_Mutation	SNP	C	C	T	rs11556924	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	29	56	0	0.491525	0	C|0.777;T|0.223	0.223	strong	.	ZC3HC1	45	.	NM_016478	exon8	c.G1088A	p.R363H	TCAGGACGGTCAA	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81248716	81248716	+	Missense_Mutation	SNP	C	C	T	rs12933806	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	56	89	0	0.543689	0	C|0.780;T|0.220	0.220	strong	.	PKD1L2	361	.	NM_001076780	exon3	c.G547A	p.V183I	CGTAGACGGCATC	.	PASS	Atlas-SNP
TMEM176B	28959	hgsc.bcm.edu	37	7	150490376	150490376	+	Missense_Mutation	SNP	C	C	T	rs2072443	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	61	75	0	1	0	C|0.608;T|0.392	0.392	strong	.	TMEM176B	36	.	NM_014020	exon5	c.G400A	p.A134T	AGCCTGCCAGGGT	.	PASS	Atlas-SNP
DCAF7	10238	hgsc.bcm.edu	37	17	61655938	61655938	+	Silent	SNP	C	C	T	rs143007748	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	3	112	0	0.0227273	0	C|0.990;T|0.010	0.010	strong	DCAF7,colon,carcinoma,0,1	DCAF7	36	1	NM_005828	exon2	c.C246T	p.G82G	AAAAGGCGTCTAT	.	scavenged	Atlas-SNP
MC3R	4159	hgsc.bcm.edu	37	20	54824029	54824029	+	Missense_Mutation	SNP	G	G	A	rs3827103	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	32	70	0	0.492308	0	G|0.782;A|0.218	0.218	strong	.	MC3R	83	.	NM_019888	exon1	c.G130A	p.V44I	CCCGAGGTTTTCC	.	PASS	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023581	6023581	+	Silent	SNP	A	A	G	rs11040248	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	64	66	0	0.969697	0	A|0.799;G|0.201	0.201	strong	.	OR56A4	66	.	NM_001005179	exon1	c.T798C	p.L266L	AAGGATAAGATCA	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111660851	111660851	+	Missense_Mutation	SNP	C	C	T	rs2230792	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	23	49	0	0.5	0	T|0.207;G|0.122;C|0.615;A|0.056	0.207	strong	.	IKBKAP	122	.	NM_003640	exon22	c.G2294A	p.G765E	ACATTTCCAAGAA	.	PASS	Atlas-SNP
GRIN2B	2904	hgsc.bcm.edu	37	12	13716638	13716638	+	Silent	SNP	G	G	A	rs1806191	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	17	33	0	0.459459	0	G|0.661;A|0.339	0.339	strong	.	GRIN2B	303	.	NM_000834	exon13	c.C3534T	p.H1178H	CTTGATGTGAGAC	.	PASS	Atlas-SNP
IST1	9798	hgsc.bcm.edu	37	16	71950450	71950450	+	Silent	SNP	C	C	T	rs1049794	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	54	147	0	0.457627	0	C|0.864;T|0.136	0.136	strong	.	.	.	.	NM_001270976	exon4	c.C213T	p.H71H	GGAGCACATTATC	.	PASS	Atlas-SNP
LRRC23	10233	hgsc.bcm.edu	37	12	7023123	7023123	+	Missense_Mutation	SNP	A	A	G	rs710415	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	99	0	1	0	A|0.551;G|0.449	0.449	strong	.	LRRC23	46	.	NM_006992	exon7	c.A827G	p.E276G	ACAGAGAACAGAG	.	PASS	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	37	11	121475922	121475922	+	Silent	SNP	T	T	A	rs3824968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	47	91	0	0.451923	0	T|0.706;A|0.294	0.294	strong	.	SORL1	218	.	NM_003105	exon34	c.T4752A	p.A1584A	CTCTGCTTCTTGT	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629809	32629809	+	Missense_Mutation	SNP	C	C	T	rs701564	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	35	93	0	0.59322	0	T|0.225;C|0.775	0.225	strong	HLA-DQB1,NS,carcinoma,0,1	HLA-DQB1	15	1	NM_002123	exon3	c.G596A	p.R199H	TCTCCACGCTGGG	.	PASS	Atlas-SNP
NEIL1	79661	hgsc.bcm.edu	37	15	75646194	75646194	+	Missense_Mutation	SNP	C	C	T	rs142213781	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	22	36	0	0.468085	0	C|0.999;T|0.001	0.001	strong	.	NEIL1	36	.	NM_001256552	exon6	c.C1091T	p.T364I	GCCGTACCATCTG	.	PASS	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4794873	4794873	+	Missense_Mutation	SNP	C	C	T	rs2075469	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	25	49	0	0.531915	0	C|0.402;N|0.000	.	strong	C16orf71,NS,carcinoma,0,1	C16orf71	46	1	NM_139170	exon6	c.C904T	p.R302C	TCAGACCGCATGG	.	PASS	Atlas-SNP
TSPAN13	27075	hgsc.bcm.edu	37	7	16816000	16816000	+	Silent	SNP	T	T	C	rs2290837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	222	149	147	0	0.671171	0	T|0.608;C|0.392	0.392	strong	.	TSPAN13	13	.	NM_014399	exon2	c.T228C	p.F76F	GCTATTTTTTGTA	.	PASS	Atlas-SNP
GUCA2A	2980	hgsc.bcm.edu	37	1	42630364	42630364	+	Missense_Mutation	SNP	G	G	A	rs2071499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	83	220	0	0.448649	0	G|0.596;A|0.404	0.404	strong	GUCA2A,trunk,malignant_melanoma,+1,1	GUCA2A	9	1	NM_033553	exon1	c.C20T	p.S7F	AGTGCGGAGAGCA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152285099	152285099	+	Missense_Mutation	SNP	C	C	T	rs74129461	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	74	127	0	0.532374	0	C|0.815;T|0.185	0.185	strong	.	FLG	900	.	NM_002016	exon3	c.G2263A	p.E755K	AGTCTTCTGAATG	.	PASS	Atlas-SNP
LAMC1	3915	hgsc.bcm.edu	37	1	183105705	183105705	+	Silent	SNP	G	G	A	rs20561	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	89	116	0	0.640288	0	G|0.636;A|0.364	0.364	strong	.	LAMC1	176	.	NM_002293	exon25	c.G4299A	p.A1433A	GATCGCGAGCGCT	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50184949	50184949	+	Silent	SNP	C	C	T	rs2271565	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	50	118	0	0.416667	0	C|0.685;T|0.315	0.315	strong	WDFY4,NS,carcinoma,+1,2	WDFY4	205	2	NM_020945	exon59	c.C9216T	p.C3072C	AACCTGCTGCTGC	.	PASS	Atlas-SNP
EFCAB6	64800	hgsc.bcm.edu	37	22	44079680	44079680	+	Missense_Mutation	SNP	G	G	A	rs137794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	82	159	0	0.5	0	G|0.899;A|0.101	0.101	strong	.	EFCAB6	177	.	NM_022785	exon12	c.C1198T	p.H400Y	CAGTGTGTCTAAA	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552072	32552072	+	Missense_Mutation	SNP	T	T	G	rs17879995	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	23	69	0	0.469388	0	T|0.871;G|0.129	0.129	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.A184C	p.N62H	CCTGGTTATAGAA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281290	152281290	+	Silent	SNP	A	A	G	rs80353812	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	233	94	128	0	0.403433	0	A|0.974;G|0.026	0.026	strong	.	FLG	900	.	NM_002016	exon3	c.T6072C	p.H2024H	TTGTCCATGCCCA	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57386148	57386148	+	Silent	SNP	C	C	G	rs12053975	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	141	121	0	1	0	C|0.735;G|0.265	0.265	strong	.	DNAH12	182	.	NM_178504	exon45	c.G7035C	p.L2345L	AAATAACAGCTTG	.	PASS	Atlas-SNP
ANKLE2	23141	hgsc.bcm.edu	37	12	133306710	133306710	+	Missense_Mutation	SNP	C	C	T	rs78905764	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	39	97	0	0.52	0	C|0.934;T|0.066	0.066	strong	.	ANKLE2	76	.	NM_015114	exon11	c.G2038A	p.E680K	CCTGCTCCAAGGG	.	PASS	Atlas-SNP
TMCO4	255104	hgsc.bcm.edu	37	1	20097822	20097822	+	Silent	SNP	G	G	A	rs11551819	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	19	26	0	0.487179	0	G|0.888;A|0.112	0.112	strong	.	TMCO4	46	.	NM_181719	exon5	c.C333T	p.D111D	CGGGTCGTCCTTC	.	PASS	Atlas-SNP
CARD10	29775	hgsc.bcm.edu	37	22	37900276	37900276	+	Silent	SNP	A	A	G	rs3817803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	34	69	0	0.586207	0	A|0.885;G|0.115	0.115	strong	.	CARD10	55	.	NM_014550	exon9	c.T1551C	p.N517N	GAGCCGATTGATC	.	PASS	Atlas-SNP
ARAP2	116984	hgsc.bcm.edu	37	4	36152584	36152584	+	Silent	SNP	G	G	T	rs13148785	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	24	125	0	0.40678	0	G|0.916;T|0.084	0.084	strong	.	ARAP2	210	.	NM_015230	exon16	c.C2835A	p.T945T	ATTAATGGTGCCA	.	PASS	Atlas-SNP
SPATA13	221178	hgsc.bcm.edu	37	13	24876752	24876752	+	Silent	SNP	T	T	C	rs33990382	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	28	55	0	0.528302	0	T|0.616;C|0.384	0.384	strong	SPATA13,colon,carcinoma,+1,1	SPATA13	92	1	NM_001166271	exon13	c.T3675C	p.P1225P	GTGCCCTGTGGCC	.	PASS	Atlas-SNP
BTBD8	284697	hgsc.bcm.edu	37	1	92554283	92554283	+	Missense_Mutation	SNP	G	G	A	rs34856868	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	40	75	0	0.449438	0	G|0.980;A|0.020	0.020	strong	.	BTBD8	32	.	NM_183242	exon2	c.G178A	p.V60I	ACAGATGTTACCT	.	PASS	Atlas-SNP
RNF152	220441	hgsc.bcm.edu	37	18	59483514	59483514	+	Silent	SNP	A	A	G	rs9319985	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	39	57	0	0.629032	0	A|0.767;G|0.233	0.233	strong	RNF152,caecum,carcinoma,0,1	RNF152	37	1	NM_173557	exon2	c.T183C	p.P61P	GCCGGGAGGCAGC	.	PASS	Atlas-SNP
WDR62	284403	hgsc.bcm.edu	37	19	36594063	36594063	+	Silent	SNP	C	C	T	rs17851502	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	39	86	0	0.428571	0	C|0.869;T|0.131	0.131	strong	.	WDR62	102	.	NM_001083961	exon29	c.C3468T	p.L1156L	GGTCCTCGCTGCA	.	PASS	Atlas-SNP
COQ5	84274	hgsc.bcm.edu	37	12	120954490	120954490	+	Missense_Mutation	SNP	C	C	T	rs3742049	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	70	133	1	0.5	0.0075188	C|0.846;T|0.154	0.154	strong	COQ5,NS,carcinoma,0,1	COQ5	26	1	NM_032314	exon3	c.G454A	p.A152T	CTTTGGCAATTTC	.	scavenged	Atlas-SNP
ZNF468	90333	hgsc.bcm.edu	37	19	53344118	53344118	+	Missense_Mutation	SNP	C	C	G	rs10419826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	24	60	0	0.444444	0	C|0.485;G|0.515	0.515	strong	ZNF468,NS,carcinoma,0,1	ZNF468	46	1	NM_001008801	exon4	c.G1429C	p.G477R	TCTGACCGAAGGT	.	scavenged	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	64498055	64498055	+	Missense_Mutation	SNP	T	T	A	rs66462731	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	42	84	0	0.591549	0	T|0.899;A|0.101	0.101	strong	EYS_ENST00000370621,NS,carcinoma,0,1	EYS	527	1	NM_001142800	exon39	c.A7666T	p.S2556C	ATTCACTGTAGCC	.	PASS	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41048533	41048533	+	Missense_Mutation	SNP	C	C	T	rs13173930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	31	65	0	0.534483	0	C|0.756;T|0.244	0.244	strong	.	.	.	.	NM_173489	exon16	c.G1577A	p.R526H	GCCCCACGTAACT	.	PASS	Atlas-SNP
TTC21B	79809	hgsc.bcm.edu	37	2	166770120	166770120	+	Silent	SNP	A	A	G	rs10176588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	217	101	248	0	0.465438	0	A|0.681;G|0.319	0.319	strong	.	TTC21B	130	.	NM_024753	exon16	c.T2175C	p.F725F	GAGAAGAAAAGAC	.	PASS	Atlas-SNP
PYROXD2	84795	hgsc.bcm.edu	37	10	100147060	100147060	+	Silent	SNP	A	A	G	rs4345897	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	38	67	0	0.974359	0	A|0.541;G|0.459	0.459	strong	.	PYROXD2	43	.	NM_032709	exon14	c.T1452C	p.F484F	GCAATCAAACACT	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72828403	72828403	+	Silent	SNP	A	A	G	rs2229286	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	49	72	0	0.5	0	A|0.940;G|0.060	0.060	strong	ZFHX3,NS,NS,-2,1	ZFHX3	404	1	NM_006885	exon9	c.T8178C	p.L2726L	AGCCTCAAGAGCA	.	PASS	Atlas-SNP
SERPINB10	5273	hgsc.bcm.edu	37	18	61602360	61602360	+	Missense_Mutation	SNP	G	G	A	rs35453062	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	57	70	0	0.626374	0	G|0.938;A|0.062	0.062	strong	.	SERPINB10	53	.	NM_005024	exon7	c.G1078A	p.D360N	GAGATAGATATAC	.	PASS	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	37	8	53558307	53558307	+	Missense_Mutation	SNP	A	A	T	rs34701924	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	45	63	0	0.511364	0	A|0.993;T|0.007	0.007	strong	.	RB1CC1	163	.	NM_001083617	exon16	c.T3942A	p.N1314K	TTCTTCATTCTTT	.	PASS	Atlas-SNP
ERI1	90459	hgsc.bcm.edu	37	8	8869199	8869199	+	Silent	SNP	T	T	G	rs9650616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	33	65	0	0.611111	0	T|0.605;G|0.395	0.395	strong	.	ERI1	20	.	NM_153332	exon3	c.T435G	p.P145P	CCCACCTGAGTTT	.	PASS	Atlas-SNP
CCDC41	51134	hgsc.bcm.edu	37	12	94761875	94761875	+	Missense_Mutation	SNP	T	T	C	rs185058802	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	80	158	0	0.454545	0	T|0.999;C|0.001	0.001	strong	.	CCDC41	59	.	NM_016122	exon10	c.A1151G	p.K384R	TCTTCTTTGGCAG	.	PASS	Atlas-SNP
FLRT3	23767	hgsc.bcm.edu	37	20	14307564	14307564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	3	212	1	0.0120968	0.00471698	.	.	none	FLRT3,NS,carcinoma,0,2	FLRT3	67	2	NM_013281	exon2	c.G589A	p.G197S	TGAGACCTTGAAG	.	scavenged	Atlas-SNP
RHBDF2	79651	hgsc.bcm.edu	37	17	74475975	74475975	+	Missense_Mutation	SNP	C	C	A	rs3809694	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	50	69	0	1	0	C|0.600;A|0.400	0.400	strong	RHBDF2,colon,carcinoma,+1,1	RHBDF2	57	1	NM_024599	exon4	c.G199T	p.A67S	TGTGTGCAGCCCA	.	PASS	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	37	1	54060016	54060016	+	Missense_Mutation	SNP	G	G	C	rs35227000	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	18	21	0	0.642857	0	G|0.757;C|0.243	0.243	strong	.	GLIS1	52	.	NM_147193	exon3	c.C560G	p.A187G	CTGCCTGCCAGGC	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	37	19	619021	619021	+	Silent	SNP	G	G	C	rs14155	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	74	151	0	0.435294	0	G|0.442;C|0.558	0.558	strong	POLRMT,colon,carcinoma,0,2	POLRMT	91	2	NM_005035	exon15	c.C3243G	p.P1081P	GCGATAGGGCTGG	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42363395	42363395	+	Missense_Mutation	SNP	C	C	T	rs78165678	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	23	57	0	0.359375	0	C|0.922;T|0.078	0.078	strong	PLA2G4D,NS,carcinoma,-1,1	PLA2G4D	72	1	NM_178034	exon17	c.G1802A	p.R601H	GGGCTGCGCTGGT	.	PASS	Atlas-SNP
KIAA1549L	25758	hgsc.bcm.edu	37	11	33604960	33604960	+	Silent	SNP	C	C	T	rs2273115	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	18	29	0	0.9	0	C|0.781;T|0.218	0.218	strong	.	.	.	.	NM_012194	exon10	c.C3588T	p.I1196I	GGTCATCATCATC	.	PASS	Atlas-SNP
OR6Q1	219952	hgsc.bcm.edu	37	11	57799183	57799183	+	Silent	SNP	C	C	T	rs7123727	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	63	124	0	0.434483	0	C|0.778;T|0.222	0.222	strong	.	OR6Q1	58	.	NM_001005186	exon1	c.C759T	p.S253S	GGTGAGCCTCTTC	.	PASS	Atlas-SNP
B3GALNT1	8706	hgsc.bcm.edu	37	3	160804167	160804167	+	Missense_Mutation	SNP	C	C	T	rs2231257	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	27	47	0	0.341772	0	C|0.973;T|0.027	0.027	strong	.	B3GALNT1	34	.	NM_001038628	exon8	c.G376A	p.D126N	TTTTGTCTTCCTT	.	PASS	Atlas-SNP
CCSER2	54462	hgsc.bcm.edu	37	10	86131059	86131059	+	Missense_Mutation	SNP	A	A	G	rs3814205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	66	162	0	0.47482	0	A|0.798;G|0.202	0.202	strong	FAM190B,NS,carcinoma,+1,1	CCSER2	7	1	NM_018999	exon2	c.A251G	p.N84S	CTAACAATACTCA	.	PASS	Atlas-SNP
NOBOX	135935	hgsc.bcm.edu	37	7	144096068	144096068	+	Missense_Mutation	SNP	C	C	T	rs2525702	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	85	192	0	0.467033	0	C|0.876;T|0.124	0.124	strong	NOBOX_ENST00000467773,NS,carcinoma,0,2	NOBOX	130	2	NM_001080413	exon8	c.G1444A	p.G482S	AGGGGCCGTCCTT	.	PASS	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	37	1	158517142	158517142	+	Missense_Mutation	SNP	C	C	T	rs41273491	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	39	103	0	0.336207	0	C|0.799;T|0.201	0.201	strong	OR6Y1,rectum,carcinoma,0,2	OR6Y1	73	2	NM_001005189	exon1	c.G754A	p.V252I	TTACGACGGTCAG	.	PASS	Atlas-SNP
GABRR1	2569	hgsc.bcm.edu	37	6	89926966	89926966	+	Missense_Mutation	SNP	T	T	C	rs12200969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	67	168	0	0.496296	0	T|0.651;C|0.349	0.349	strong	.	GABRR1	63	.	NM_001256703	exon1	c.A76G	p.M26V	AGTGCATTCTGCT	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10223793	10223793	+	Silent	SNP	C	C	T	rs35783712	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	26	73	0	0.366197	0	C|0.970;T|0.030	0.030	strong	.	MYH13	533	.	NM_003802	exon25	c.G3132A	p.Q1044Q	CTTCTCCTGCTCT	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14776027	14776027	+	Silent	SNP	C	C	T	rs2131880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	45	106	0	0.494505	0	C|0.882;T|0.118	0.118	strong	.	FREM1	261	.	NM_144966	exon26	c.G4617A	p.A1539A	GTTCTCCGCAGGT	.	PASS	Atlas-SNP
MRPL39	54148	hgsc.bcm.edu	37	21	26965205	26965205	+	Silent	SNP	T	T	C	rs1057885	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	73	78	0	1	0	T|0.211;C|0.789	0.789	strong	.	MRPL39	61	.	NM_017446	exon8	c.A840G	p.V280V	TGCTGATACTTCA	.	PASS	Atlas-SNP
KIAA0368	23392	hgsc.bcm.edu	37	9	114190337	114190337	+	Silent	SNP	G	G	A	rs16916100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	51	84	0	0.5	0	G|0.910;A|0.090	0.090	strong	.	KIAA0368	144	.	NM_001080398	exon11	c.C1569T	p.F523F	GGCTGGGAACGTT	.	PASS	Atlas-SNP
LRRC23	10233	hgsc.bcm.edu	37	12	7022085	7022085	+	Missense_Mutation	SNP	T	T	A	rs1057077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	42	48	0	0.976744	0	T|0.598;A|0.402	0.402	strong	.	LRRC23	46	.	NM_001135217	exon7	c.T950A	p.V317E	CTGATGTGATTCG	.	PASS	Atlas-SNP
ARHGEF38	54848	hgsc.bcm.edu	37	4	106510470	106510470	+	Missense_Mutation	SNP	A	A	G	rs2276970	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	22	72	0	0.354839	0	A|0.908;G|0.092	0.092	strong	.	ARHGEF38	52	.	NM_001242729	exon2	c.A262G	p.M88V	CATCATATGAAGA	.	PASS	Atlas-SNP
PAK4	10298	hgsc.bcm.edu	37	19	39668381	39668381	+	Missense_Mutation	SNP	G	G	A	rs372098486		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	4	75	0	0.0408163	0	.	.	weak	.	PAK4	40	.	NM_001014832	exon8	c.G1552A	p.E518K	TTCAACGAGCCAC	.	PASS	Atlas-SNP
MICALCL	84953	hgsc.bcm.edu	37	11	12315848	12315848	+	Silent	SNP	C	C	T	rs1493952	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	20	36	0	0.487805	0	C|0.576;T|0.424	0.424	strong	.	MICALCL	59	.	NM_032867	exon3	c.C870T	p.G290G	TGAAGGCGGGAAG	.	PASS	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	37	22	44287062	44287062	+	Silent	SNP	A	A	G	rs2071884	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	65	138	1	0.485075	0.00724638	A|0.657;G|0.343	0.343	strong	PNPLA5,NS,carcinoma,0,3	PNPLA5	46	3	NM_138814	exon2	c.T306C	p.D102D	CAGAGCATCCTGC	.	scavenged	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112175770	112175770	+	Silent	SNP	G	G	A	rs41115	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	105	128	0	0.990566	0	G|0.379;N|0.000	.	strong	APC,NS,carcinoma,0,1	APC	4158	1	NM_001127510	exon17	c.G4479A	p.T1493T	TGCCACGGAAAGT	.	PASS	Atlas-SNP
OR51A7	119687	hgsc.bcm.edu	37	11	4928841	4928841	+	Missense_Mutation	SNP	T	T	C	rs7108225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	63	156	0	0.480916	0	T|0.918;C|0.082	0.082	strong	OR51A7,colon,carcinoma,0,4	OR51A7	86	4	NM_001004749	exon1	c.T242C	p.M81T	CTACCATGTTGAG	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76482435	76482435	+	Silent	SNP	C	C	T	rs61743860	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	56	100	0	0.509091	0	C|0.909;T|0.091	0.091	strong	.	DNAH17	347	.	NM_173628	exon45	c.G6972A	p.T2324T	CAGAATCGTTTGG	.	PASS	Atlas-SNP
TTC38	55020	hgsc.bcm.edu	37	22	46682976	46682976	+	Missense_Mutation	SNP	C	C	T	rs55653327	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	21	19	0	0.617647	0	C|0.941;T|0.059	0.059	strong	.	TTC38	40	.	NM_017931	exon10	c.C841T	p.P281S	ATCCTTCCCAGCC	.	PASS	Atlas-SNP
OR5AP2	338675	hgsc.bcm.edu	37	11	56409603	56409603	+	Missense_Mutation	SNP	C	C	T	rs11606499	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	18	49	0	0.473684	0	C|0.834;T|0.166	0.166	strong	.	OR5AP2	69	.	NM_001002925	exon1	c.G313A	p.A105T	ACTGGGCAGCACA	.	PASS	Atlas-SNP
ATP2B2	491	hgsc.bcm.edu	37	3	10413601	10413601	+	Silent	SNP	G	G	A	rs2289273	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	345	205	255	0	0.594203	0	G|0.884;A|0.116	0.116	strong	ATP2B2,NS,carcinoma,0,1	ATP2B2	304	1	NM_001001331	exon12	c.C1551T	p.G517G	GACGTCGCCGACA	.	PASS	Atlas-SNP
COL22A1	169044	hgsc.bcm.edu	37	8	139609156	139609156	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	20	113	0	0.217391	0	.	.	none	COL22A1,NS,carcinoma,0,1	COL22A1	390	1	NM_152888	exon62	c.C4423T	p.Q1475X	CAAGCTGCTTCCC	.	PASS	Atlas-SNP
CLK2	1196	hgsc.bcm.edu	37	1	155239302	155239302	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	20	34	0	0.344828	0	.	.	none	.	CLK2	55	.	NM_003993	exon3	c.C376T	p.R126W	ATGTCCGGCTGCG	.	PASS	Atlas-SNP
ZFP91	80829	hgsc.bcm.edu	37	11	58378424	58378424	+	Missense_Mutation	SNP	A	A	G	rs8373	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	12	14	0	0.5	0	A|0.780;G|0.220	0.220	strong	.	ZFP91	66	.	NM_053023	exon5	c.A619G	p.S207G	TTTAGTAGTGAAG	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46652959	46652959	+	Silent	SNP	A	A	G	rs4508712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	29	53	0	0.439394	0	A|0.593;G|0.407;T|0.000	0.407	strong	.	PKDREJ	195	.	NM_006071	exon1	c.T6261C	p.P2087P	GATGCCAGGGAGG	.	PASS	Atlas-SNP
RASAL3	64926	hgsc.bcm.edu	37	19	15574858	15574858	+	Silent	SNP	C	C	T	rs78677793	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	25	29	0	1	0	C|0.894;T|0.106	0.106	strong	.	RASAL3	49	.	NM_022904	exon2	c.G312A	p.P104P	CTGCTCCGGCTCC	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133541107	133541107	+	Missense_Mutation	SNP	T	T	A	rs16841277	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	210	98	213	0	0.466667	0	T|0.780;A|0.220	0.220	strong	.	NCKAP5	322	.	NM_207363	exon14	c.A3277T	p.N1093Y	TATCATTCAATTG	.	PASS	Atlas-SNP
DISP1	84976	hgsc.bcm.edu	37	1	223177574	223177574	+	Silent	SNP	A	A	G	rs2609355	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	129	134	0	1	0	A|0.752;G|0.248	0.248	strong	.	DISP1	145	.	NM_032890	exon10	c.A2835G	p.K945K	TTATAAAGAGGTG	.	PASS	Atlas-SNP
GRIK1	2897	hgsc.bcm.edu	37	21	30971183	30971183	+	Silent	SNP	G	G	A	rs363430	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	12	51	0	0.27907	0	G|0.820;A|0.180	0.180	strong	GRIK1,NS,carcinoma,0,1	GRIK1	293	1	NM_175611	exon8	c.C1173T	p.D391D	AATAATGTCCAGA	.	PASS	Atlas-SNP
PTCD3	55037	hgsc.bcm.edu	37	2	86352925	86352925	+	Silent	SNP	A	A	G	rs139474497	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	38	113	0	0.44186	0	A|0.991;G|0.009	0.009	strong	.	PTCD3	51	.	NM_017952	exon12	c.A873G	p.V291V	TGATGTATACACA	.	PASS	Atlas-SNP
LRRFIP2	9209	hgsc.bcm.edu	37	3	37107770	37107770	+	Missense_Mutation	SNP	C	C	T	rs371325582		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	3	154	0	0.0136986	0	.	.	weak	LRRFIP2,colon,carcinoma,-1,1	LRRFIP2	71	1	NM_006309	exon23	c.G1511A	p.R504Q	ATATCTCGCTCAT	.	scavenged	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	37	14	68219200	68219200	+	Missense_Mutation	SNP	C	C	T	rs34373049	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	54	110	0	0.446281	0	C|0.973;T|0.027	0.027	strong	.	ZFYVE26	223	.	NM_015346	exon40	c.G7232A	p.R2411H	AACTGGCGGGCAG	.	PASS	Atlas-SNP
EMILIN2	84034	hgsc.bcm.edu	37	18	2891847	2891847	+	Silent	SNP	C	C	T	rs3826638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	32	53	0	0.4	0	C|0.860;T|0.140	0.140	strong	.	EMILIN2	97	.	NM_032048	exon4	c.C1722T	p.R574R	AGACCGCGCAGTA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506750	195506750	+	Missense_Mutation	SNP	G	G	C	rs62282471	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	26	74	0	0.83871	0	G|0.967;C|0.033	0.033	strong	.	MUC4	1505	.	NM_018406	exon2	c.C11701G	p.H3901D	TGGCGTGACGTGT	.	PASS	Atlas-SNP
TELO2	9894	hgsc.bcm.edu	37	16	1555589	1555589	+	Missense_Mutation	SNP	A	A	G	rs2248128	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	27	67	0	0.397059	0	A|0.561;G|0.439	0.439	strong	.	TELO2	44	.	NM_016111	exon16	c.A2021G	p.Q674R	AGACCCAGCGGCT	.	PASS	Atlas-SNP
ZFYVE1	53349	hgsc.bcm.edu	37	14	73440864	73440864	+	Silent	SNP	C	C	T	rs12931	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	42	77	0	0.636364	0	C|0.501;T|0.499	0.499	strong	.	ZFYVE1	67	.	NM_021260	exon11	c.G2025A	p.T675T	AATGAGCGTTCCA	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	334337	334337	+	Missense_Mutation	SNP	A	A	G	rs10970979	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	110	126	1	1	0.00793651	A|0.758;G|0.242	0.242	strong	.	DOCK8	401	.	NM_203447	exon11	c.A1238G	p.N413S	TCTTCAATGTCTC	.	PASS	Atlas-SNP
KIR2DL3	3804	hgsc.bcm.edu	37	19	55263898	55263898	+	Missense_Mutation	SNP	G	G	A	rs78177475		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	215	149	66	0	0.693023	0	.	.	weak	KIR2DL3,NS,carcinoma,0,2	KIR2DL3	68	2	NM_015868	exon8	c.G953A	p.R318H	TCACTCGCCCTTC	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133760029	133760029	+	Silent	SNP	C	C	G	rs2229070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	14	21	0	0.518519	0	C|0.885;G|0.115	0.115	strong	.	ABL1	1632	.	NM_007313	exon11	c.C2409G	p.P803P	TCCCCCCAGGCTG	.	PASS	Atlas-SNP
LYST	1130	hgsc.bcm.edu	37	1	235955276	235955276	+	Silent	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	42	85	0	0.494118	0	.	.	none	.	LYST	370	.	NM_000081	exon12	c.C4266A	p.A1422A	ACCCATGGCCTTA	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41246481	41246481	+	Missense_Mutation	SNP	T	T	C	rs1799950	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	64	107	0	0.484848	0	T|0.960;C|0.040	0.040	strong	.	BRCA1	304	.	NM_007300	exon10	c.A1067G	p.Q356R	AGTTTCTGCTTAT	.	PASS	Atlas-SNP
TNFRSF10B	8795	hgsc.bcm.edu	37	8	22926313	22926313	+	Missense_Mutation	SNP	G	G	A	rs1129424	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	24	13	0	1	0	G|0.295;A|0.705	0.705	strong	.	TNFRSF10B	34	.	NM_147187	exon1	c.C95T	p.P32L	ACCCGGGGCCCAG	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	717544	717544	+	Silent	SNP	G	G	C	rs3752492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	14	45	0	0.28	0	G|0.777;C|0.223;A|0.001	0.223	strong	.	WDR90	107	.	NM_145294	exon41	c.G5202C	p.T1734T	CTTCACGGCCGCC	.	PASS	Atlas-SNP
ABHD12B	145447	hgsc.bcm.edu	37	14	51370849	51370849	+	Missense_Mutation	SNP	T	T	C	rs7154732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	192	199	1	1	0.00502513	T|0.944;C|0.056	0.056	strong	.	ABHD12B	53	.	NM_001206673	exon12	c.T1000C	p.F334L	GTTATCTTTCCTC	.	PASS	Atlas-SNP
MDH2	4191	hgsc.bcm.edu	37	7	75687382	75687382	+	Missense_Mutation	SNP	G	G	A	rs111879470	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	20	31	0	0.377358	0	G|0.998;A|0.002	0.002	strong	.	MDH2	35	.	NM_005918	exon4	c.G415A	p.V139I	ATCTGCGTCATTG	.	PASS	Atlas-SNP
EFCC1	79825	hgsc.bcm.edu	37	3	128755953	128755953	+	Missense_Mutation	SNP	G	G	A	rs3732430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	14	33	0	0.4375	0	G|0.653;A|0.347	0.347	strong	.	.	.	.	NM_024768	exon6	c.G1583A	p.R528Q	GGCTCCGGGACCT	.	PASS	Atlas-SNP
C20orf96	140680	hgsc.bcm.edu	37	20	259818	259818	+	Silent	SNP	G	G	A	rs6035541	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	24	24	0	0.585366	0	G|0.679;A|0.321	0.321	strong	C20orf96,NS,carcinoma,0,1	C20orf96	28	1	NM_153269	exon5	c.C460T	p.L154L	CCGCCAGGGTGTC	.	PASS	Atlas-SNP
SH2D4A	63898	hgsc.bcm.edu	37	8	19218745	19218745	+	Missense_Mutation	SNP	A	A	G	rs35647122	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	37	84	0	0.486842	0	A|0.963;G|0.037	0.037	strong	.	SH2D4A	49	.	NM_022071	exon6	c.A626G	p.E209G	AAGATGAAGAAAT	.	PASS	Atlas-SNP
LRRC16A	55604	hgsc.bcm.edu	37	6	25420350	25420350	+	Silent	SNP	A	A	C	rs41271807	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	87	127	0	0.55414	0	A|0.861;C|0.139	0.139	strong	.	LRRC16A	168	.	NM_001173977	exon3	c.A147C	p.T49T	CCTTACATCATGC	.	PASS	Atlas-SNP
ETV6	2120	hgsc.bcm.edu	37	12	11992168	11992168	+	Silent	SNP	G	G	A	rs11611479	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	92	148	0	0.554217	0	G|0.850;A|0.150	0.150	strong	.	ETV6	91	.	NM_001987	exon3	c.G258A	p.T86T	CAACACGTTTGAA	.	PASS	Atlas-SNP
HBQ1	3049	hgsc.bcm.edu	37	16	230578	230578	+	Silent	SNP	A	A	G	rs11863726	bycluster;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	8	8	0	0.533333	0	A|0.830;G|0.170	0.170	strong	.	HBQ1	4	.	NM_005331	exon1	c.A93G	p.E31E	CCTGGAAAGGTGC	.	PASS	Atlas-SNP
PHF11	51131	hgsc.bcm.edu	37	13	50080847	50080847	+	Silent	SNP	A	A	G	rs2031532	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	57	56	0	1	0	A|0.238;G|0.762	0.762	strong	.	PHF11	20	.	NM_001040443	exon2	c.A171G	p.L57L	TGTCCTATACTTT	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549525	32549525	+	Missense_Mutation	SNP	C	C	G	rs16822698	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	233	34	201	0	0.145923	0	C|0.932;G|0.068	0.068	strong	.	HLA-DRB1	41	.	NM_002124	exon3	c.G461C	p.G154A	ATGCTGCCTGGAT	.	PASS	Atlas-SNP
NIT1	4817	hgsc.bcm.edu	37	1	161088583	161088583	+	Missense_Mutation	SNP	T	T	G	rs41270017	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	22	42	0	0.4	0	T|0.917;G|0.083	0.083	strong	.	NIT1	41	.	NM_001185092	exon2	c.T10G	p.F4V	CTGGGCTTCATCA	.	PASS	Atlas-SNP
SGSM2	9905	hgsc.bcm.edu	37	17	2266799	2266799	+	Missense_Mutation	SNP	G	G	A	rs745400	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	88	99	0	0.977778	0	G|0.501;A|0.499	0.499	strong	.	SGSM2	60	.	NM_001098509	exon7	c.G713A	p.R238K	AGGACAGGCTGGC	.	PASS	Atlas-SNP
IL34	146433	hgsc.bcm.edu	37	16	70693991	70693991	+	Silent	SNP	C	C	T	rs138439611		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	189	65	153	0	0.343915	0	C|1.000;T|0.000	0.000	weak	.	IL34	26	.	NM_152456	exon7	c.C630T	p.T210T	GGCCACCCAGCTG	.	PASS	Atlas-SNP
TAF4	6874	hgsc.bcm.edu	37	20	60572663	60572663	+	Silent	SNP	C	C	A	rs2296081	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	43	88	1	0.505882	0.0113636	A|0.613;C|0.387;T|0.000	0.613	strong	TAF4,caecum,carcinoma,0,1	TAF4	84	1	NM_003185	exon14	c.G3033T	p.A1011A	CCCGATCGCTGCT	.	scavenged	Atlas-SNP
CDHR2	54825	hgsc.bcm.edu	37	5	176004680	176004680	+	Missense_Mutation	SNP	A	A	C	rs34767982	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	33	44	0	0.492537	0	A|0.979;C|0.021	0.021	strong	.	CDHR2	152	.	NM_017675	exon14	c.A1393C	p.M465L	GTCGCCATGGTGA	.	PASS	Atlas-SNP
NID1	4811	hgsc.bcm.edu	37	1	236141174	236141174	+	Missense_Mutation	SNP	T	T	C	rs3213190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	57	124	0	0.44186	0	T|0.706;C|0.293	0.293	strong	.	NID1	196	.	NM_002508	exon20	c.A3737G	p.Q1246R	CATTTCTGTTCGA	.	PASS	Atlas-SNP
CHFR	55743	hgsc.bcm.edu	37	12	133423695	133423695	+	Silent	SNP	A	A	G	rs2306537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	27	39	0	0.529412	0	A|0.803;G|0.197	0.197	strong	.	CHFR	83	.	NM_001161344	exon15	c.T1705C	p.L569L	ATGTCAAACCTCT	.	PASS	Atlas-SNP
MTR	4548	hgsc.bcm.edu	37	1	237054569	237054569	+	Silent	SNP	A	A	G	rs2229276	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	89	98	0	0.988889	0	A|0.658;G|0.342	0.342	strong	.	MTR	127	.	NM_000254	exon29	c.A3144G	p.A1048A	GTACGCAGAGGCT	.	PASS	Atlas-SNP
TXLNB	167838	hgsc.bcm.edu	37	6	139564101	139564101	+	Silent	SNP	C	C	T	rs12529180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	45	66	0	0.494505	0	C|0.908;T|0.092	0.092	strong	.	TXLNB	96	.	NM_153235	exon10	c.G1617A	p.K539K	TGGCTCCTTGAGA	.	PASS	Atlas-SNP
C1orf65	164127	hgsc.bcm.edu	37	1	223567803	223567803	+	Missense_Mutation	SNP	G	G	A	rs10907376	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	50	94	0	0.515464	0	G|0.814;A|0.186	0.186	strong	C1orf65,NS,carcinoma,0,4	C1orf65	71	4	NM_152610	exon1	c.G986A	p.G329D	AGCGCGGCCTGCG	.	PASS	Atlas-SNP
GLRX3	10539	hgsc.bcm.edu	37	10	131959150	131959150	+	Missense_Mutation	SNP	C	C	T	rs2274217	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	55	0	0.454545	0	C|0.799;T|0.201	0.201	strong	TXNL2,colon,carcinoma,0,2	GLRX3	39	2	NM_006541	exon4	c.C367T	p.P123S	TTCCTACCCAGCG	.	PASS	Atlas-SNP
TMEM240	339453	hgsc.bcm.edu	37	1	1471126	1471126	+	Silent	SNP	G	G	A	rs114114317	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	30	85	0	0.384615	0	G|0.994;A|0.006	0.006	strong	.	TMEM240	8	.	NM_001114748	exon3	c.C216T	p.D72D	GGAGGCGTCCACC	.	PASS	Atlas-SNP
FBXL19	54620	hgsc.bcm.edu	37	16	30936081	30936081	+	Missense_Mutation	SNP	G	G	A	rs35675346	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	36	0	0.5	0	G|0.772;A|0.228	0.228	strong	.	FBXL19	74	.	NM_001099784	exon1	c.G28A	p.E10K	AAGGGGGAATCTG	.	PASS	Atlas-SNP
SLC4A11	83959	hgsc.bcm.edu	37	20	3211235	3211235	+	Silent	SNP	C	C	T	rs6084312	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	32	64	0	0.561404	0	C|0.926;T|0.074	0.074	strong	.	SLC4A11	188	.	NM_001174090	exon12	c.G1470A	p.T490T	CAGGCCCGTCCAT	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156518379	156518379	+	Missense_Mutation	SNP	G	G	A	rs744224	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	59	101	0	0.475806	0	G|0.683;A|0.317	0.317	strong	IQGAP3,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	IQGAP3	146	1	NM_178229	exon17	c.C1987T	p.R663C	CTGGACGCTGTTT	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204587047	204587047	+	Missense_Mutation	SNP	G	G	A	rs11588857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	44	97	0	0.349206	0	G|0.827;A|0.173	0.173	strong	.	LRRN2	81	.	NM_006338	exon3	c.C2074T	p.P692S	TCCCTGGATTCCA	.	PASS	Atlas-SNP
OR52E8	390079	hgsc.bcm.edu	37	11	5878458	5878458	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	8	115	1	0.0588235	0.00869565	.	.	none	OR52E8,NS,carcinoma,0,1	OR52E8	54	1	NM_001005168	exon1	c.C475T	p.L159L	TGTACAGGCTCCT	.	scavenged	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	37	5	33535060	33535060	+	Missense_Mutation	SNP	G	G	A	rs25754	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	17	39	0	0.472222	0	G|0.483;A|0.516	0.516	strong	.	ADAMTS12	464	.	NM_030955	exon23	c.C4484T	p.T1495I	TGGACAGTCCTCT	.	PASS	Atlas-SNP
RNF32	140545	hgsc.bcm.edu	37	7	156468559	156468559	+	Splice_Site	SNP	T	T	C	rs3823617	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	13	28	0	0.393939	0	T|0.934;C|0.066	0.066	strong	.	RNF32	77	.	NM_030936	exon8	c.852+2T>C	.	TGCAGGTAGGTTT	.	PASS	Atlas-SNP
RUVBL2	10856	hgsc.bcm.edu	37	19	49513273	49513273	+	Silent	SNP	C	C	T	rs1062708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	43	84	0	0.573333	0	C|0.579;T|0.421	0.421	strong	.	RUVBL2	31	.	NM_006666	exon8	c.C613T	p.L205L	TCCAAGCTGGGCC	.	PASS	Atlas-SNP
RNF157	114804	hgsc.bcm.edu	37	17	74152366	74152366	+	Silent	SNP	A	A	G	rs881502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	41	87	0	0.44086	0	A|0.685;G|0.315	0.315	strong	RNF157,NS,carcinoma,0,1	RNF157	66	1	NM_052916	exon14	c.T1450C	p.L484L	ACGACAAGGTGAG	.	PASS	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39619093	39619093	+	Silent	SNP	G	G	A	rs70964671	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	72	0	0.5	0	AC|1.000;|0.000	.	alt	.	KRT32	57	.	NM_002278	exon6	c.C1206T	p.N402N	GTCCTCGTTCTCC	.	PASS	Atlas-SNP
TAS2R50	259296	hgsc.bcm.edu	37	12	11138683	11138683	+	Silent	SNP	C	C	T	rs10772397	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	114	114	0	0.991304	0	C|0.483;T|0.517	0.517	strong	.	TAS2R50	37	.	NM_176890	exon1	c.G777A	p.P259P	GACAACCGGGTCA	.	PASS	Atlas-SNP
EIF2AK3	9451	hgsc.bcm.edu	37	2	88913273	88913273	+	Missense_Mutation	SNP	G	G	C	rs867529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	20	40	0	0.555556	0	G|0.764;C|0.236	0.236	strong	.	EIF2AK3	160	.	NM_004836	exon2	c.C407G	p.S136C	ACCAAGGAACCGG	.	PASS	Atlas-SNP
UMOD	7369	hgsc.bcm.edu	37	16	20359831	20359831	+	Silent	SNP	C	C	T	rs13335818	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	7	22	0	0.411765	0	C|0.866;T|0.134	0.134	strong	.	UMOD	128	.	NM_003361	exon3	c.G792A	p.V264V	GGCCTTCACCTGG	.	PASS	Atlas-SNP
SCN3A	6328	hgsc.bcm.edu	37	2	165996107	165996107	+	Silent	SNP	T	T	A	rs1946892	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	40	86	0	0.449438	0	A|0.544;N|0.000	0.544	strong	.	SCN3A	544	.	NM_006922	exon14	c.A2031T	p.T677T	CGTTTCTGTGGTG	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26455090	26455090	+	Missense_Mutation	SNP	G	G	A	rs34918608	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	18	45	0	0.514286	0	G|0.994;A|0.006	0.006	strong	MYO3A,NS,carcinoma,-1,1	MYO3A	371	1	NM_017433	exon27	c.G3094A	p.A1032T	AACTGGGCTCTTG	.	PASS	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	37	1	54060248	54060248	+	Missense_Mutation	SNP	T	T	C	rs4307514	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	53	81	1	0.464912	0.0123457	T|0.751;C|0.249	0.249	strong	GLIS1,NS,carcinoma,0,1	GLIS1	52	1	NM_147193	exon3	c.A328G	p.T110A	CTCCCGTCAGAGG	.	scavenged	Atlas-SNP
ATP7B	540	hgsc.bcm.edu	37	13	52520471	52520471	+	Silent	SNP	C	C	T	rs1801247	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	44	61	0	0.53012	0	C|0.974;T|0.026	0.026	strong	ATP7B,NS,carcinoma,0,1	ATP7B	123	1	NM_000053	exon13	c.G3009A	p.A1003A	GTTCTGCGCGGCC	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17086941	17086941	+	Missense_Mutation	SNP	C	C	T	rs28462251	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	13	177	0	0.0714286	0	C|0.946;T|0.054	0.054	strong	Q13209_HUMAN,NS,carcinoma,0,2	.	.	2	NM_001271733	exon4	c.G383A	p.R128H	GGGTTACGGCAGA	.	scavenged	Atlas-SNP
RC3H1	149041	hgsc.bcm.edu	37	1	173915909	173915909	+	Missense_Mutation	SNP	G	G	C	rs61741479	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	54	94	0	0.439024	0	G|0.958;C|0.042	0.042	strong	.	RC3H1	110	.	NM_172071	exon15	c.C2803G	p.P935A	GAGAAGGTATGTT	.	PASS	Atlas-SNP
HMGCR	3156	hgsc.bcm.edu	37	5	74652199	74652199	+	Missense_Mutation	SNP	A	A	G	rs5908	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	97	161	0	0.530055	0	A|0.990;G|0.010	0.010	strong	.	HMGCR	53	.	NM_000859	exon15	c.A1912G	p.I638V	ACAAGTATAGCTG	.	PASS	Atlas-SNP
HHATL	57467	hgsc.bcm.edu	37	3	42735150	42735150	+	Missense_Mutation	SNP	T	T	C	rs11079	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	62	78	0	0.596154	0	T|0.381;C|0.619	0.619	strong	.	HHATL	49	.	NM_020707	exon10	c.A1207G	p.M403V	TTTGCATCCAGAG	.	PASS	Atlas-SNP
OR2B3	442184	hgsc.bcm.edu	37	6	29054923	29054923	+	Missense_Mutation	SNP	A	A	G	rs149723131	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	25	85	0	0.462963	0	A|0.993;G|0.007	0.007	strong	OR2B3,NS,carcinoma,+2,1	OR2B3	44	1	NM_001005226	exon1	c.T103C	p.Y35H	TTGTGTATGATAT	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	66005888	66005888	+	Missense_Mutation	SNP	C	C	T	rs9342464	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	41	83	0	0.518987	0	C|0.404;T|0.596	0.596	strong	.	EYS	527	.	NM_001142800	exon12	c.G1891A	p.G631S	GCAGACCGCTACA	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	37	6	170878793	170878793	+	Silent	SNP	T	T	C	rs1042327	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	47	100	0	0.412281	0	T|0.400;C|0.600	0.600	strong	.	TBP	58	.	NM_003194	exon6	c.T771C	p.N257N	TCAGAATATGGTG	.	PASS	Atlas-SNP
PLCL1	5334	hgsc.bcm.edu	37	2	198950029	198950029	+	Silent	SNP	A	A	G	rs2228135	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	51	88	0	0.495146	0	A|0.767;G|0.233	0.233	strong	.	PLCL1	358	.	NM_006226	exon2	c.A1788G	p.Q596Q	TGTTCAATACAGG	.	PASS	Atlas-SNP
TBX10	347853	hgsc.bcm.edu	37	11	67399173	67399173	+	Missense_Mutation	SNP	C	C	T	rs146672518	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	26	43	0	0.565217	0	C|0.994;T|0.006	0.006	strong	.	TBX10	25	.	NM_005995	exon8	c.G1061A	p.R354Q	TCAGCCCGGATGT	.	PASS	Atlas-SNP
ADRB2	154	hgsc.bcm.edu	37	5	148207633	148207633	+	Silent	SNP	G	G	A	rs1042720	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	106	84	0	1	0	A|0.411;G|0.589	0.411	strong	.	ADRB2	42	.	NM_000024	exon1	c.G1239A	p.L413L	ACTGCTGTAAAGC	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147499670	147499670	+	Silent	SNP	C	C	T	rs33920397	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	88	98	1	0.988764	0.0102041	C|0.461;T|0.539	0.539	strong	SPINK5,NS,carcinoma,0,1	SPINK5	245	1	NM_001127699	exon25	c.C2412T	p.G804G	ACATGGCAATAAG	.	scavenged	Atlas-SNP
PSME4	23198	hgsc.bcm.edu	37	2	54150237	54150237	+	Silent	SNP	A	A	G	rs3213775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	70	147	0	0.457516	0	A|0.911;G|0.089	0.089	strong	.	PSME4	247	.	NM_014614	exon16	c.T1927C	p.L643L	GCTTCAAAGATTC	.	PASS	Atlas-SNP
EDDM3A	10876	hgsc.bcm.edu	37	14	21215997	21215997	+	Silent	SNP	C	C	T	rs11847654	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	47	83	0	0.51087	0	C|0.754;T|0.246	0.246	strong	.	EDDM3A	15	.	NM_006683	exon2	c.C258T	p.S86S	GGGGAGCGACCGA	.	PASS	Atlas-SNP
CIITA	4261	hgsc.bcm.edu	37	16	11001743	11001743	+	Silent	SNP	G	G	A	rs2229320	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	24	23	0	0.489796	0	G|0.820;A|0.180	0.180	strong	.	CIITA	92	.	NM_000246	exon11	c.G2394A	p.P798P	GCAGCCGGGGACA	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201038687	201038687	+	Silent	SNP	A	A	G	rs7415038	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	146	138	0	1	0	A|0.620;G|0.380	0.380	strong	.	CACNA1S	249	.	NM_000069	exon18	c.T2403C	p.F801F	GTTGGTAAACCAG	.	PASS	Atlas-SNP
HLA-DQA2	3118	hgsc.bcm.edu	37	6	32713602	32713602	+	Silent	SNP	T	T	C	rs142901825	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	256	30	199	0	0.117188	0	T|0.983;C|0.017	0.017	strong	HLA-DQA2,NS,carcinoma,+1,1	HLA-DQA2	27	1	NM_020056	exon3	c.T366C	p.P122P	GTTTCCTGTGACG	.	PASS	Atlas-SNP
GLB1L2	89944	hgsc.bcm.edu	37	11	134244123	134244123	+	Silent	SNP	C	C	G	rs3741097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	34	126	0	0.414634	0	C|0.793;G|0.207	0.207	strong	.	GLB1L2	79	.	NM_138342	exon17	c.C1680G	p.T560T	CTCCACCCCTTGT	.	PASS	Atlas-SNP
OR9G4	283189	hgsc.bcm.edu	37	11	56510623	56510623	+	Missense_Mutation	SNP	A	A	G	rs513873	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	64	83	0	1	0	A|0.748;G|0.252	0.252	strong	.	OR9G4	73	.	NM_001005284	exon1	c.T665C	p.V222A	GAGAGTACTGTGA	.	PASS	Atlas-SNP
DOPEY2	9980	hgsc.bcm.edu	37	21	37609571	37609571	+	Silent	SNP	T	T	C	rs2835322	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	30	60	2	0.447761	0.0333333	C|0.464;N|0.001	0.464	strong	DOPEY2,right_upper_lobe,carcinoma,+1,1	DOPEY2	184	1	NM_005128	exon16	c.T2634C	p.R878R	GGCTCGTGTGCTT	.	scavenged	Atlas-SNP
ADAMTS5	11096	hgsc.bcm.edu	37	21	28305212	28305212	+	Missense_Mutation	SNP	C	C	T	rs2830585	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	38	82	1	0.487179	0.0121951	C|0.872;T|0.128	0.128	strong	ADAMTS5,colon,carcinoma,-1,6	ADAMTS5	184	6	NM_007038	exon5	c.G1841A	p.R614H	CAGGAGCGGTAGA	.	scavenged	Atlas-SNP
PTPN7	5778	hgsc.bcm.edu	37	1	202129826	202129826	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	110	110	0	0.990991	0	.	.	none	.	PTPN7	31	.	NM_002832	exon1	c.A110G	p.Q37R	CCCTCCTGTGCCT	.	PASS	Atlas-SNP
PLEKHO2	80301	hgsc.bcm.edu	37	15	65157652	65157652	+	Missense_Mutation	SNP	G	G	A	rs76490900	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	16	28	0	0.5	0	G|0.989;A|0.011	0.011	strong	.	PLEKHO2	50	.	NM_025201	exon6	c.G1038A	p.M346I	TGGCATGGATGAC	.	PASS	Atlas-SNP
TACSTD2	4070	hgsc.bcm.edu	37	1	59042311	59042311	+	Missense_Mutation	SNP	T	T	G	rs35075952	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	40	50	0	1	0	T|0.894;G|0.106	0.106	strong	.	TACSTD2	6	.	NM_002353	exon1	c.A518C	p.D173A	TCGGCGTCCAGGT	.	PASS	Atlas-SNP
PTPMT1	114971	hgsc.bcm.edu	37	11	47587452	47587452	+	Missense_Mutation	SNP	C	C	T	rs11537751	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	32	62	0	0.421053	0	C|0.963;T|0.037	0.037	strong	.	PTPMT1	17	.	NM_001143984	exon1	c.C278T	p.S93L	TTGCCTCGGCAGC	.	PASS	Atlas-SNP
TATDN2	9797	hgsc.bcm.edu	37	3	10311939	10311939	+	Missense_Mutation	SNP	C	C	T	rs2075352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	65	82	0	0.643564	0	C|0.833;N|0.000	.	strong	.	TATDN2	59	.	NM_014760	exon4	c.C1073T	p.P358L	CCGTTCCGGAGCC	.	PASS	Atlas-SNP
PWP2	5822	hgsc.bcm.edu	37	21	45544594	45544594	+	Silent	SNP	T	T	C	rs2187313	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	43	87	0	0.52439	0	A|0.002;C|0.758	0.758	strong	.	PWP2	64	.	NM_005049	exon15	c.T1951C	p.L651L	CTGTCTTTGGACG	.	PASS	Atlas-SNP
EIF5B	9669	hgsc.bcm.edu	37	2	99995517	99995517	+	Silent	SNP	C	C	T	rs11896520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	43	86	0	0.530864	0	C|0.813;T|0.187	0.187	strong	EIF5B,caecum,carcinoma,0,1	EIF5B	95	1	NM_015904	exon11	c.C1878T	p.T626T	AAACACCGAAAAG	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43531553	43531553	+	Missense_Mutation	SNP	A	A	C	rs220128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	56	0	1	0	A|0.568;C|0.432	0.432	strong	.	UMODL1	186	.	NM_173568	exon11	c.A2221C	p.T741P	AAGGCTACTGGGT	.	PASS	Atlas-SNP
METRNL	284207	hgsc.bcm.edu	37	17	81043039	81043039	+	Silent	SNP	A	A	G	rs9908756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	137	132	0	1	0	A|0.262;G|0.738	0.738	strong	METRNL,NS,carcinoma,0,1	METRNL	29	1	NM_001004431	exon2	c.A396G	p.P132P	GGTACCAGACGGG	.	PASS	Atlas-SNP
MKNK2	2872	hgsc.bcm.edu	37	19	2050823	2050823	+	Missense_Mutation	SNP	G	G	T	rs3746101	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	8	24	0	0.4	0	G|0.911;T|0.089	0.089	strong	MKNK2_ENST00000250896,NS,carcinoma,0,2	MKNK2	56	2	NM_017572	exon2	c.C28A	p.Q10K	AACCCTGAAGTTC	.	PASS	Atlas-SNP
KIAA1462	57608	hgsc.bcm.edu	37	10	30317949	30317949	+	Silent	SNP	C	C	T	rs2478835	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	54	45	0	0.981818	0	C|0.705;N|0.000	.	strong	.	KIAA1462	162	.	NM_020848	exon3	c.G1128A	p.P376P	CTCGGTCGGAGAC	.	PASS	Atlas-SNP
ADAMTS16	170690	hgsc.bcm.edu	37	5	5146377	5146377	+	Missense_Mutation	SNP	T	T	C	rs1019747	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	29	60	0	0.537037	0	T|0.532;C|0.468	0.468	strong	.	ADAMTS16	543	.	NM_139056	exon3	c.T310C	p.S104P	AAAGGCTCCAGGC	.	PASS	Atlas-SNP
PSG8	440533	hgsc.bcm.edu	37	19	43268388	43268388	+	Missense_Mutation	SNP	G	G	A	rs142689447	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	50	135	0	0.47619	0	G|1.000;A|0.000	0.000	strong	.	PSG8	101	.	NM_001130167	exon2	c.C110T	p.T37M	TCAATCGTGACTT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179571448	179571448	+	Missense_Mutation	SNP	A	A	G	rs4893852	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	31	93	0	0.397436	0	A|0.910;G|0.090	0.090	strong	.	TTN	18412	.	NM_001267550	exon102	c.T29153C	p.I9718T	TTTGCAATGAAGG	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95236459	95236459	+	Missense_Mutation	SNP	C	C	T	rs3815768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	52	126	0	0.433333	0	C|0.695;T|0.305	0.305	strong	.	ELL2	63	.	NM_012081	exon7	c.G892A	p.A298T	TGCCTGCAGCATT	.	PASS	Atlas-SNP
PKD2	5311	hgsc.bcm.edu	37	4	88996673	88996673	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	20	88	0	0.215054	0	.	.	none	.	PKD2	82	.	NM_000297	exon15	c.G2734A	p.E912K	CGTGAAGAGTTGG	.	PASS	Atlas-SNP
WDR4	10785	hgsc.bcm.edu	37	21	44283574	44283574	+	Silent	SNP	C	C	T	rs11911090	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	63	138	0	0.463235	0	C|0.895;T|0.105	0.105	strong	.	WDR4	35	.	NM_018669	exon4	c.G429A	p.G143G	CAGGTGCCCCAGC	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134351770	134351770	+	Silent	SNP	G	G	A	rs78591540	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	22	52	0	0.431373	0	A|0.104;C|0.000;G|0.895	0.104	strong	.	PRRC2B	266	.	NM_013318	exon15	c.G4254A	p.K1418K	GGCCAAGAGGAGC	.	PASS	Atlas-SNP
ARHGAP33	115703	hgsc.bcm.edu	37	19	36268771	36268771	+	Silent	SNP	C	C	T	rs231228	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	38	66	0	0.542857	0	C|0.743;T|0.257	0.257	strong	ARHGAP33,NS,carcinoma,+2,1	ARHGAP33	102	1	NM_052948	exon3	c.C150T	p.A50A	CTGCGCCCATTTC	.	PASS	Atlas-SNP
XBP1	7494	hgsc.bcm.edu	37	22	29196306	29196306	+	Silent	SNP	G	G	A	rs2228260	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	37	22	0	0.5	0	G|0.952;A|0.048	0.048	strong	.	XBP1	37	.	NM_001079539	exon1	c.C207T	p.P69P	CTCCTCGGGGCTC	.	PASS	Atlas-SNP
ZNF404	342908	hgsc.bcm.edu	37	19	44377205	44377205	+	Missense_Mutation	SNP	T	T	G	rs78264306	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	29	50	0	0.460317	0	T|0.993;G|0.007	0.007	strong	.	ZNF404	46	.	NM_001033719	exon2	c.A1152C	p.E384D	CCCACATTCTTTA	.	PASS	Atlas-SNP
MMD2	221938	hgsc.bcm.edu	37	7	4959807	4959807	+	Silent	SNP	G	G	A	rs932061	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	36	25	0	1	0	G|0.545;A|0.455	0.455	strong	.	MMD2	63	.	NM_198403	exon3	c.C285T	p.H95H	CCTGAGGTGGCTC	.	PASS	Atlas-SNP
ZNF350	59348	hgsc.bcm.edu	37	19	52471872	52471872	+	Missense_Mutation	SNP	A	A	G	rs2278420	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	44	89	0	0.468085	0	A|0.747;G|0.253	0.253	strong	.	ZNF350	48	.	NM_021632	exon4	c.T197C	p.L66P	GTCCACAGTTGTT	.	PASS	Atlas-SNP
HCN2	610	hgsc.bcm.edu	37	19	613898	613898	+	Silent	SNP	T	T	C	rs1054786	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	19	33	0	0.413043	0	T|0.274;C|0.726	0.726	strong	.	HCN2	36	.	NM_001194	exon7	c.T1872C	p.A624A	GCGGGCTGACACC	.	PASS	Atlas-SNP
HID1	283987	hgsc.bcm.edu	37	17	72949649	72949649	+	Silent	SNP	C	C	T	rs2087718	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	44	98	0	0.52381	0	C|0.940;T|0.060	0.060	strong	.	.	.	.	NM_030630	exon15	c.G1962A	p.P654P	CTTAGCCGGGCTG	.	PASS	Atlas-SNP
CTBS	1486	hgsc.bcm.edu	37	1	85031630	85031630	+	Silent	SNP	G	G	A	rs2994953	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	101	169	0	0.526042	0	G|0.720;A|0.280	0.280	strong	.	CTBS	24	.	NM_004388	exon4	c.C591T	p.I197I	ATCTGCGATTCCA	.	PASS	Atlas-SNP
FPR1	2357	hgsc.bcm.edu	37	19	52249680	52249680	+	Missense_Mutation	SNP	T	T	A	rs5030880	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	28	38	0	0.56	0	T|0.887;A|0.113	0.113	strong	FPR1,NS,carcinoma,0,1	FPR1	64	1	NM_001193306	exon3	c.A568T	p.R190W	TTATCCTCTCTTT	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	16930419	16930419	+	Missense_Mutation	SNP	C	C	G	rs45569534	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	41	63	0	0.585714	0	C|0.985;G|0.015	0.015	strong	.	CUBN	515	.	NM_001081	exon56	c.G8902C	p.E2968Q	TACCTTCTAAGTG	.	PASS	Atlas-SNP
EXOSC5	56915	hgsc.bcm.edu	37	19	41903220	41903220	+	Missense_Mutation	SNP	G	G	A	rs10853751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	56	54	0	1	0	G|0.354;N|0.000	.	strong	.	EXOSC5	18	.	NM_020158	exon1	c.C14T	p.T5M	GTATGCGTCTCCT	.	PASS	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	37	3	56650012	56650012	+	Missense_Mutation	SNP	G	G	C	rs4681904	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	27	66	0	0.369863	0	A|0.009;C|0.230;G|0.761	0.230	strong	.	CCDC66	145	.	NM_001141947	exon13	c.G1774C	p.E592Q	TCTGATGAAATCA	.	PASS	Atlas-SNP
LRRC40	55631	hgsc.bcm.edu	37	1	70616830	70616830	+	Missense_Mutation	SNP	T	T	C	rs3180401	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	94	204	0	0.472362	0	T|0.991;C|0.009	0.009	strong	.	LRRC40	66	.	NM_017768	exon13	c.A1498G	p.I500V	GATTGATCGTTTG	.	PASS	Atlas-SNP
CELA3A	10136	hgsc.bcm.edu	37	1	22336305	22336305	+	Silent	SNP	C	C	T	rs9187	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	90	227	0	0.410959	0	C|0.737;T|0.263	0.263	strong	CELA3A,NS,carcinoma,+2,1	CELA3A	35	1	NM_005747	exon7	c.C750T	p.P250P	GAAGCCCACGGTG	.	PASS	Atlas-SNP
TATDN2	9797	hgsc.bcm.edu	37	3	10302172	10302172	+	Missense_Mutation	SNP	G	G	A	rs394558	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	66	73	0	0.589286	0	G|0.518;A|0.482	0.482	strong	.	TATDN2	59	.	NM_014760	exon3	c.G766A	p.V256I	CCAGAGGTCAGCA	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	746197	746197	+	Missense_Mutation	SNP	G	G	C	rs35655964	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	68	71	0	1	0	G|0.942;C|0.058	0.058	strong	.	.	.	.	NM_033409	exon2	c.C222G	p.I74M	GAAGATGATGGGC	.	PASS	Atlas-SNP
SMPD2	6610	hgsc.bcm.edu	37	6	109764535	109764535	+	Missense_Mutation	SNP	G	G	T	rs1476387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	74	155	0	0.468354	0	A|0.000;G|0.469;T|0.531	0.531	strong	SMPD2,NS,carcinoma,0,1	SMPD2	25	1	NM_003080	exon9	c.G795T	p.R265S	TCACAGGGGCACC	.	PASS	Atlas-SNP
ZNF254	9534	hgsc.bcm.edu	37	19	24310413	24310413	+	Missense_Mutation	SNP	G	G	C	rs12611425	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	12	7	16	0	0.583333	0	G|0.964;C|0.036	0.036	strong	.	ZNF254	88	.	NM_203282	exon4	c.G1611C	p.K537N	ACATAAGATAATT	.	PASS	Atlas-SNP
WDR62	284403	hgsc.bcm.edu	37	19	36583651	36583651	+	Silent	SNP	G	G	A	rs61494900	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	62	116	0	0.484375	0	G|0.864;A|0.136	0.136	strong	.	WDR62	102	.	NM_173636	exon19	c.G2271A	p.L757L	CTTGCTGGAGATT	.	PASS	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	37	11	94533373	94533373	+	Silent	SNP	C	C	T	rs2303960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	19	64	0	0.372549	0	C|0.744;T|0.256	0.256	strong	AMOTL1,colon,carcinoma,+2,1	AMOTL1	95	1	NM_130847	exon3	c.C1017T	p.P339P	GCACCCCGGGATG	.	PASS	Atlas-SNP
LRRC37A3	374819	hgsc.bcm.edu	37	17	62892031	62892031	+	Missense_Mutation	SNP	C	C	T	rs3893633		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	69	197	0	0.428571	0	T|1.000;|0.000	1.000	weak	LRRC37A3,NS,carcinoma,0,4	LRRC37A3	75	4	NM_199340	exon3	c.G1345A	p.V449I	GTTCTACATCATT	.	scavenged	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1538363	1538363	+	Missense_Mutation	SNP	C	C	A	rs1040499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	108	180	0	0.57754	0	C|0.502;A|0.498	0.498	strong	.	PTX4	46	.	NM_001013658	exon1	c.G106T	p.G36C	ACAGGCCCACAGC	.	PASS	Atlas-SNP
ACOT4	122970	hgsc.bcm.edu	37	14	74058832	74058832	+	Missense_Mutation	SNP	C	C	T	rs3742819	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	4	4	1	0	1	0	C|0.599;T|0.401	0.401	strong	.	ACOT4	25	.	NM_152331	exon1	c.C169T	p.R57C	GACGCCCGCGGCG	.	PASS	Atlas-SNP
TENM1	10178	hgsc.bcm.edu	37	X	123514900	123514900	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	55	52	0	1	0	.	.	none	.	.	.	.	NM_001163278	exon32	c.A7685G	p.N2562S	GCATTATTGAGAA	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100070351	100070351	+	Silent	SNP	G	G	C	rs12683119	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	33	79	0	0.471429	0	G|0.813;C|0.187	0.187	strong	.	.	.	.	NM_020893	exon2	c.G138C	p.S46S	GATGTCGTCAGTG	.	PASS	Atlas-SNP
COL10A1	1300	hgsc.bcm.edu	37	6	116446576	116446576	+	Missense_Mutation	SNP	A	A	G	rs1064583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	201	201	164	0	1	0	A|0.536;G|0.464	0.464	strong	.	COL10A1	51	.	NM_000493	exon2	c.T80C	p.M27T	GTGGGCATTTGGT	.	PASS	Atlas-SNP
LNP1	348801	hgsc.bcm.edu	37	3	100170600	100170600	+	Missense_Mutation	SNP	A	A	T	rs76354691	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	18	97	0	0.121622	0	A|0.818;T|0.182	0.182	strong	.	LNP1	26	.	NM_001085451	exon3	c.A194T	p.H65L	ACTGCCATCCTAG	.	PASS	Atlas-SNP
SGSM1	129049	hgsc.bcm.edu	37	22	25251372	25251372	+	Missense_Mutation	SNP	C	C	T	rs56123612	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	19	38	0	0.463415	0	C|0.991;T|0.009	0.009	strong	.	SGSM1	150	.	NM_001098497	exon7	c.C644T	p.S215L	AGGACTCGCCCAC	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167284444	167284444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	24	92	0	0.25	0	.	.	none	SCN7A_ENST00000409855,NS,carcinoma,+1,6	SCN7A	410	6	NM_002976	exon17	c.C2707T	p.R903C	ATCCGCGTCTGCA	.	PASS	Atlas-SNP
TRIM39	56658	hgsc.bcm.edu	37	6	30297505	30297505	+	Silent	SNP	C	C	T	rs1264581	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	68	145	0	0.419753	0	C|0.951;T|0.049	0.049	strong	.	TRIM39	56	.	NM_172016	exon3	c.C411T	p.A137A	CCGGGCCCACACC	.	PASS	Atlas-SNP
DLK1	8788	hgsc.bcm.edu	37	14	101200860	101200860	+	Missense_Mutation	SNP	G	G	A	rs1058009	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	34	43	0	0.478873	0	G|0.948;A|0.052	0.052	strong	.	DLK1	57	.	NM_003836	exon5	c.G779A	p.S260N	TGCCCAGCGGCTA	.	PASS	Atlas-SNP
LMBR1	64327	hgsc.bcm.edu	37	7	156518192	156518192	+	Silent	SNP	G	G	A	rs60299355	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	47	122	0	0.5	0	A|0.073;C|0.000;G|0.927	0.073	strong	LMBR1,lower_third,carcinoma,-2,1	LMBR1	35	1	NM_022458	exon14	c.C1095T	p.G365G	ATAGAAGCCGACA	.	PASS	Atlas-SNP
CLSTN3	9746	hgsc.bcm.edu	37	12	7287956	7287956	+	Silent	SNP	C	C	T	rs34933247	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	207	110	164	0	0.531401	0	C|0.917;T|0.083	0.083	strong	.	CLSTN3	84	.	NM_014718	exon4	c.C417T	p.N139N	TGTGAACGAGTTT	.	PASS	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	37	3	53857676	53857676	+	Silent	SNP	C	C	T	rs17053532	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	19	10	0	0.826087	0	C|0.905;T|0.095	0.095	strong	.	CHDH	34	.	NM_018397	exon3	c.G360A	p.L120L	CCAGTACAGCACG	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56386358	56386358	+	Silent	SNP	T	T	A	rs2526360	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	25	52	1	0.403226	0.0192308	T|0.704;A|0.296	0.296	strong	BZRAP1_ENST00000355701,NS,carcinoma,0,2	BZRAP1	287	2	NM_004758	exon22	c.A4275T	p.R1425R	GTGTTCTCGGGGA	.	scavenged	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167023738	167023738	+	Missense_Mutation	SNP	G	G	C	rs13096767	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	115	1	1	0.00869565	G|0.651;C|0.349	0.349	strong	ZBBX_ENST00000455345,NS,carcinoma,0,2	ZBBX	299	2	NM_024687	exon17	c.C1418G	p.A473G	GTTTCTGCTGTTA	.	PASS	Atlas-SNP
LRRC16B	90668	hgsc.bcm.edu	37	14	24533539	24533539	+	Missense_Mutation	SNP	C	C	A	rs10146906	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	23	37	0	0.5	0	C|0.593;A|0.407	0.407	strong	.	LRRC16B	120	.	NM_138360	exon32	c.C3064A	p.L1022M	AGGGTCCTGGAGG	.	PASS	Atlas-SNP
ARSK	153642	hgsc.bcm.edu	37	5	94939193	94939193	+	Missense_Mutation	SNP	A	A	G	rs17084927	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	30	61	0	0.405405	0	A|0.948;G|0.052	0.052	strong	.	ARSK	29	.	NM_198150	exon8	c.A1574G	p.Q525R	TTGATCAGTGGCT	.	PASS	Atlas-SNP
VSIG10L	147645	hgsc.bcm.edu	37	19	51837171	51837171	+	Silent	SNP	A	A	G	rs7255306	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	24	72	0	0.521739	0	A|0.563;G|0.437	0.437	strong	.	VSIG10L	40	.	NM_001163922	exon9	c.T2448C	p.P816P	GGTAGAAGGATGC	.	PASS	Atlas-SNP
FAM194B	220081	hgsc.bcm.edu	37	13	46115731	46115731	+	Missense_Mutation	SNP	C	C	A	rs1536207	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	91	199	0	0.52	0	C|0.626;A|0.374	0.374	strong	.	FAM194B	42	.	NM_182542	exon15	c.G1957T	p.V653F	GAAGGACCCGGAT	.	PASS	Atlas-SNP
OR10J1	26476	hgsc.bcm.edu	37	1	159409884	159409884	+	Missense_Mutation	SNP	G	G	A	rs12118628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	51	108	0	0.369565	0	G|0.887;A|0.113	0.113	strong	.	OR10J1	118	.	NM_012351	exon1	c.G336A	p.M112I	ACAGATGTTCTTT	.	PASS	Atlas-SNP
CDH19	28513	hgsc.bcm.edu	37	18	64176365	64176365	+	Silent	SNP	G	G	T	rs1055335	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	253	91	176	0	0.359684	0	G|0.731;T|0.269	0.269	strong	.	CDH19	141	.	NM_021153	exon11	c.C1695A	p.T565T	GGTAAGGGTGTTT	.	PASS	Atlas-SNP
XPC	7508	hgsc.bcm.edu	37	3	14193889	14193889	+	Silent	SNP	C	C	T	rs2227998	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	38	73	0	0.520548	0	T|0.221;G|0.000;C|0.778	0.221	strong	.	XPC	60	.	NM_004628	exon11	c.G2061A	p.R687R	CGTGTCCCTGGAA	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	37	22	45749983	45749983	+	Missense_Mutation	SNP	G	G	T	rs5764698	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	43	126	0	0.443299	0	G|0.641;N|0.000	.	strong	.	SMC1B	215	.	NM_148674	exon21	c.C3148A	p.L1050M	TACACAGTCTGGC	.	PASS	Atlas-SNP
WDR24	84219	hgsc.bcm.edu	37	16	735921	735921	+	Silent	SNP	T	T	C	rs763053	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	53	77	0	0.56383	0	T|0.601;C|0.399	0.399	strong	.	WDR24	111	.	NM_032259	exon5	c.A1521G	p.A507A	GCTCCGTGCATCT	.	PASS	Atlas-SNP
ZP2	7783	hgsc.bcm.edu	37	16	21213101	21213101	+	Missense_Mutation	SNP	T	T	C	rs201054139	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	104	210	0	0.5	0	T|1.000;C|0.000	0.000	strong	.	ZP2	92	.	NM_003460	exon13	c.A1430G	p.N477S	TCAACGTTGATGT	.	PASS	Atlas-SNP
CD163L1	283316	hgsc.bcm.edu	37	12	7585971	7585971	+	Silent	SNP	A	A	G	rs10845159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	55	125	0	0.443548	0	A|0.625;G|0.375	0.375	strong	.	CD163L1	238	.	NM_174941	exon3	c.T444C	p.Y148Y	CTTACCATAACAG	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23627256	23627256	+	Silent	SNP	G	G	A	rs35727393	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	56	89	0	0.565657	0	G|0.975;A|0.025	0.025	strong	.	BCR	74	.	NM_021574	exon10	c.G2274A	p.P758P	CATTCCGCTCACG	.	PASS	Atlas-SNP
FAM118A	55007	hgsc.bcm.edu	37	22	45723920	45723920	+	Silent	SNP	C	C	T	rs111386114	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	25	53	0	0.284091	0	C|0.500;T|0.500	0.500	weak	FAM118A,brain,glioma,0,1	FAM118A	32	1	NM_017911	exon4	c.C498T	p.S166S	GGAGTCCCTGGAC	.	scavenged	Atlas-SNP
PSORS1C1	170679	hgsc.bcm.edu	37	6	31107648	31107648	+	Missense_Mutation	SNP	C	C	T	rs1063646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	229	118	210	0	0.515284	0	C|0.847;N|0.000	.	strong	.	PSORS1C1	11	.	NM_014068	exon6	c.C398T	p.P133L	TGGCTCCAACTCT	.	PASS	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117826096	117826096	+	Missense_Mutation	SNP	G	G	T	rs113301777	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	34	146	0	0.382022	0	G|0.985;T|0.015	0.015	strong	.	TNC	282	.	NM_002160	exon12	c.C3739A	p.L1247I	CAGAGAGAGGGGT	.	PASS	Atlas-SNP
ATAD3B	83858	hgsc.bcm.edu	37	1	1431165	1431165	+	Missense_Mutation	SNP	C	C	T	rs9792879	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	46	57	0	0.494624	0	C|0.782;T|0.218	0.218	strong	ATAD3B,NS,carcinoma,0,2	ATAD3B	68	2	NM_031921	exon16	c.C1915T	p.P639S	GGTCGGCCGTTCT	.	PASS	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	37	17	4337283	4337283	+	Silent	SNP	G	G	A	rs35751906	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	22	79	0	0.328358	0	G|0.847;A|0.153	0.153	strong	SPNS3,NS,carcinoma,0,2	SPNS3	52	2	NM_182538	exon1	c.G21A	p.A7A	GTCAGCGGAGTGC	.	PASS	Atlas-SNP
KAT6A	7994	hgsc.bcm.edu	37	8	41791283	41791283	+	Silent	SNP	G	G	A	rs3739365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	53	100	0	0.473214	0	G|0.888;A|0.112	0.112	strong	.	.	.	.	NM_001099412	exon18	c.C4455T	p.S1485S	CTGAACGGAGGAG	.	PASS	Atlas-SNP
CA6	765	hgsc.bcm.edu	37	1	9017204	9017204	+	Missense_Mutation	SNP	A	A	G	rs2274333	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	34	45	0	0.566667	0	A|0.712;G|0.288	0.288	strong	.	CA6	47	.	NM_001270500	exon3	c.A268G	p.S90G	CAGATCAGCCTGC	.	PASS	Atlas-SNP
KCNU1	157855	hgsc.bcm.edu	37	8	36692303	36692303	+	Splice_Site	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	61	141	0	0.525862	0	.	.	none	KCNU1_ENST00000399881,colon,carcinoma,0,2	KCNU1	359	2	NM_001031836	exon12	c.1213-1G>T	.	AGGGTAGGTGGAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076991	9076991	+	Silent	SNP	C	C	T	rs2591595	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	55	133	0	0.419847	0	C|0.750;T|0.250	0.250	strong	MUC16_ENST00000397910,colon,carcinoma,-1,2	MUC16	4315	2	NM_024690	exon3	c.G10455A	p.A3485A	AGATGACGCAGAG	.	PASS	Atlas-SNP
NME4	4833	hgsc.bcm.edu	37	16	449659	449659	+	Silent	SNP	G	G	A	rs14293	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	129	105	0	1	0	G|0.557;A|0.443	0.443	strong	NME4,NS,carcinoma,0,1	NME4	9	1	NM_005009	exon4	c.G360A	p.S120S	CGCCTCGAGGGCC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	701656	701656	+	Missense_Mutation	SNP	C	C	T	rs11642546	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	21	44	0	0.583333	0	C|0.651;T|0.349	0.349	strong	WDR90,NS,carcinoma,0,1	WDR90	107	1	NM_145294	exon8	c.C749T	p.P250L	TGGGGCCGGGGCC	.	PASS	Atlas-SNP
POU5F1	5460	hgsc.bcm.edu	37	6	31138371	31138371	+	Silent	SNP	G	G	A	rs1265160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	15	43	0	0.483871	0	G|0.822;A|0.178	0.178	strong	POU5F1,caecum,carcinoma,0,1	POU5F1	25	1	NM_002701	exon1	c.C27T	p.F9F	GAAGGCGAAATCC	.	PASS	Atlas-SNP
WBSCR17	64409	hgsc.bcm.edu	37	7	71142219	71142219	+	Silent	SNP	C	C	T	rs61740246	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	24	49	0	0.436364	0	C|0.917;T|0.083	0.083	strong	WBSCR17,NS,carcinoma,+2,1	WBSCR17	208	1	NM_022479	exon9	c.C1428T	p.D476D	AAAAGACGTCTGC	.	PASS	Atlas-SNP
AGMAT	79814	hgsc.bcm.edu	37	1	15905501	15905501	+	Silent	SNP	G	G	A	rs41270261	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	26	65	0	0.38806	0	G|0.883;A|0.117	0.117	strong	AGMAT,colon,carcinoma,0,1	AGMAT	25	1	NM_024758	exon4	c.C573T	p.T191T	CTTGTCGGTCGTG	.	PASS	Atlas-SNP
GZF1	64412	hgsc.bcm.edu	37	20	23350290	23350290	+	Missense_Mutation	SNP	G	G	A	rs144872945	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	33	80	0	0.423077	0	G|0.999;A|0.001	0.001	strong	GZF1,NS,adenocarcinoma,0,1	GZF1	61	1	NM_022482	exon4	c.G1697A	p.R566H	GCCACCGCCGCAT	.	PASS	Atlas-SNP
MYO5C	55930	hgsc.bcm.edu	37	15	52534344	52534344	+	Silent	SNP	G	G	A	rs3751631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	207	97	195	0	0.468599	0	G|0.534;A|0.466	0.466	strong	MYO5C,colon,carcinoma,0,1	MYO5C	162	1	NM_018728	exon20	c.C2457T	p.R819R	ATACCCGCGGCAG	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115932012	115932012	+	Missense_Mutation	SNP	G	G	T	rs57348436	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	41	74	0	0.539474	0	G|0.954;T|0.046	0.046	strong	.	FKBP15	128	.	NM_015258	exon26	c.C2977A	p.P993T	GCAACGGGACAGC	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7211818	7211818	+	Missense_Mutation	SNP	G	G	A	rs1334576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	65	99	0	0.5	0	G|0.596;N|0.000	.	strong	.	RREB1	242	.	NM_001003700	exon8	c.G583A	p.G195R	GAAGACGGGCAGT	.	PASS	Atlas-SNP
RAB8B	51762	hgsc.bcm.edu	37	15	63548787	63548787	+	Silent	SNP	G	G	A	rs10851726	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	39	62	0	0.6	0	G|0.814;A|0.186	0.186	strong	.	RAB8B	23	.	NM_016530	exon5	c.G408A	p.G136G	AAGAGGGGAGAAG	.	PASS	Atlas-SNP
EXOSC10	5394	hgsc.bcm.edu	37	1	11150682	11150682	+	Silent	SNP	C	C	T	rs3737621	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	55	82	0	0.528846	0	C|0.940;T|0.060	0.060	strong	EXOSC10,NS,carcinoma,0,1	EXOSC10	59	1	NM_001001998	exon6	c.G687A	p.E229E	CAAGTCCTCAGGA	.	PASS	Atlas-SNP
ADAMTS18	170692	hgsc.bcm.edu	37	16	77325325	77325325	+	Missense_Mutation	SNP	G	G	T	rs35478105	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	91	118	0	0.98913	0	G|0.665;T|0.335	0.335	strong	ADAMTS18,NS,carcinoma,0,1	ADAMTS18	270	1	NM_199355	exon21	c.C3240A	p.S1080R	CTTCTCGCTGCAC	.	PASS	Atlas-SNP
DCK	1633	hgsc.bcm.edu	37	4	71888176	71888176	+	Silent	SNP	C	C	T	rs11544786	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	28	54	0	0.451613	0	C|0.956;T|0.044	0.044	strong	.	DCK	23	.	NM_000788	exon3	c.C300T	p.A100A	ATATGCCTGTCTC	.	PASS	Atlas-SNP
OR2S2	56656	hgsc.bcm.edu	37	9	35957355	35957355	+	Silent	SNP	G	G	A	rs2233568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	51	98	0	0.504951	0	G|0.634;A|0.366	0.366	strong	OR2S2,NS,carcinoma,0,1	OR2S2	46	1	NM_019897	exon1	c.C741T	p.T247T	CACCACGGTGAGG	.	PASS	Atlas-SNP
OR2M2	391194	hgsc.bcm.edu	37	1	248343543	248343543	+	Silent	SNP	C	C	T	rs9435919	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	182	216	1	0.978495	0.00462963	C|0.384;T|0.616	0.616	strong	.	OR2M2	149	.	NM_001004688	exon1	c.C256T	p.L86L	AACTACCTGTCTG	.	PASS	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	37	17	4337412	4337412	+	Silent	SNP	C	C	G	rs3809853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	73	113	0	0.51773	0	C|0.722;G|0.278	0.278	strong	.	SPNS3	52	.	NM_182538	exon1	c.C150G	p.V50V	CGCCGTCCTCTGC	.	PASS	Atlas-SNP
OR1A2	26189	hgsc.bcm.edu	37	17	3101590	3101590	+	Missense_Mutation	SNP	C	C	T	rs2469791	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	85	135	0	0.497076	0	C|0.791;T|0.209	0.209	strong	.	OR1A2	52	.	NM_012352	exon1	c.C778T	p.R260C	TATTTCCGCCCTC	.	PASS	Atlas-SNP
EID2	163126	hgsc.bcm.edu	37	19	40030704	40030704	+	Missense_Mutation	SNP	C	C	T	rs7252027	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	19	55	0	0.487179	0	C|0.788;T|0.212	0.212	strong	.	EID2	14	.	NM_153232	exon1	c.G16A	p.A6T	TGTCTGCGGGCAG	.	PASS	Atlas-SNP
CPVL	54504	hgsc.bcm.edu	37	7	29160604	29160604	+	Missense_Mutation	SNP	C	C	T	rs34219043	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	63	75	0	0.33871	0	C|0.863;G|0.000;T|0.137	0.137	strong	CPVL,NS,malignant_melanoma,-1,1	CPVL	60	1	NM_019029	exon2	c.G74A	p.R25H	AGGGAGCGAAACA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152285621	152285621	+	Missense_Mutation	SNP	T	T	A	rs145627745	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	96	221	0	0.388664	0	T|0.993;A|0.007	0.007	strong	FLG,NS,carcinoma,+1,1	FLG	900	1	NM_002016	exon3	c.A1741T	p.T581S	GCCTGGTGCCGTC	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5749961	5749961	+	Silent	SNP	G	G	C	rs4688962	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	45	89	0	0.478723	0	G|0.459;C|0.541	0.541	strong	.	EVC	90	.	NM_153717	exon8	c.G1026C	p.L342L	ACAGCTGATGATG	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46008790	46008790	+	Missense_Mutation	SNP	G	G	A	rs3796375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	49	58	0	0.597561	0	G|0.650;A|0.350	0.350	strong	.	FYCO1	115	.	NM_024513	exon8	c.C2036T	p.A679V	AAGCTCGCCTCCA	.	PASS	Atlas-SNP
TMEM244	253582	hgsc.bcm.edu	37	6	130152479	130152479	+	Silent	SNP	T	T	C	rs7758540	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	58	161	0	0.439394	0	T|0.428;C|0.572	0.572	strong	C6orf191,NS,carcinoma,-1,1	.	.	1	NM_001010876	exon5	c.A372G	p.S124S	CAATTTTGATATA	.	PASS	Atlas-SNP
DPP6	1804	hgsc.bcm.edu	37	7	154561188	154561188	+	Silent	SNP	C	C	T	rs56091483	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	55	92	0	0.561224	0	C|0.910;T|0.090	0.090	strong	.	DPP6	383	.	NM_130797	exon9	c.C945T	p.Y315Y	CGCCTACGCCGCC	.	PASS	Atlas-SNP
TEKT4	150483	hgsc.bcm.edu	37	2	95539833	95539833	+	Silent	SNP	C	C	T	rs111469930	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	28	94	0	0.430769	0	C|0.988;T|0.012	0.012	strong	.	TEKT4	72	.	NM_144705	exon3	c.C693T	p.Y231Y	TCCGTACTCCACC	.	PASS	Atlas-SNP
FSCB	84075	hgsc.bcm.edu	37	14	44973866	44973866	+	Silent	SNP	C	C	T	rs200610473	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	2	100	0	0.0173913	0	C|0.999;G|0.001	.	alt	FSCB,colon,carcinoma,0,8	FSCB	173	8	NM_032135	exon1	c.G2325A	p.S775S	AACAACCGATCCT	.	scavenged	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	37	15	51868373	51868373	+	Silent	SNP	A	A	G	rs2414105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	8	15	0	0.571429	0	A|0.512;G|0.488	0.488	strong	.	DMXL2	262	.	NM_001174117	exon2	c.T93C	p.Y31Y	TGATCCATATGCC	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72158675	72158675	+	Silent	SNP	G	G	A	rs34831115	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	39	61	0	0.629032	0	G|0.990;A|0.010	0.010	strong	PMFBP1,NS,carcinoma,-2,1	PMFBP1	101	1	NM_031293	exon17	c.C2580T	p.D860D	CTTATCGTCCTCA	.	PASS	Atlas-SNP
PIGQ	9091	hgsc.bcm.edu	37	16	624114	624114	+	Missense_Mutation	SNP	A	A	G	rs2071979	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	32	62	0	0.561404	0	A|0.533;G|0.467	0.467	strong	.	PIGQ	43	.	NM_148920	exon2	c.A40G	p.T14A	GTCTCGACGGACA	.	PASS	Atlas-SNP
UBE3C	9690	hgsc.bcm.edu	37	7	157000176	157000176	+	Silent	SNP	T	T	C	rs2301914	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	52	146	0	0.363636	0	T|0.498;C|0.502	0.502	strong	.	UBE3C	124	.	NM_014671	exon12	c.T1503C	p.Y501Y	CTTTTATCTTTTT	.	PASS	Atlas-SNP
MMS19	64210	hgsc.bcm.edu	37	10	99225645	99225645	+	Missense_Mutation	SNP	G	G	A	rs12360068	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	27	51	0	0.55102	0	G|0.974;A|0.026	0.026	strong	.	MMS19	36	.	NM_022362	exon18	c.C1673T	p.A558V	GACAAGGCTTGCA	.	PASS	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91666131	91666131	+	Silent	SNP	C	C	T	rs28481732	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	69	122	0	0.5	0	C|0.977;T|0.023	0.023	strong	.	C14orf159	57	.	NM_001102368	exon11	c.C1326T	p.A442A	GCGTGCCGGAAGA	.	PASS	Atlas-SNP
CCDC38	120935	hgsc.bcm.edu	37	12	96288860	96288860	+	Missense_Mutation	SNP	T	T	C	rs10859974	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	48	131	0	0.48	0	T|0.772;C|0.228	0.228	strong	.	CCDC38	45	.	NM_182496	exon8	c.A679G	p.M227V	GAGACATTTGCAG	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48506566	48506566	+	Missense_Mutation	SNP	A	A	G	rs4917152	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	49	87	0	0.318182	0	A|0.777;G|0.223	0.223	strong	.	ABCA13	1192	.	NM_152701	exon44	c.A12829G	p.N4277D	GGCGACAACTTGG	.	PASS	Atlas-SNP
TPRKB	51002	hgsc.bcm.edu	37	2	73957124	73957124	+	Silent	SNP	A	A	G	rs7210	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	171	200	0	1	0	A|0.429;G|0.571	0.571	strong	.	TPRKB	20	.	NM_016058	exon5	c.T474C	p.I158I	TGTCCCAATACTT	.	PASS	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	37	6	109885475	109885475	+	Missense_Mutation	SNP	G	G	A	rs10499052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	23	49	0	0.489362	0	G|0.809;A|0.191	0.191	strong	.	AKD1	223	.	NM_001145128	exon23	c.C2443T	p.P815S	ACTCAGGTAGTAC	.	PASS	Atlas-SNP
ZNF98	148198	hgsc.bcm.edu	37	19	22575777	22575777	+	Missense_Mutation	SNP	T	T	C	rs200167484	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	13	43	0	0.232143	0	C|0.005;G|0.039;T|0.955	0.005	strong	.	ZNF98	230	.	NM_001098626	exon4	c.A260G	p.Y87C	TAAGAATATACAA	.	PASS	Atlas-SNP
PEBP4	157310	hgsc.bcm.edu	37	8	22584718	22584718	+	Missense_Mutation	SNP	T	T	C	rs1129474	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	35	57	0	0.555556	0	T|0.516;C|0.484	0.484	strong	PEBP4,NS,carcinoma,0,1	PEBP4	23	1	NM_144962	exon5	c.A373G	p.K125E	TCCCTTTCTTCAG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134736026	134736026	+	Silent	SNP	G	G	A	rs4880286	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	83	79	0	1	0	G|0.640;A|0.360	0.360	strong	.	TTC40	100	.	NM_001200049	exon12	c.C1443T	p.A481A	CTCAGGGGCCTGG	.	PASS	Atlas-SNP
ANKLE1	126549	hgsc.bcm.edu	37	19	17392894	17392894	+	Missense_Mutation	SNP	G	G	A	rs8100241	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	9	2	0	0.6	0	G|0.574;A|0.426	0.426	strong	FLJ39369,NS,carcinoma,0,4	ANKLE1	27	4	NM_152363	exon2	c.G91A	p.A31T	TGCGGCGCGGACC	.	PASS	Atlas-SNP
HPS1	3257	hgsc.bcm.edu	37	10	100183570	100183570	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	51	72	0	0.593023	0	.	.	none	.	HPS1	65	.	NM_000195	exon15	c.C1472G	p.P491R	CTGCTGGGGGCTG	.	PASS	Atlas-SNP
CARD8	22900	hgsc.bcm.edu	37	19	48737706	48737706	+	Missense_Mutation	SNP	A	A	T	rs2043211	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	54	101	0	0.574468	0	A|0.691;T|0.309	0.309	strong	.	CARD8	53	.	NM_001184900	exon3	c.T304A	p.F102I	CACGGAACAATAA	.	PASS	Atlas-SNP
SPRED2	200734	hgsc.bcm.edu	37	2	65540905	65540905	+	Silent	SNP	C	C	G	rs8827	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	35	63	0	0.466667	0	C|0.713;G|0.287	0.287	strong	SPRED2,colon,carcinoma,0,1	SPRED2	70	1	NM_181784	exon6	c.G987C	p.A329A	GTCGGGCGCGTCC	.	PASS	Atlas-SNP
EIF4EBP2	1979	hgsc.bcm.edu	37	10	72179746	72179746	+	Silent	SNP	C	C	T	rs1043098	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	41	72	0	0.554054	0	C|0.528;T|0.472	0.472	strong	.	EIF4EBP2	7	.	NM_004096	exon2	c.C222T	p.H74H	CTGCCACCTGCCC	.	PASS	Atlas-SNP
ATAD3A	55210	hgsc.bcm.edu	37	1	1455652	1455652	+	Missense_Mutation	SNP	G	G	T	rs75466946		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	278	37	171	3	0.133094	0.0175439	.	.	weak	ATAD3A,NS,carcinoma,0,4	ATAD3A	35	4	NM_018188	exon6	c.G790T	p.A264S	AAGGCGGCCGAGC	.	scavenged	Atlas-SNP
XPO7	23039	hgsc.bcm.edu	37	8	21846586	21846586	+	Silent	SNP	G	G	C	rs2306646	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	40	117	0	0.533333	0	G|0.405;C|0.595	0.595	strong	.	XPO7	79	.	NM_015024	exon16	c.G1860C	p.L620L	TGACCTGTCCATT	.	PASS	Atlas-SNP
ANKDD1A	348094	hgsc.bcm.edu	37	15	65236875	65236875	+	Silent	SNP	T	T	C	rs2414865	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	48	116	0	0.45283	0	T|0.460;C|0.540	0.540	strong	.	ANKDD1A	47	.	NM_182703	exon12	c.T1092C	p.A364A	AGTGGCTGTCCGC	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	42046613	42046613	+	Silent	SNP	G	G	T	rs12132697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	25	54	0	0.403226	0	G|0.838;T|0.162	0.162	strong	HIVEP3,NS,carcinoma,0,1	HIVEP3	235	1	NM_024503	exon4	c.C3856A	p.R1286R	GTAGCCGGATGTC	.	PASS	Atlas-SNP
KCNU1	157855	hgsc.bcm.edu	37	8	36788479	36788479	+	Missense_Mutation	SNP	A	A	G	rs16885577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	30	44	0	0.625	0	A|0.799;G|0.201	0.201	strong	.	KCNU1	359	.	NM_001031836	exon25	c.A2747G	p.N916S	TCTACAATTATCA	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733050	52733050	+	Missense_Mutation	SNP	T	T	A	rs12335014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	141	141	1	0.886792	0.0070922	T|0.570;A|0.430	0.430	strong	.	PCMTD1	73	.	NM_052937	exon6	c.A935T	p.N312I	TCTTTGTTATCCT	.	PASS	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10709441	10709441	+	Silent	SNP	C	C	T	rs284299	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	67	158	0	0.558333	0	T|0.279;C|0.721	0.279	strong	CASZ1,NS,carcinoma,0,1	CASZ1	150	1	NM_001079843	exon14	c.G2934A	p.A978A	CCCCTCCGCTTCC	.	PASS	Atlas-SNP
APOBEC4	403314	hgsc.bcm.edu	37	1	183617105	183617105	+	Missense_Mutation	SNP	A	A	G	rs1174658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	416	411	337	0	0.987981	0	A|0.606;G|0.394	0.394	strong	APOBEC4,NS,carcinoma,0,1	APOBEC4	45	1	NM_203454	exon2	c.T812C	p.F271S	TGAAAAAACTGTC	.	PASS	Atlas-SNP
FXR2	9513	hgsc.bcm.edu	37	17	7496411	7496411	+	Silent	SNP	G	G	A	rs61730843	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	41	71	0	0.554054	0	G|0.995;A|0.005	0.005	strong	.	FXR2	44	.	NM_004860	exon13	c.C1419T	p.P473P	GGTTGGGGGATCC	.	PASS	Atlas-SNP
HDX	139324	hgsc.bcm.edu	37	X	83591866	83591866	+	Silent	SNP	C	C	T	rs5922966	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	30	21	0	0.967742	0	C|0.875;0|0.014	.	strong	.	HDX	124	.	NM_144657	exon7	c.G1683A	p.P561P	ATCATTCGGAACA	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2161097	2161097	+	Silent	SNP	C	C	A	rs145737766	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	48	79	0	0.592593	0	C|0.993;A|0.007	0.007	strong	.	PKD1	184	.	NM_000296	exon15	c.G4071T	p.L1357L	CAGCGCCAGGGGG	.	PASS	Atlas-SNP
WDR49	151790	hgsc.bcm.edu	37	3	167217964	167217964	+	Missense_Mutation	SNP	A	A	G	rs13060964	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	26	51	0	0.346667	0	A|0.662;G|0.338	0.338	strong	.	WDR49	188	.	NM_178824	exon14	c.T1952C	p.L651P	GCCTCCAGAATTT	.	PASS	Atlas-SNP
ADAMTS4	9507	hgsc.bcm.edu	37	1	161168004	161168004	+	Silent	SNP	C	C	T	rs33941127	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	72	95	0	0.699029	0	C|0.720;T|0.280	0.280	strong	.	ADAMTS4	171	.	NM_005099	exon1	c.G414A	p.S138S	TGCCACCGACTCC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179606538	179606538	+	Missense_Mutation	SNP	G	G	A	rs2627037	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	26	85	0	0.295455	0	G|0.778;A|0.222	0.222	strong	.	TTN	18412	.	NM_001267550	exon48	c.C11422T	p.P3808S	TAGTTGGGTAAAC	.	PASS	Atlas-SNP
PLBD2	196463	hgsc.bcm.edu	37	12	113825679	113825679	+	Missense_Mutation	SNP	C	C	T	rs12425042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	47	87	0	0.494737	0	C|0.896;T|0.104	0.104	strong	.	PLBD2	33	.	NM_173542	exon11	c.C1570T	p.R524C	GCCCTGCGTCAGC	.	PASS	Atlas-SNP
GPR87	53836	hgsc.bcm.edu	37	3	151012639	151012639	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	2	54	0	0.0322581	0	.	.	none	GPR87,NS,carcinoma,+1,1	GPR87	52	1	NM_023915	exon3	c.T395C	p.L132P	AGCCCAAGGAACA	.	scavenged	Atlas-SNP
RDH8	50700	hgsc.bcm.edu	37	19	10132290	10132290	+	Silent	SNP	C	C	T	rs747574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	72	0	0.523077	0	C|0.835;T|0.165	0.165	strong	.	RDH8	51	.	NM_015725	exon6	c.C861T	p.L287L	CACGCTCAAAACC	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4510560	4510560	+	Missense_Mutation	SNP	C	C	T	rs7251858	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	52	86	0	0.590909	0	C|0.660;T|0.340	0.340	strong	PLIN4_ENST00000301286,NS,carcinoma,0,2	PLIN4	191	2	NM_001080400	exon3	c.G3370A	p.A1124T	TGGTGGCCAAAAG	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241404317	241404317	+	Silent	SNP	C	C	T	rs2229458	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	107	80	0	1	0	C|0.493;T|0.507	0.507	strong	GPC1,NS,carcinoma,0,1	GPC1	32	1	NM_002081	exon6	c.C1059T	p.P353P	GGGCCCCGGGCCT	.	PASS	Atlas-SNP
PDCD11	22984	hgsc.bcm.edu	37	10	105177645	105177645	+	Missense_Mutation	SNP	G	G	T	rs11598673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	90	0	1	0	G|0.954;T|0.046	0.046	strong	.	PDCD11	160	.	NM_014976	exon14	c.G1867T	p.A623S	GAGCCTGCAGGAC	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86123170	86123170	+	Missense_Mutation	SNP	G	G	T	rs745191	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	93	116	0	1	0	G|0.813;T|0.187	0.187	strong	.	AKAP13	394	.	NM_007200	exon7	c.G1871T	p.G624V	TTCTTGGGCTGGA	.	PASS	Atlas-SNP
HPS5	11234	hgsc.bcm.edu	37	11	18319180	18319180	+	Missense_Mutation	SNP	G	G	T	rs7128017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	42	90	0	0.506024	0	G|0.868;T|0.132	0.132	strong	HPS5,NS,carcinoma,0,1	HPS5	70	1	NM_181507	exon11	c.C1249A	p.L417M	CTTCCAGTTGAGA	.	PASS	Atlas-SNP
SLC36A2	153201	hgsc.bcm.edu	37	5	150696496	150696496	+	Missense_Mutation	SNP	G	G	A	rs10042608	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	51	101	0	0.586207	0	G|0.928;A|0.072	0.072	strong	.	SLC36A2	71	.	NM_181776	exon10	c.C1334T	p.A445V	ATCAGGGCGTCCT	.	PASS	Atlas-SNP
PTPRJ	5795	hgsc.bcm.edu	37	11	48145375	48145375	+	Missense_Mutation	SNP	A	A	C	rs1566734	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	30	86	0	0.352941	0	C|0.161;N|0.000	0.161	strong	PTPRJ_ENST00000418331,NS,carcinoma,0,2	PTPRJ	225	2	NM_001098503	exon5	c.A827C	p.Q276P	TTCTACAATCAAA	.	PASS	Atlas-SNP
DPY19L1	23333	hgsc.bcm.edu	37	7	34979905	34979905	+	Missense_Mutation	SNP	C	C	A	rs1637696	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	54	51	0	0.692308	0	C|0.758;A|0.242	0.242	strong	.	DPY19L1	56	.	NM_015283	exon19	c.G1505T	p.G502V	ATAGCACCAGGAT	.	PASS	Atlas-SNP
TFR2	7036	hgsc.bcm.edu	37	7	100225031	100225031	+	Silent	SNP	G	G	A	rs2075674	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	18	19	0	0.529412	0	G|0.856;A|0.144	0.144	strong	.	TFR2	53	.	NM_003227	exon16	c.C1851T	p.A617A	GGCCACGGCGGGC	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497914	32497914	+	Missense_Mutation	SNP	C	C	T	rs76748970	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	61	153	0	0.396104	0	C|0.842;T|0.158	0.158	strong	.	HLA-DRB5	31	.	NM_002125	exon1	c.G88A	p.G30R	TGTCCCCAGCCAA	.	PASS	Atlas-SNP
UMOD	7369	hgsc.bcm.edu	37	16	20359633	20359633	+	Silent	SNP	C	C	T	rs28544423	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	31	49	0	0.584906	0	C|0.858;T|0.142	0.142	strong	.	UMOD	128	.	NM_003361	exon4	c.G885A	p.G295G	ACACGTCCCCTCC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239776	31239776	+	Missense_Mutation	SNP	A	A	C	rs2074493	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	34	54	0	0.435897	0	A|0.719;C|0.281	0.281	strong	.	HLA-C	92	.	NM_002117	exon1	c.T73G	p.C25G	ACTCACAGGCCCA	.	PASS	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	37	6	169637763	169637763	+	Silent	SNP	G	G	C	rs9766671	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	50	86	0	0.595238	0	G|0.786;C|0.214	0.214	strong	THBS2,NS,carcinoma,0,1	THBS2	230	1	NM_003247	exon9	c.C1257G	p.S419S	CTGGATGGAGGGC	.	PASS	Atlas-SNP
CACNA1E	777	hgsc.bcm.edu	37	1	181759657	181759657	+	Missense_Mutation	SNP	G	G	A	rs704326	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	94	111	0	0.549708	0	G|0.652;T|0.008	.	strong	.	CACNA1E	778	.	NM_001205293	exon44	c.G5863A	p.A1955T	GACCCCGCCGATG	.	PASS	Atlas-SNP
KIAA0754	643314	hgsc.bcm.edu	37	1	39879366	39879366	+	Silent	SNP	T	T	C	rs604316	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	51	73	0	0.485714	0	T|0.605;C|0.395	0.395	strong	.	KIAA0754	93	.	NM_015038	exon1	c.T3429C	p.P1143P	GGAGCCTGCCTTC	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24813282	24813282	+	Silent	SNP	G	G	C	rs2297329	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	18	43	0	0.6	0	G|0.889;C|0.111	0.111	strong	.	KIAA1217	235	.	NM_019590	exon13	c.G2487C	p.T829T	AGGCACGGACGCA	.	PASS	Atlas-SNP
HECTD1	25831	hgsc.bcm.edu	37	14	31647241	31647241	+	Silent	SNP	G	G	A	rs2274201	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	68	91	0	1	0	G|0.486;A|0.514	0.514	strong	.	HECTD1	159	.	NM_015382	exon3	c.C360T	p.A120A	CTGTTCGGCTAAG	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18300594	18300594	+	Silent	SNP	G	G	A	rs11704160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	65	64	0	0.613208	0	G|0.811;A|0.189	0.189	strong	.	MICAL3	53	.	NM_015241	exon26	c.C4833T	p.D1611D	CATGGCGTCCCGC	.	PASS	Atlas-SNP
UNC45B	146862	hgsc.bcm.edu	37	17	33513337	33513337	+	Missense_Mutation	SNP	T	T	A	rs11654824	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	24	69	0	0.328767	0	T|0.948;A|0.052	0.052	strong	.	UNC45B	133	.	NM_173167	exon20	c.T2555A	p.I852N	TGGAGATCCTCCA	.	PASS	Atlas-SNP
AGBL4	84871	hgsc.bcm.edu	37	1	49511424	49511424	+	Silent	SNP	A	A	G	rs3934240	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	48	100	0	0.5	0	A|0.796;G|0.204	0.204	strong	AGBL4,NS,carcinoma,0,1	AGBL4	54	1	NM_032785	exon5	c.T426C	p.H142H	CTTCCTATGGTCC	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62676091	62676091	+	Missense_Mutation	SNP	C	C	A	rs11207933	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	41	74	0	0.594203	0	C|0.857;A|0.143	0.143	strong	.	L1TD1	114	.	NM_001164835	exon5	c.C1645A	p.P549T	GGCACACCCTGTC	.	PASS	Atlas-SNP
SAMD4A	23034	hgsc.bcm.edu	37	14	55243209	55243209	+	Silent	SNP	G	G	A	rs1951438	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	26	33	0	0.764706	0	G|0.970;A|0.030	0.030	strong	.	SAMD4A	68	.	NM_015589	exon10	c.G1995A	p.S665S	CCGCTCGCTGCCC	.	PASS	Atlas-SNP
TRIM56	81844	hgsc.bcm.edu	37	7	100731184	100731184	+	Silent	SNP	C	C	T	rs36064566	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	16	38	0	0.410256	0	C|0.964;T|0.036	0.036	strong	.	TRIM56	123	.	NM_030961	exon3	c.C591T	p.H197H	CCCCCACCTGGAC	.	PASS	Atlas-SNP
SLC24A3	57419	hgsc.bcm.edu	37	20	19261623	19261623	+	Missense_Mutation	SNP	G	G	A	rs1569767	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	57	93	0	0.425373	0	G|0.578;A|0.422	0.422	strong	.	SLC24A3	92	.	NM_020689	exon2	c.G163A	p.V55I	GACCTCGTAGGGG	.	PASS	Atlas-SNP
TOX3	27324	hgsc.bcm.edu	37	16	52478215	52478215	+	Silent	SNP	C	C	T	rs3743797	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	36	57	0	0.439024	0	C|0.891;T|0.109	0.109	strong	TOX3_ENST00000407228,NS,carcinoma,0,3	TOX3	121	3	NM_001080430	exon6	c.G960A	p.A320A	GTATGCCGCCAGG	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	117033022	117033022	+	Silent	SNP	T	T	C	rs4143245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	56	115	0	0.486957	0	T|0.601;C|0.399	0.399	strong	.	COL27A1	200	.	NM_032888	exon36	c.T3570C	p.L1190L	AGGCCTTGAGGGT	.	PASS	Atlas-SNP
KLHL25	64410	hgsc.bcm.edu	37	15	86311695	86311695	+	Silent	SNP	G	G	A	rs1978391	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	24	50	0	0.461538	0	G|0.822;A|0.178	0.178	strong	.	KLHL25	58	.	NM_022480	exon2	c.C1347T	p.F449F	TCCTCCGAAAACA	.	PASS	Atlas-SNP
ZSCAN5A	79149	hgsc.bcm.edu	37	19	56735015	56735015	+	Silent	SNP	T	T	C	rs4801692	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	26	52	0	0.541667	0	T|0.937;C|0.063	0.063	strong	.	ZSCAN5A	118	.	NM_024303	exon3	c.A573G	p.A191A	GGACAATGCAGGG	.	PASS	Atlas-SNP
IMMP1L	196294	hgsc.bcm.edu	37	11	31482246	31482246	+	Missense_Mutation	SNP	T	T	C	rs370083551		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	228	111	220	0	0.486842	0	.	.	weak	.	IMMP1L	16	.	NM_144981	exon4	c.A121G	p.M41V	GCTCCATTGATGG	.	PASS	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103082558	103082558	+	Silent	SNP	A	A	G	rs17394217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	36	55	0	0.553846	0	A|0.913;G|0.087	0.087	strong	.	DYNC2H1	246	.	NM_001377	exon54	c.A8580G	p.E2860E	CCATGAATCTTGT	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	37	12	101767224	101767224	+	Silent	SNP	C	C	T	rs112278934	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	35	84	0	0.460526	0	C|0.998;T|0.002	0.002	strong	.	UTP20	222	.	NM_014503	exon53	c.C6924T	p.A2308A	GATCGCCTATCTC	.	PASS	Atlas-SNP
RBMS3	27303	hgsc.bcm.edu	37	3	30032626	30032626	+	Silent	SNP	C	C	G	rs114278295	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	196	112	186	0	0.571429	0	C|0.982;G|0.018	0.018	strong	.	RBMS3	62	.	NM_001003793	exon14	c.C1233G	p.T411T	GGACACCAGTGGT	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50141345	50141345	+	Missense_Mutation	SNP	G	G	A	rs4942848	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	41	87	0	0.554054	0	G|0.431;A|0.568	0.568	strong	.	RCBTB1	34	.	NM_018191	exon3	c.C71T	p.A24V	ACACACGCCTTCC	.	PASS	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37603390	37603390	+	Silent	SNP	C	C	T	rs86582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	37	43	0	0.616667	0	C|0.663;T|0.337	0.337	strong	.	SSTR3	42	.	NM_001051	exon2	c.G453A	p.S151S	GCGGGCCGAGCGG	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39138712	39138712	+	Silent	SNP	G	G	A	rs4243257	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	13	34	0	0.448276	0	G|0.652;A|0.348	0.348	strong	.	KRT40	27	.	NM_182497	exon5	c.C534T	p.Y178Y	ACTCTCGTACCTT	.	PASS	Atlas-SNP
MRTO4	51154	hgsc.bcm.edu	37	1	19584004	19584004	+	Silent	SNP	G	G	A	rs1042380	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	15	37	0	0.517241	0	G|0.711;A|0.289	0.289	strong	.	MRTO4	17	.	NM_016183	exon5	c.G330A	p.E110E	AAAGGAGGAGGTG	.	PASS	Atlas-SNP
B4GALT3	8703	hgsc.bcm.edu	37	1	161145005	161145005	+	Silent	SNP	C	C	T	rs3813620	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	23	62	0	0.377049	0	C|0.918;T|0.082	0.082	strong	.	B4GALT3	39	.	NM_003779	exon4	c.G267A	p.S89S	GGACACCGACACA	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79030045	79030045	+	Silent	SNP	A	A	G	rs4639193	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	46	81	0	0.567901	0	A|0.395;G|0.605	0.605	strong	.	CMYA5	643	.	NM_153610	exon2	c.A5457G	p.V1819V	CCTTGTAGAACAA	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	7011719	7011719	+	Missense_Mutation	SNP	T	T	C	rs34369202	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	39	109	0	0.386139	0	T|0.999;C|0.001	0.001	strong	.	KDM4C	186	.	NM_001146696	exon13	c.T1874C	p.I625T	TGTCCATTGAGGA	.	PASS	Atlas-SNP
GEMIN6	79833	hgsc.bcm.edu	37	2	39008949	39008949	+	Missense_Mutation	SNP	G	G	A	rs1056104	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	52	89	0	0.525253	0	G|0.901;A|0.099	0.099	strong	.	GEMIN6	13	.	NM_024775	exon3	c.G419A	p.G140D	CATATGGTCCAGA	.	PASS	Atlas-SNP
FASTKD1	79675	hgsc.bcm.edu	37	2	170411698	170411698	+	Missense_Mutation	SNP	C	C	G	rs12618227	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	18	52	0	0.409091	0	C|0.969;G|0.031	0.031	strong	FASTKD1,colon,carcinoma,0,1	FASTKD1	86	1	NM_024622	exon7	c.G1150C	p.E384Q	TTAATTCTTGAGT	.	PASS	Atlas-SNP
UQCRHL	0	hgsc.bcm.edu	37	1	16133987	16133987	+	Missense_Mutation	SNP	T	T	C	rs7417535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	87	134	0	0.524096	0	T|0.874;C|0.126	0.126	strong	.	.	.	.	NM_001089591	exon1	c.A158G	p.Y53C	TCATCATAGAGCT	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55533805	55533805	+	Silent	SNP	G	G	T	rs144293929	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	27	56	0	0.627907	0	G|0.998;T|0.002	0.002	strong	.	RP1	429	.	NM_006269	exon2	c.G279T	p.T93T	CATCACGCGCCTG	.	PASS	Atlas-SNP
GOLGA3	2802	hgsc.bcm.edu	37	12	133393323	133393323	+	Missense_Mutation	SNP	C	C	T	rs2291256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	49	102	0	0.49	0	C|0.932;T|0.068	0.068	strong	.	GOLGA3	234	.	NM_001172557	exon3	c.G209A	p.G70E	GTTGGCCCGTTCT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092953	1092953	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	5	37	1	0.128205	0.027027	.	.	none	MUC2_ENST00000441003,rectum,carcinoma,-1,4	MUC2	614	4	NM_002457	exon30	c.C4772T	p.T1591M	CCACTACGGTGAC	.	scavenged	Atlas-SNP
OCA2	4948	hgsc.bcm.edu	37	15	28117060	28117060	+	Silent	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	6	52	0	0.166667	0	.	.	none	.	OCA2	173	.	NM_000275	exon20	c.A2088T	p.A696A	GAGATGTGCCAAT	.	PASS	Atlas-SNP
TRPM5	29850	hgsc.bcm.edu	37	11	2436464	2436464	+	Missense_Mutation	SNP	C	C	T	rs34551253	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	5	3	0	0.5	0	C|0.983;T|0.017	0.017	strong	.	TRPM5	86	.	NM_014555	exon9	c.G1366A	p.A456T	GCCCCGCGGGTGG	.	PASS	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	37	1	46493460	46493460	+	Missense_Mutation	SNP	T	T	G	rs1707336	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	90	133	0	1	0	G|0.474;N|0.000	0.474	strong	.	MAST2	136	.	NM_015112	exon17	c.T1977G	p.I659M	CAAAATTGGCCTC	.	PASS	Atlas-SNP
CCDC6	8030	hgsc.bcm.edu	37	10	61665886	61665886	+	Silent	SNP	C	C	A	rs1171830	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	21	31	0	0.552632	0	C|0.638;A|0.362	0.362	strong	.	CCDC6	44	.	NM_005436	exon1	c.G297T	p.V99V	GATGGTCACGCTG	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33359370	33359370	+	Missense_Mutation	SNP	C	C	T	rs11072170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	32	72	0	0.484848	0	C|0.730;T|0.270	0.270	strong	FMN1_ENST00000334528,NS,carcinoma,0,1	FMN1	174	1	NM_001103184	exon1	c.G716A	p.G239E	TGGGACCCTTCTT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276626	152276626	+	Missense_Mutation	SNP	G	G	C	rs3126075	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	44	240	1	0.260355	0.00416667	G|0.716;C|0.284	0.284	strong	FLG,colon,carcinoma,-1,1	FLG	900	1	NM_002016	exon3	c.C10736G	p.T3579R	TGGGACGTGGGGT	.	scavenged	Atlas-SNP
OR51G1	79324	hgsc.bcm.edu	37	11	4945196	4945196	+	Missense_Mutation	SNP	T	T	G	rs1378739	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	40	47	0	1	0	T|0.355;G|0.645	0.645	strong	.	OR51G1	74	.	NM_001005237	exon1	c.A374C	p.Y125S	GCCACGTAGCGGT	.	PASS	Atlas-SNP
CDC16	8881	hgsc.bcm.edu	37	13	115004914	115004914	+	Silent	SNP	C	C	T	rs2296971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	24	45	0	0.413793	0	C|0.562;T|0.438	0.438	strong	.	CDC16	50	.	NM_003903	exon5	c.C330T	p.D110D	GAAGGACGAAAGT	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9307138	9307138	+	Silent	SNP	T	T	C	rs11121350	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	50	106	0	0.485437	0	T|0.725;C|0.275	0.275	strong	.	H6PD	71	.	NM_004285	exon3	c.T741C	p.A247A	GGATGCTGAAGGT	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24833137	24833137	+	Silent	SNP	C	C	T	rs2250411	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	70	0	1	0	C|0.698;T|0.302	0.302	strong	.	KIAA1217	235	.	NM_019590	exon19	c.C4938T	p.I1646I	CAGCATCGAGAGT	.	PASS	Atlas-SNP
FUT7	2529	hgsc.bcm.edu	37	9	139925927	139925927	+	Silent	SNP	G	G	C	rs1139444	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	26	25	0	0.509804	0	G|0.916;C|0.084	0.084	strong	.	FUT7	24	.	NM_004479	exon2	c.C264G	p.A88A	GGCGTCGGCGCTG	.	PASS	Atlas-SNP
NCOA3	8202	hgsc.bcm.edu	37	20	46264888	46264888	+	Missense_Mutation	SNP	G	G	C	rs2230782	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	56	113	0	0.459016	0	G|0.934;C|0.066	0.066	strong	.	NCOA3	156	.	NM_001174088	exon12	c.G1788C	p.Q596H	GTGTCAGTCAAAT	.	PASS	Atlas-SNP
ANKMY2	57037	hgsc.bcm.edu	37	7	16666759	16666759	+	Silent	SNP	G	G	C	rs11531477	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	82	71	0	1	0	G|0.823;C|0.177	0.177	strong	.	ANKMY2	46	.	NM_020319	exon3	c.C177G	p.L59L	CATATCGAGTTTT	.	PASS	Atlas-SNP
PROKR1	10887	hgsc.bcm.edu	37	2	68873071	68873071	+	Missense_Mutation	SNP	A	A	G	rs7570797	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	229	115	226	0	0.502183	0	A|0.839;G|0.161	0.161	strong	.	PROKR1	69	.	NM_138964	exon1	c.A118G	p.S40G	AGCTACAGCGACT	.	PASS	Atlas-SNP
SCAPER	49855	hgsc.bcm.edu	37	15	77176158	77176158	+	Missense_Mutation	SNP	T	T	C	rs3812908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	131	127	0	1	0	T|0.628;C|0.372	0.372	strong	.	SCAPER	160	.	NM_020843	exon1	c.A1G	p.M1V	CCATCATTCTTTA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62200576	62200576	+	Missense_Mutation	SNP	G	G	A	rs6090457	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	16	26	0	0.470588	0	G|0.840;A|0.160	0.160	strong	.	.	.	.	NM_001037335	exon5	c.C1013T	p.S338L	GTTGGTGAGATGG	.	PASS	Atlas-SNP
TXNDC5	81567	hgsc.bcm.edu	37	6	7910865	7910865	+	Missense_Mutation	SNP	G	G	A	rs183777097	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	11	7	7	0	0.636364	0	G|0.966;A|0.034	0.034	strong	.	TXNDC5	33	.	NM_030810	exon1	c.C145T	p.P49S	CGGGGGGCCCGTC	.	PASS	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602605	5602605	+	Missense_Mutation	SNP	G	G	A	rs2341433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	73	75	0	0.960526	0	G|0.494;A|0.506	0.506	strong	.	OR52B6	37	.	NM_001005162	exon1	c.G499A	p.A167T	ACTGCCGCCCTGA	.	PASS	Atlas-SNP
ZNF93	81931	hgsc.bcm.edu	37	19	20044041	20044041	+	Missense_Mutation	SNP	G	G	T	rs12151060	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	97	86	0	1	0	G|0.821;T|0.179	0.179	strong	.	ZNF93	81	.	NM_031218	exon4	c.G277T	p.D93Y	ATAAAAGATTCTT	.	PASS	Atlas-SNP
TDGF1	6997	hgsc.bcm.edu	37	3	46620614	46620614	+	Missense_Mutation	SNP	T	T	C	rs11130097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	196	169	0	0.994924	0	T|0.504;C|0.496	0.496	strong	TDGF1,NS,carcinoma,-1,1	TDGF1	17	1	NM_003212	exon2	c.T65C	p.V22A	CTAAAGTCTTTGA	.	PASS	Atlas-SNP
ZNF777	27153	hgsc.bcm.edu	37	7	149153057	149153057	+	Silent	SNP	G	G	C	rs73166027	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	44	113	0	0.5	0	G|0.961;C|0.039	0.039	strong	.	ZNF777	63	.	NM_015694	exon2	c.C57G	p.T19T	ACGTAAGGTTTCT	.	PASS	Atlas-SNP
PCDHB7	56129	hgsc.bcm.edu	37	5	140554562	140554562	+	Missense_Mutation	SNP	A	A	T	rs2910314	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	36	127	0	0.404494	0	A|0.899;T|0.101	0.101	strong	.	PCDHB7	231	.	NM_018940	exon1	c.A2146T	p.R716W	AGGAGCAGGGCGG	.	PASS	Atlas-SNP
ZBTB40	9923	hgsc.bcm.edu	37	1	22835677	22835677	+	Missense_Mutation	SNP	A	A	G	rs209729	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	131	118	1	1	0.00847458	G|0.812;N|0.000	0.812	strong	.	ZBTB40	87	.	NM_001083621	exon10	c.A1784G	p.Y595C	TTGAGTACAAGCT	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46911188	46911188	+	Missense_Mutation	SNP	C	C	G	rs79980197	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	80	181	0	0.473373	0	C|0.938;G|0.062	0.062	strong	.	COL18A1	129	.	NM_030582	exon21	c.C2657G	p.P886R	GCCCCCCCGGACC	.	PASS	Atlas-SNP
LSG1	55341	hgsc.bcm.edu	37	3	194387300	194387300	+	Silent	SNP	C	C	T	rs1675943	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	44	76	0	0.594595	0	C|0.573;T|0.427	0.427	strong	.	LSG1	38	.	NM_018385	exon3	c.G228A	p.E76E	AAGTTTCTCTGTT	.	PASS	Atlas-SNP
CLSTN1	22883	hgsc.bcm.edu	37	1	9804693	9804693	+	Missense_Mutation	SNP	C	C	T	rs7550295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	18	31	0	0.580645	0	C|0.864;T|0.136	0.136	strong	.	CLSTN1	88	.	NM_001009566	exon8	c.G994A	p.A332T	TGCCCGCGGCCGC	.	PASS	Atlas-SNP
TINAG	27283	hgsc.bcm.edu	37	6	54219326	54219326	+	Missense_Mutation	SNP	G	G	A	rs3195579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	108	0	0.506667	0	A|0.135;C|0.000;G|0.865	0.135	strong	TINAG,mucosal,malignant_melanoma,+1,1	TINAG	102	1	NM_014464	exon9	c.G1142A	p.R381H	AAGTCCGTGAAGA	.	PASS	Atlas-SNP
PWP2	5822	hgsc.bcm.edu	37	21	45540919	45540919	+	Silent	SNP	A	A	G	rs2071143	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	52	95	0	0.509804	0	A|0.362;G|0.638	0.638	strong	.	PWP2	64	.	NM_005049	exon13	c.A1572G	p.T524T	CAAGACAGTGCGC	.	PASS	Atlas-SNP
APBB2	323	hgsc.bcm.edu	37	4	41015742	41015742	+	Silent	SNP	T	T	C	rs11942640	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	289	134	290	0	0.463668	0	T|0.953;C|0.047	0.047	strong	.	APBB2	61	.	NM_173075	exon6	c.A693G	p.E231E	CTTGGTTTCTGGG	.	PASS	Atlas-SNP
DACT1	51339	hgsc.bcm.edu	37	14	59112732	59112732	+	Missense_Mutation	SNP	C	C	T	rs17832998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	15	24	0	1	0	C|0.713;T|0.287	0.287	strong	.	DACT1	119	.	NM_016651	exon4	c.C1391T	p.A464V	AACATGCTCGGTG	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	129189702	129189702	+	Missense_Mutation	SNP	C	C	G	rs12426596	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	22	39	0	0.5	0	C|0.942;G|0.058	0.058	strong	.	TMEM132C	142	.	NM_001136103	exon9	c.C2189G	p.T730S	ACGACACCAAGGA	.	PASS	Atlas-SNP
FAM184A	79632	hgsc.bcm.edu	37	6	119327632	119327632	+	Missense_Mutation	SNP	C	C	T	rs17827619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	111	0	0.511628	0	C|0.913;T|0.087	0.087	strong	.	FAM184A	109	.	NM_024581	exon7	c.G1795A	p.D599N	GAGCATCCTTGGT	.	PASS	Atlas-SNP
ARHGEF18	23370	hgsc.bcm.edu	37	19	7504982	7504982	+	Silent	SNP	C	C	T	rs10422503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	51	17	0	1	0	C|0.677;T|0.323	0.323	strong	ARHGEF18_ENST00000359920,colon,carcinoma,0,2	ARHGEF18	129	2	NM_001130955	exon1	c.C156T	p.G52G	CCCGGGCGCGAAC	.	PASS	Atlas-SNP
LDLRAD3	143458	hgsc.bcm.edu	37	11	36103228	36103228	+	Silent	SNP	A	A	G	rs1138807	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	69	107	0	0.6	0	G|0.359;N|0.000	0.359	strong	.	LDLRAD3	52	.	NM_174902	exon3	c.A219G	p.P73P	TGGCCCAACCTTC	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241402836	241402836	+	Missense_Mutation	SNP	G	G	A	rs150681136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	89	147	0	0.5	0	G|0.981;A|0.019	0.019	strong	.	GPC1	32	.	NM_002081	exon4	c.G790A	p.G264S	GTCCCCGGCGCCA	.	PASS	Atlas-SNP
SLC7A2	6542	hgsc.bcm.edu	37	8	17396415	17396415	+	Missense_Mutation	SNP	G	G	C	rs13259978	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	40	60	0	0.597015	0	A|0.011;C|0.200;G|0.789	0.200	strong	.	SLC7A2	157	.	NM_001164771	exon1	c.G82C	p.D28H	GTTTGCGACAGCA	.	PASS	Atlas-SNP
C17orf80	55028	hgsc.bcm.edu	37	17	71239087	71239087	+	Silent	SNP	G	G	T	rs1566290	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	48	83	1	0.527473	0.0120482	G|0.750;T|0.250	0.250	strong	C17orf80,colon,carcinoma,+1,2	C17orf80	37	2	NM_017941	exon5	c.G1674T	p.T558T	CATCACGATGCTC	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281534	152281534	+	Missense_Mutation	SNP	A	A	T	rs113544881	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	398	122	172	0	0.306533	0	A|0.949;T|0.051	0.051	strong	.	FLG	900	.	NM_002016	exon3	c.T5828A	p.L1943H	GATCCAAGATGGT	.	PASS	Atlas-SNP
PIK3C2A	5286	hgsc.bcm.edu	37	11	17118730	17118730	+	Silent	SNP	A	A	G	rs113662142	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	19	58	0	0.345455	0	A|0.992;G|0.008	0.008	strong	.	PIK3C2A	148	.	NM_002645	exon26	c.T4200C	p.G1400G	AGGAAGACCAGAA	.	PASS	Atlas-SNP
VN1R1	57191	hgsc.bcm.edu	37	19	57967133	57967133	+	Missense_Mutation	SNP	G	G	A	rs28649880	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	103	187	1	0.522843	0.00534759	G|0.674;A|0.326	0.326	strong	VN1R1,NS,adenoma,0,1	VN1R1	48	1	NM_020633	exon1	c.C722T	p.S241F	ACCATGGAGCCAC	.	scavenged	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	37	21	42064785	42064785	+	Silent	SNP	C	C	T	rs79669041	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	33	49	0	0.532258	0	C|0.993;T|0.007	0.007	strong	.	DSCAM	347	.	NM_001271534	exon3	c.G459A	p.A153A	GATGTACGCCTCC	.	PASS	Atlas-SNP
ATXN7	6314	hgsc.bcm.edu	37	3	63981635	63981635	+	Silent	SNP	C	C	T	rs3733125	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	29	63	0	0.42029	0	C|0.892;T|0.108	0.108	strong	ATXN7,NS,carcinoma,0,1	ATXN7	126	1	NM_000333	exon12	c.C2137T	p.L713L	TCCCCACTGTTGG	.	PASS	Atlas-SNP
HERC3	8916	hgsc.bcm.edu	37	4	89607905	89607905	+	Silent	SNP	A	A	G	rs3737488	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	116	102	0	0.991453	0	A|0.874;G|0.126	0.126	strong	.	HERC3	82	.	NM_014606	exon22	c.A2526G	p.L842L	GCTTTTAGATTAC	.	PASS	Atlas-SNP
CECR1	51816	hgsc.bcm.edu	37	22	17690430	17690430	+	Silent	SNP	C	C	G	rs7289141	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	64	103	0	0.507937	0	C|0.869;G|0.131	0.131	strong	CECR1,NS,carcinoma,0,1	CECR1	77	1	NM_017424	exon1	c.G138C	p.L46L	CCCCCCCAGCCGC	.	PASS	Atlas-SNP
BCAS1	8537	hgsc.bcm.edu	37	20	52561469	52561469	+	Missense_Mutation	SNP	A	A	G	rs1055246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	48	110	0	0.527473	0	T|0.006;G|0.117	0.117	strong	BCAS1,NS,carcinoma,0,1	BCAS1	77	1	NM_003657	exon12	c.T1747C	p.S583P	ACTTGGATTTGCC	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78354661	78354661	+	Silent	SNP	C	C	T	rs4889848	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	18	64	0	0.352941	0	C|0.163;T|0.837	0.837	strong	.	RNF213	766	.	NM_001256071	exon56	c.C13671T	p.H4557H	CGGCCACGTGCTG	.	PASS	Atlas-SNP
NPVF	64111	hgsc.bcm.edu	37	7	25266400	25266400	+	Silent	SNP	G	G	A	rs2717851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	305	186	172	0	0.609836	0	G|0.702;A|0.298	0.298	strong	.	NPVF	36	.	NM_022150	exon2	c.C384T	p.P128P	CCTTTGGGGCAGG	.	PASS	Atlas-SNP
ZNF468	90333	hgsc.bcm.edu	37	19	53344701	53344701	+	Silent	SNP	A	A	G	rs10420793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	18	35	0	0.529412	0	A|0.649;G|0.351	0.351	strong	ZNF468,NS,carcinoma,0,1	ZNF468	46	1	NM_001008801	exon4	c.T846C	p.H282H	TGAATTATGACCA	.	PASS	Atlas-SNP
ZBP1	81030	hgsc.bcm.edu	37	20	56191475	56191475	+	Silent	SNP	C	C	T	rs16981188	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	54	82	0	0.457627	0	C|0.967;T|0.033	0.033	strong	.	ZBP1	65	.	NM_001160419	exon2	c.G84A	p.P28P	TTTCACCGGGGAG	.	PASS	Atlas-SNP
LGMN	5641	hgsc.bcm.edu	37	14	93170993	93170993	+	Silent	SNP	C	C	T	rs9791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	56	107	0	0.466667	0	C|0.681;T|0.319	0.319	strong	.	LGMN	28	.	NM_005606	exon13	c.G1251A	p.P417P	GTGAAGCGGATAC	.	PASS	Atlas-SNP
ZBTB3	79842	hgsc.bcm.edu	37	11	62519565	62519565	+	Missense_Mutation	SNP	G	G	C	rs544641	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	19	33	0	0.513514	0	G|0.908;C|0.092	0.092	strong	.	ZBTB3	47	.	NM_024784	exon2	c.C1722G	p.I574M	CCCTTAGATGTTA	.	PASS	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18221010	18221010	+	Missense_Mutation	SNP	A	A	G	rs12449313	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	72	74	0	0.986301	0	A|0.770;G|0.229	0.229	strong	.	SMCR8	62	.	NM_144775	exon1	c.A1907G	p.N636S	ATGCCAACCCTTC	.	PASS	Atlas-SNP
NLRC5	84166	hgsc.bcm.edu	37	16	57060724	57060724	+	Silent	SNP	G	G	A	rs13339199	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	71	100	0	0.470199	0	G|0.895;A|0.105	0.105	strong	.	NLRC5	186	.	NM_032206	exon5	c.G1869A	p.Q623Q	GACACAGGAGCCT	.	PASS	Atlas-SNP
KATNAL2	83473	hgsc.bcm.edu	37	18	44626630	44626630	+	Silent	SNP	T	T	G	rs2289130	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	24	42	0	0.375	0	T|0.929;G|0.071	0.071	strong	.	KATNAL2	64	.	NM_031303	exon14	c.T1164G	p.T388T	GGAGACTGAGGGC	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42363012	42363012	+	Missense_Mutation	SNP	G	G	C	rs17690899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	36	69	0	0.5	0	G|0.931;C|0.069	0.069	strong	.	PLA2G4D	72	.	NM_178034	exon18	c.C1946G	p.A649G	AAGTAGGCGGCGT	.	PASS	Atlas-SNP
KRTAP17-1	83902	hgsc.bcm.edu	37	17	39471778	39471778	+	Missense_Mutation	SNP	C	C	T	rs78413710	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	23	33	0	0.5	0	C|0.818;T|0.182	0.182	strong	.	KRTAP17-1	14	.	NM_031964	exon1	c.G125A	p.G42D	CCGCAGCCAGAGC	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20859205	20859205	+	Silent	SNP	C	C	T	rs872074	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	49	82	1	0.576471	0.0121951	C|0.822;T|0.178	0.178	strong	TEP1,rectum,carcinoma,0,2	TEP1	224	2	NM_007110	exon14	c.G2148A	p.A716A	CTGCTCCGCCCTC	.	scavenged	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80936026	80936026	+	Missense_Mutation	SNP	A	A	G	rs17713202	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	44	93	0	0.463158	0	A|0.871;G|0.129	0.129	strong	.	PTPRQ	119	.	NM_001145026	exon19	c.A3088G	p.N1030D	TCTGATAATTACA	.	PASS	Atlas-SNP
CDH13	1012	hgsc.bcm.edu	37	16	83065664	83065664	+	Silent	SNP	G	G	A	rs6565105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	40	99	0	0.408163	0	A|0.532;C|0.000;G|0.467	0.532	strong	.	CDH13	97	.	NM_001220488	exon4	c.G348A	p.S116S	GGTCTCGAGCCCA	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108617	55108617	+	Missense_Mutation	SNP	C	C	A	rs3209183	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	107	187	0	0.560209	0	C|0.297;A|0.703	0.703	strong	.	.	.	.	NM_001013646	exon1	c.C220A	p.Q74K	ATACTGCAGTGTC	.	PASS	Atlas-SNP
TRIB3	57761	hgsc.bcm.edu	37	20	368905	368905	+	Missense_Mutation	SNP	A	A	G	rs2295490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	23	39	0	0.511111	0	A|0.840;G|0.160	0.160	strong	.	TRIB3	50	.	NM_021158	exon2	c.A251G	p.Q84R	CCTACCAGGCCCT	.	PASS	Atlas-SNP
PIGS	94005	hgsc.bcm.edu	37	17	26888506	26888506	+	Missense_Mutation	SNP	G	G	C	rs140545278	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	55	106	0	0.495495	0	G|0.999;C|0.001	0.001	strong	.	PIGS	42	.	NM_033198	exon6	c.C610G	p.L204V	CAGCCAGAGCAGC	.	PASS	Atlas-SNP
ITGB3	3690	hgsc.bcm.edu	37	17	45364540	45364540	+	Silent	SNP	T	T	C	rs5919	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	25	59	0	0.367647	0	T|0.878;C|0.122	0.122	strong	.	ITGB3	157	.	NM_000212	exon6	c.T882C	p.P294P	CCAGCCTAATGAC	.	PASS	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	37	5	56178217	56178217	+	Silent	SNP	A	A	C	rs832583	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	32	88	0	0.438356	0	A|0.275;C|0.725	0.725	strong	.	MAP3K1	355	.	NM_005921	exon14	c.A3190C	p.R1064R	CCATCTAGACCTA	.	PASS	Atlas-SNP
TTC14	151613	hgsc.bcm.edu	37	3	180325487	180325487	+	Silent	SNP	T	T	C	rs9858483	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	63	71	0	0.65625	0	T|0.915;C|0.085	0.085	strong	.	TTC14	112	.	NM_001042601	exon10	c.T1224C	p.A408A	GAAAGCTTTGGCT	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152190945	152190945	+	Missense_Mutation	SNP	C	C	T	rs77376932	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	275	157	202	0	0.570909	0	C|0.852;T|0.148	0.148	strong	.	HRNR	403	.	NM_001009931	exon3	c.G3160A	p.E1054K	GAGACTCTCGGTG	.	PASS	Atlas-SNP
JSRP1	126306	hgsc.bcm.edu	37	19	2255311	2255311	+	Missense_Mutation	SNP	C	C	G	rs7250822	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	68	113	0	0.492754	0	C|0.836;G|0.164	0.164	strong	.	JSRP1	18	.	NM_144616	exon2	c.G3C	p.M1I	CATGGACATGGCT	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20974740	20974740	+	Missense_Mutation	SNP	C	C	T	rs111539520	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	43	75	0	0.581081	0	C|0.977;T|0.023	0.023	strong	DNAH3_ENST00000261383,NS,carcinoma,-1,2	DNAH3	1142	2	NM_017539	exon53	c.G10466A	p.R3489Q	AACTCCCGGACCG	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56763316	56763316	+	Silent	SNP	G	G	A	rs1565376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	198	197	148	0	0.99495	0	G|0.420;A|0.580	0.580	strong	.	ARHGEF3	128	.	NM_001128615	exon13	c.C1659T	p.H553H	TTCACCGTGCCTG	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	37	1	39908506	39908506	+	Missense_Mutation	SNP	G	G	A	rs587404	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	64	76	0	0.551724	0	G|0.640;A|0.360	0.360	strong	MACF1_ENST00000361689,NS,carcinoid-endocrine_tumour,-1,2	MACF1	909	2	NM_012090	exon75	c.G13048A	p.A4350T	TTGGAAGCCATGA	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21225753	21225753	+	Missense_Mutation	SNP	C	C	T	rs1042031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	50	79	0	0.47619	0	C|0.848;T|0.152	0.152	strong	.	APOB	761	.	NM_000384	exon29	c.G12541A	p.E4181K	GGAATTCTTGAGT	.	PASS	Atlas-SNP
ZSWIM4	65249	hgsc.bcm.edu	37	19	13941597	13941597	+	Silent	SNP	C	C	T	rs112676900	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	5	4	3	0	0.8	0	C|0.927;T|0.073	0.073	strong	ZSWIM4,NS,carcinoma,0,1	ZSWIM4	69	1	NM_023072	exon13	c.C2703T	p.A901A	CCGGGCCGCCAAG	.	scavenged	Atlas-SNP
TJP3	27134	hgsc.bcm.edu	37	19	3747891	3747891	+	Missense_Mutation	SNP	G	G	A	rs144472063	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	50	72	0	0.543478	0	G|1.000;A|0.000	0.000	strong	.	TJP3	79	.	NM_001267561	exon19	c.G2449A	p.E817K	GACTACGAGACGG	.	PASS	Atlas-SNP
OR2V1	26693	hgsc.bcm.edu	37	5	180551937	180551937	+	Missense_Mutation	SNP	C	C	T	rs10073017	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	39	74	0	0.428571	0	C|0.880;T|0.120	0.120	strong	.	OR2V1	20	.	NM_001258283	exon1	c.G368A	p.R123H	ACGTAGCGGTCAT	.	PASS	Atlas-SNP
ITIH6	347365	hgsc.bcm.edu	37	X	54781530	54781530	+	Missense_Mutation	SNP	C	C	G	rs17316491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	85	76	0	0.988372	0	C|0.935;0|0.004	.	strong	.	.	.	.	NM_198510	exon9	c.G3122C	p.W1041S	CCATCCCAGTTTG	.	PASS	Atlas-SNP
CDKN1A	1026	hgsc.bcm.edu	37	6	36652228	36652228	+	Missense_Mutation	SNP	G	G	A	rs148679597	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	17	33	0	0.377778	0	G|0.998;A|0.002	0.002	strong	.	CDKN1A	27	.	NM_001220778	exon2	c.G350A	p.C117Y	TGTCTTGTACCCT	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	745963	745963	+	Silent	SNP	G	G	A	rs3746807	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	60	61	0	0.967742	0	G|0.885;A|0.115	0.115	strong	.	.	.	.	NM_033409	exon2	c.C456T	p.P152P	CAGGGCGGGCAAG	.	PASS	Atlas-SNP
NUAK2	81788	hgsc.bcm.edu	37	1	205273142	205273142	+	Silent	SNP	G	G	C	rs41264881	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	68	95	0	0.623853	0	G|0.874;C|0.126	0.126	strong	NUAK2_ENST00000367157,NS,carcinoma,0,2	NUAK2	107	2	NM_030952	exon7	c.C1323G	p.P441P	GAGCAGGGGGGCA	.	PASS	Atlas-SNP
EVI5L	115704	hgsc.bcm.edu	37	19	7913974	7913974	+	Silent	SNP	T	T	C	rs555609	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	24	76	0	0.413793	0	T|0.304;C|0.695	0.695	strong	.	EVI5L	43	.	NM_001159944	exon3	c.T495C	p.H165H	GGAACATGAGTTC	.	PASS	Atlas-SNP
ZNF480	147657	hgsc.bcm.edu	37	19	52825235	52825235	+	Silent	SNP	A	A	G	rs8102373	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	31	47	0	0.96875	0	A|0.449;G|0.551	0.551	strong	ZNF480_ENST00000468240,NS,carcinoma,+1,2	ZNF480	123	2	NM_144684	exon5	c.A732G	p.S244S	CAATTCACACCTT	.	PASS	Atlas-SNP
PPP1R36	145376	hgsc.bcm.edu	37	14	65054858	65054858	+	Silent	SNP	T	T	C	rs723594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	65	49	0	1	0	T|0.940;C|0.060	0.060	strong	.	.	.	.	NM_172365	exon11	c.T927C	p.A309A	AAAAGCTATCAAC	.	PASS	Atlas-SNP
UROC1	131669	hgsc.bcm.edu	37	3	126219627	126219627	+	Silent	SNP	G	G	A	rs34025926	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	37	89	0	0.316239	0	G|0.729;A|0.271	0.271	strong	.	UROC1	150	.	NM_001165974	exon12	c.C1236T	p.G412G	GTAGCCGCCATTG	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84607299	84607299	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	4	104	1	0.0380952	0.00961538	.	.	none	FAM75D4,right_upper_lobe,carcinoma,0,2	.	.	2	NM_001001670	exon4	c.C1914T	p.G638G	GTGGGGCTTACCC	.	scavenged	Atlas-SNP
TRUB2	26995	hgsc.bcm.edu	37	9	131084628	131084628	+	Silent	SNP	C	C	A	rs11539570	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	22	49	0	0.415094	0	T|0.008;C|0.982;A|0.010	0.010	strong	.	TRUB2	26	.	NM_015679	exon1	c.G60T	p.G20G	TTTTAGCCCCGGG	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201183402	201183402	+	Silent	SNP	T	T	C	rs1568810	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	45	58	0	0.6	0	T|0.698;C|0.302	0.302	strong	.	IGFN1	220	.	NM_001164586	exon13	c.T8826C	p.P2942P	GGGACCTGGCACC	.	PASS	Atlas-SNP
EIF2B3	8891	hgsc.bcm.edu	37	1	45340342	45340342	+	Missense_Mutation	SNP	A	A	C	rs77068026	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	54	98	0	0.482143	0	A|0.985;C|0.015	0.015	strong	.	EIF2B3	43	.	NM_001166588	exon10	c.T1210G	p.S404A	AGGGGGAAACATA	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19181393	19181393	+	Missense_Mutation	SNP	T	T	C	rs35874116	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	39	67	0	0.493671	0	T|0.700;C|0.300	0.300	strong	TAS1R2,NS,carcinoma,0,1	TAS1R2	134	1	NM_152232	exon3	c.A571G	p.I191V	CCTCGATGTGGTG	.	PASS	Atlas-SNP
LRRC16B	90668	hgsc.bcm.edu	37	14	24526206	24526206	+	Silent	SNP	T	T	C	rs45484702	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	38	87	0	0.463415	0	T|0.820;C|0.180	0.180	strong	.	LRRC16B	120	.	NM_138360	exon13	c.T1035C	p.P345P	GAATCCTGGGCTC	.	PASS	Atlas-SNP
LRRC37A3	374819	hgsc.bcm.edu	37	17	62892271	62892271	+	Missense_Mutation	SNP	A	A	T	rs79445332	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	473	204	267	0	0.43129	0	.	.	weak	LRRC37A3,NS,haematopoietic_neoplasm,0,1	LRRC37A3	75	1	NM_199340	exon3	c.T1105A	p.S369T	TAGAAGACTCAGA	.	scavenged	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38046718	38046718	+	Silent	SNP	A	A	G	rs762987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	51	95	0	0.459459	0	A|0.859;G|0.141	0.141	strong	.	SH3BP1	41	.	NM_018957	exon16	c.A1584G	p.A528A	TTCAGCAGCTACC	.	PASS	Atlas-SNP
PERP	64065	hgsc.bcm.edu	37	6	138413269	138413269	+	Silent	SNP	A	A	G	rs648396	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	34	79	0	0.453333	0	A|0.435;G|0.565	0.565	strong	.	PERP	15	.	NM_022121	exon3	c.T492C	p.I164I	ACAGCCAATCAGG	.	PASS	Atlas-SNP
POMT1	10585	hgsc.bcm.edu	37	9	134385435	134385435	+	Nonsense_Mutation	SNP	C	C	T	rs3887873	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	41	76	0	0.465909	0	C|0.904;T|0.096	0.096	strong	.	POMT1	59	.	NM_007171	exon8	c.C751T	p.Q251X	CAGATGCAGATGT	.	PASS	Atlas-SNP
WSCD2	9671	hgsc.bcm.edu	37	12	108618630	108618630	+	Missense_Mutation	SNP	C	C	T	rs3764002	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	18	31	0	0.45	0	C|0.745;T|0.255	0.255	strong	.	WSCD2	125	.	NM_014653	exon5	c.C797T	p.T266I	TCTGCACTGAGAA	.	PASS	Atlas-SNP
FANCF	2188	hgsc.bcm.edu	37	11	22646532	22646532	+	Silent	SNP	C	C	T	rs36045913	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	39	62	0	0.52	0	C|0.985;T|0.015	0.015	strong	.	FANCF	24	.	NM_022725	exon1	c.G825A	p.L275L	CAGACCCAGATAG	.	PASS	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	37	2	71631109	71631109	+	Missense_Mutation	SNP	A	A	G	rs3732235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	53	97	0	0.469027	0	A|0.891;G|0.109	0.109	strong	.	ZNF638	179	.	NM_014497	exon17	c.A2939G	p.N980S	CTGAAAACATGAA	.	PASS	Atlas-SNP
IL1RL2	8808	hgsc.bcm.edu	37	2	102851496	102851496	+	Silent	SNP	C	C	T	rs35960329	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	47	125	0	0.435185	0	C|0.988;T|0.012	0.012	strong	IL1RL2_ENST00000441515,NS,carcinoma,0,2	IL1RL2	118	2	NM_003854	exon11	c.C1437T	p.D479D	CCAGGACGGGATG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169510348	169510348	+	Missense_Mutation	SNP	T	T	C	rs1800595	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	360	123	266	0	0.341667	0	T|0.953;C|0.047	0.047	strong	.	F5	301	.	NM_000130	exon13	c.A3980G	p.H1327R	GTTGTATGGCTGA	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144909956	144909956	+	Silent	SNP	G	G	A	rs638260	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	257	57	252	0	0.22179	0	A|0.001;C|0.701	0.001	strong	.	PDE4DIP	817	.	NM_001002811	exon13	c.C2721T	p.D907D	GTCCAAGTCTCCT	.	PASS	Atlas-SNP
SCNN1D	6339	hgsc.bcm.edu	37	1	1226757	1226757	+	Missense_Mutation	SNP	G	G	A	rs6690013	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	73	106	0	0.579365	0	G|0.926;A|0.074	0.074	strong	.	SCNN1D	60	.	NM_001130413	exon18	c.G2176A	p.G726S	CTAGGCGGCCGCC	.	PASS	Atlas-SNP
CNTNAP3B	728577	hgsc.bcm.edu	37	9	43861012	43861012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	21	30	0	0.403846	0	.	.	none	.	CNTNAP3B	37	.	NM_001201380	exon13	c.C1886T	p.A629V	ACTCCGCGTGGAC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910378	29910378	+	Silent	SNP	C	C	T	rs41546314	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	35	76	0	0.402299	0	C|0.769;T|0.231	0.231	strong	HLA-A,NS,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon1	c.C48T	p.A16A	GGGGGCCCTGGCC	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4442818	4442818	+	Silent	SNP	G	G	A	rs73335853	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	49	113	0	0.462264	0	G|0.941;A|0.059	0.059	strong	.	MYBBP1A	69	.	NM_014520	exon26	c.C3879T	p.S1293S	CAGCGCGGACAGT	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46899842	46899842	+	Silent	SNP	C	C	T	rs1131100	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	27	51	0	0.442623	0	C|0.882;T|0.118	0.118	strong	COL18A1_ENST00000359759,NS,carcinoma,0,2	COL18A1	129	2	NM_030582	exon9	c.C1815T	p.P605P	CTTCCCCGGGACT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238155	31238155	+	Missense_Mutation	SNP	G	G	A	rs1050328	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	83	101	0	0.988095	0	G|0.695;A|0.305	0.305	strong	HLA-C,colon,carcinoma,+1,1	HLA-C	92	1	NM_002117	exon4	c.C727T	p.R243W	CATCCCGCTGCCA	.	PASS	Atlas-SNP
FTO	79068	hgsc.bcm.edu	37	16	53860253	53860253	+	Missense_Mutation	SNP	G	G	A	rs150450891	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	56	115	0	0.543689	0	G|0.999;A|0.001	0.001	strong	.	FTO	51	.	NM_001080432	exon3	c.G601A	p.V201I	TACAACGTAACTT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4574751	4574751	+	Missense_Mutation	SNP	T	T	A	rs9436	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	37	77	0	0.578125	0	T|0.893;A|0.107	0.107	strong	.	PELP1	102	.	NM_014389	exon17	c.A3376T	p.T1126S	GCTCTGTGGGAGG	.	PASS	Atlas-SNP
DCDC2	51473	hgsc.bcm.edu	37	6	24357796	24357796	+	Silent	SNP	G	G	A	rs33943110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	23	49	0	0.69697	0	G|0.955;A|0.045	0.045	strong	.	DCDC2	53	.	NM_001195610	exon2	c.C183T	p.A61A	CCTGACGGCCCCA	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76112060	76112060	+	Silent	SNP	C	C	T	rs1638074	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	97	150	0	0.560694	0	C|0.449;T|0.551	0.551	strong	.	DTX2	64	.	NM_001102596	exon2	c.C504T	p.F168F	CAGCTTCTGCCGC	.	PASS	Atlas-SNP
CPVL	54504	hgsc.bcm.edu	37	7	29152416	29152416	+	Silent	SNP	G	G	A	rs2011337	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	42	94	0	0.224599	0	G|0.869;A|0.131	0.131	strong	.	CPVL	60	.	NM_019029	exon3	c.C192T	p.G64G	GAAAGGGCCGACC	.	PASS	Atlas-SNP
RASSF5	83593	hgsc.bcm.edu	37	1	206757857	206757857	+	Silent	SNP	C	C	A	rs4845112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	59	138	0	0.460938	0	C|0.905;A|0.095	0.095	strong	.	RASSF5	54	.	NM_182663	exon4	c.C829A	p.R277R	GACAAGCGGACAT	.	PASS	Atlas-SNP
LAPTM4A	9741	hgsc.bcm.edu	37	2	20240668	20240668	+	Silent	SNP	C	C	A	rs3731673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	26	97	0	0.448276	0	C|0.849;A|0.151	0.151	strong	.	LAPTM4A	18	.	NM_014713	exon2	c.G216T	p.S72S	CTCAGACGAATAG	.	PASS	Atlas-SNP
CNN1	1264	hgsc.bcm.edu	37	19	11660519	11660519	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	2	99	0	0.0166667	0	.	.	none	CNN1,colon,carcinoma,-1,2	CNN1	34	2	NM_001299	exon7	c.A803G	p.Y268C	AGGTCTACGACCC	.	scavenged	Atlas-SNP
PSORS1C1	170679	hgsc.bcm.edu	37	6	31106489	31106489	+	Missense_Mutation	SNP	G	G	A	rs1265096	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	45	103	0	0.436893	0	G|0.960;A|0.040	0.040	strong	.	PSORS1C1	11	.	NM_014068	exon5	c.G100A	p.E34K	AGCTCCGAGGAAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9061559	9061559	+	Silent	SNP	C	C	G	rs1423052	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	305	148	331	1	0.485246	0.00302115	C|0.616;G|0.384	0.384	strong	.	MUC16	4315	.	NM_024690	exon3	c.G25887C	p.T8629T	TTCAGACGTGGCT	.	PASS	Atlas-SNP
GRIPAP1	56850	hgsc.bcm.edu	37	X	48847497	48847497	+	Silent	SNP	T	T	C	rs11545861	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	77	72	0	1	0	T|0.713;C|0.287	0.287	strong	.	GRIPAP1	128	.	NM_020137	exon7	c.A483G	p.E161E	CCCGGCTTCTTTC	.	PASS	Atlas-SNP
GIMAP8	155038	hgsc.bcm.edu	37	7	150163837	150163837	+	Silent	SNP	A	A	G	rs2140595	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	56	56	0	1	0	A|0.649;G|0.351	0.351	strong	GIMAP8,trunk,malignant_melanoma,+1,1	GIMAP8	136	1	NM_175571	exon2	c.A51G	p.G17G	CCTGGGAAAATGC	.	PASS	Atlas-SNP
IFRD1	3475	hgsc.bcm.edu	37	7	112112892	112112892	+	Silent	SNP	G	G	A	rs11542468	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	67	95	0	0.527559	0	G|0.940;A|0.060	0.060	strong	.	IFRD1	46	.	NM_001007245	exon12	c.G1242A	p.T414T	TAAAACGATGAAG	.	PASS	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	37	3	56650054	56650054	+	Missense_Mutation	SNP	T	T	C	rs111934125	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	8	87	0	0.0689655	0	C|1.000;|0.000	1.000	weak	CCDC66_ENST00000394672,caecum,carcinoma,0,2	CCDC66	145	2	NM_001141947	exon13	c.T1816C	p.S606P	ACGACTTCTAAGA	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4876057	4876057	+	Missense_Mutation	SNP	C	C	T	rs3763384	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	29	38	0	0.358025	0	C|0.745;T|0.255	0.255	strong	.	RADIL	110	.	NM_018059	exon3	c.G715A	p.D239N	TGGCGTCGGGGCC	.	PASS	Atlas-SNP
STRA6	64220	hgsc.bcm.edu	37	15	74488424	74488424	+	Silent	SNP	G	G	A	rs11857410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	40	51	0	1	0	G|0.878;A|0.122	0.122	strong	.	STRA6	66	.	NM_001199042	exon5	c.C448T	p.L150L	AGCTCAGGAGGAC	.	PASS	Atlas-SNP
POLR1B	84172	hgsc.bcm.edu	37	2	113309473	113309473	+	Missense_Mutation	SNP	C	C	T	rs1545133	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	103	112	0	1	0	C|0.497;T|0.503	0.503	strong	.	POLR1B	95	.	NM_019014	exon6	c.C884T	p.S295L	GTTGTTCGACACA	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25265139	25265139	+	Silent	SNP	T	T	C	rs2071490	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	80	171	0	0.506329	0	T|0.751;C|0.249	0.249	strong	.	ATP12A	172	.	NM_001185085	exon8	c.T837C	p.V279V	CATGGTTATCAAC	.	PASS	Atlas-SNP
INPP5B	3633	hgsc.bcm.edu	37	1	38338795	38338795	+	Missense_Mutation	SNP	A	A	G	rs11488569	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	110	0	1	0	A|0.436;G|0.564	0.564	strong	.	INPP5B	76	.	NM_005540	exon19	c.T1994C	p.M665T	GCTGTCATCTTAT	.	PASS	Atlas-SNP
SEMA6A	57556	hgsc.bcm.edu	37	5	115782493	115782493	+	Missense_Mutation	SNP	T	T	G	rs200578077	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	34	65	0	0.453333	0	T|0.997;G|0.003	0.003	strong	.	SEMA6A	93	.	NM_020796	exon19	c.A2909C	p.Q970P	TGCACCTGGATGG	.	PASS	Atlas-SNP
ANO8	57719	hgsc.bcm.edu	37	19	17441909	17441909	+	Silent	SNP	T	T	G	rs61734355	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	27	43	0	0.54	0	T|0.922;G|0.078	0.078	strong	ANO8,NS,carcinoma,0,1	ANO8	67	1	NM_020959	exon7	c.A819C	p.T273T	AGCCTCTGTGAAT	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112889374	112889374	+	Missense_Mutation	SNP	G	G	A	rs10071816	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	30	73	0	0.545455	0	G|0.681;A|0.319	0.319	strong	.	YTHDC2	118	.	NM_022828	exon14	c.G1955A	p.S652N	CTGACAGTACACA	.	PASS	Atlas-SNP
KIAA1549	57670	hgsc.bcm.edu	37	7	138602865	138602865	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	32	31	0	0.551724	0	.	.	none	.	KIAA1549	314	.	NM_020910	exon2	c.A1507C	p.T503P	CACTCGTCTCTGA	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	62990971	62990971	+	Silent	SNP	C	C	T	rs12905981	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	11	30	0	0.55	0	C|0.701;T|0.299	0.299	strong	TLN2,rectum,carcinoma,0,1	TLN2	253	1	NM_015059	exon13	c.C1492T	p.L498L	CAGGCCCTGATGG	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46760086	46760086	+	Missense_Mutation	SNP	C	C	T	rs35364389	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	47	56	0	0.661972	0	C|0.794;T|0.206	0.206	strong	.	CELSR1	242	.	NM_014246	exon34	c.G8842A	p.G2948S	GCCGGCCCTTCAG	.	PASS	Atlas-SNP
MSLN	10232	hgsc.bcm.edu	37	16	818559	818559	+	Missense_Mutation	SNP	A	A	G	rs1135210	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	37	69	1	0.480519	0.0144928	A|0.678;G|0.322	0.322	strong	MSLN_ENST00000446427,NS,carcinoma,0,2	MSLN	109	2	NM_013404	exon16	c.A1801G	p.M601V	CTCAGCATGCAAG	.	scavenged	Atlas-SNP
SMOX	54498	hgsc.bcm.edu	37	20	4164283	4164283	+	Silent	SNP	A	A	G	rs1741327	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	40	36	0	1	0	A|0.284;G|0.716	0.716	strong	.	SMOX	119	.	NM_175839	exon6	c.A1512G	p.T504T	GTACACAGAGAGC	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	712052	712052	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	44	105	0	0.478261	0	.	.	none	.	KANK1	231	.	NM_001256876	exon7	c.C1286T	p.T429I	TAGGGACACTTGT	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056072	26056072	+	Silent	SNP	G	G	C	rs8384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	55	155	0	0.470085	0	G|0.834;C|0.166	0.166	strong	.	HIST1H1C	80	.	NM_005319	exon1	c.C585G	p.P195P	GGCCTTGGGCTTC	.	PASS	Atlas-SNP
USP45	85015	hgsc.bcm.edu	37	6	99956560	99956560	+	Missense_Mutation	SNP	T	T	C	rs7744845	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	50	73	1	0.625	0.0136986	T|0.734;C|0.266	0.266	strong	USP45,NS,carcinoma,0,1	USP45	56	1	NM_001080481	exon3	c.A199G	p.K67E	TTTCTTTTAAACA	.	scavenged	Atlas-SNP
SEC16A	9919	hgsc.bcm.edu	37	9	139370217	139370217	+	Silent	SNP	G	G	A	rs76562693	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	24	62	0	0.545455	0	G|0.965;A|0.035	0.035	strong	SEC16A_NM_014866.1,NS,haematopoietic_neoplasm,0,2	SEC16A	249	2	NM_014866	exon3	c.C1851T	p.H617H	AACTAAGTGAGAT	.	PASS	Atlas-SNP
KIAA0020	9933	hgsc.bcm.edu	37	9	2828742	2828742	+	Missense_Mutation	SNP	C	C	A	rs2270891	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	50	72	0	0.657895	0	C|0.954;A|0.046	0.046	strong	.	KIAA0020	56	.	NM_014878	exon9	c.G889T	p.V297L	GCTGTACCTCTAA	.	PASS	Atlas-SNP
GLYATL3	389396	hgsc.bcm.edu	37	6	49489397	49489397	+	Missense_Mutation	SNP	C	C	A	rs9369905	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	46	118	0	0.433962	0	C|0.805;A|0.195	0.195	strong	GLYATL3,NS,carcinoma,0,3	GLYATL3	19	3	NM_001010904	exon5	c.C353A	p.A118D	CGGTTGCCAATTC	.	PASS	Atlas-SNP
TMEM230	29058	hgsc.bcm.edu	37	20	5086918	5086918	+	Silent	SNP	G	G	A	rs147693982	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	43	88	0	0.530864	0	G|0.990;A|0.010	0.010	strong	.	.	.	.	NM_001009923	exon4	c.C327T	p.I109I	AAGTGCGATGGCC	.	PASS	Atlas-SNP
PCNXL2	80003	hgsc.bcm.edu	37	1	233134086	233134086	+	Missense_Mutation	SNP	C	C	T	rs56231757	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	37	53	0	0.5	0	C|0.789;T|0.211	0.211	strong	.	PCNXL2	204	.	NM_014801	exon32	c.G5702A	p.S1901N	CCACCACTCGGGG	.	PASS	Atlas-SNP
FAM196B	100131897	hgsc.bcm.edu	37	5	169310606	169310606	+	Silent	SNP	A	A	T	rs145002054	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	57	81	0	0.53271	0	A|0.987;T|0.013	0.013	strong	.	FAM196B	28	.	NM_001129891	exon2	c.T297A	p.T99T	GGGGGAAGTTTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9059159	9059159	+	Missense_Mutation	SNP	T	T	G	rs12462651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	47	80	0	0.439252	0	T|0.854;G|0.146	0.146	strong	.	MUC16	4315	.	NM_024690	exon3	c.A28287C	p.K9429N	GCTGTTTTTTTCC	.	PASS	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	37	4	6600012	6600012	+	Missense_Mutation	SNP	A	A	G	rs2301790	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	146	145	0	0.993197	0	G|0.474;A|0.526	0.474	strong	MAN2B2,NS,carcinoma,0,2	MAN2B2	80	2	NM_015274	exon9	c.A1336G	p.M446V	CTGGGCATGCGCA	.	PASS	Atlas-SNP
RAPGEF3	10411	hgsc.bcm.edu	37	12	48142636	48142636	+	Missense_Mutation	SNP	C	C	T	rs12422983	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	53	89	0	0.477477	0	C|0.880;T|0.120	0.120	strong	RAPGEF3,colon,carcinoma,+1,1	RAPGEF3	98	1	NM_001098531	exon11	c.G1120A	p.G374S	AAGGGCCGGCGCC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152188999	152188999	+	Silent	SNP	G	G	A	rs149648668	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	23	199	1	0.14375	0.00502513	G|0.947;A|0.053	0.053	strong	HRNR,NS,carcinoma,0,2	HRNR	403	2	NM_001009931	exon3	c.C5106T	p.H1702H	TCGGCCGTGGCCC	.	scavenged	Atlas-SNP
ITIH2	3698	hgsc.bcm.edu	37	10	7774397	7774397	+	Missense_Mutation	SNP	A	A	G	rs141156651	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	39	84	0	0.513158	0	A|1.000;G|0.000	0.000	weak	.	ITIH2	144	.	NM_002216	exon14	c.A1744G	p.K582E	ACCAGGAAACTGT	.	PASS	Atlas-SNP
IMPG1	3617	hgsc.bcm.edu	37	6	76640803	76640803	+	Missense_Mutation	SNP	G	G	A	rs10943299	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	66	117	0	0.5	0	G|0.883;A|0.117	0.117	strong	.	IMPG1	143	.	NM_001563	exon15	c.C2110T	p.R704W	CAGTCCGTTCGTT	.	PASS	Atlas-SNP
XPO7	23039	hgsc.bcm.edu	37	8	21862551	21862551	+	Silent	SNP	A	A	G	rs1058486	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	60	81	0	0.530973	0	A|0.407;G|0.593	0.593	strong	.	XPO7	79	.	NM_015024	exon28	c.A3216G	p.S1072S	CGACTCAATGAAG	.	PASS	Atlas-SNP
MICAL1	64780	hgsc.bcm.edu	37	6	109767930	109767930	+	Missense_Mutation	SNP	G	G	T	rs9320288	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	92	163	0	0.508287	0	G|0.502;T|0.498	0.498	strong	.	MICAL1	79	.	NM_022765	exon18	c.C2273A	p.A758E	CCTTCCGCTTTGT	.	PASS	Atlas-SNP
FEZ2	9637	hgsc.bcm.edu	37	2	36810586	36810586	+	Silent	SNP	T	T	C	rs14291	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	55	92	0	0.514019	0	T|0.567;C|0.433	0.433	strong	.	FEZ2	13	.	NM_001042548	exon3	c.A402G	p.T134T	ATCTGATGTATCA	.	PASS	Atlas-SNP
NPS	594857	hgsc.bcm.edu	37	10	129347785	129347785	+	Missense_Mutation	SNP	C	C	T	rs990310	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	84	130	0	0.541936	0	C|0.892;T|0.108	0.108	strong	.	NPS	14	.	NM_001030013	exon2	c.C41T	p.S14L	TTCTGTCGCTGTC	.	PASS	Atlas-SNP
UPK1A	11045	hgsc.bcm.edu	37	19	36157740	36157740	+	Missense_Mutation	SNP	C	C	T	rs61741212	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	64	147	0	0.415584	0	C|0.856;T|0.144	0.144	strong	.	UPK1A	23	.	NM_007000	exon1	c.C26T	p.A9V	CGGAGGCCGAGAA	.	PASS	Atlas-SNP
SLC27A6	28965	hgsc.bcm.edu	37	5	128301885	128301885	+	Missense_Mutation	SNP	T	T	G	rs2526247	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	66	103	0	0.507692	0	T|0.717;G|0.283	0.283	strong	.	SLC27A6	112	.	NM_001017372	exon1	c.T55G	p.L19V	CACTTCTTGCAGA	.	PASS	Atlas-SNP
RNF43	54894	hgsc.bcm.edu	37	17	56438301	56438301	+	Missense_Mutation	SNP	G	G	A	rs2680701	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	48	110	0	0.494845	0	G|0.875;A|0.125	0.125	strong	.	RNF43	157	.	NM_017763	exon7	c.C692T	p.P231L	TGAAGCGGATCCT	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62456014	62456014	+	Missense_Mutation	SNP	G	G	A	rs1134767	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	61	84	0	0.983871	0	G|0.547;A|0.453	0.453	strong	.	INADL	179	.	NM_176877	exon28	c.G3845A	p.R1282H	GAATGCGTATTGG	.	PASS	Atlas-SNP
NOX4	50507	hgsc.bcm.edu	37	11	89060002	89060002	+	Silent	SNP	G	G	A	rs28517716	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	82	148	0	0.509317	0	G|0.912;A|0.088	0.088	strong	NOX4,NS,carcinoma,-1,1	NOX4	101	1	NM_016931	exon18	c.C1659T	p.S553S	AGTCTTGGATAGT	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155298536	155298536	+	Missense_Mutation	SNP	C	C	T	rs149005474	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	25	69	0	0.5	0	C|1.000;T|0.000	0.000	strong	.	DCHS2	594	.	NM_001142552	exon2	c.G2113A	p.G705R	GGAATCCATCATA	.	PASS	Atlas-SNP
LSMD1	84316	hgsc.bcm.edu	37	17	7760704	7760704	+	Missense_Mutation	SNP	A	A	G	rs8522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	49	136	0	0.429825	0	A|0.678;G|0.322	0.322	strong	.	LSMD1	8	.	NM_032356	exon1	c.T38C	p.L13P	AACCCCAGCACTG	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116930194	116930194	+	Missense_Mutation	SNP	A	A	G	rs2567706	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	18	47	0	0.418605	0	A|0.748;G|0.252	0.252	strong	.	COL27A1	200	.	NM_032888	exon3	c.A359G	p.Q120R	GCAGCCAGAAACG	.	PASS	Atlas-SNP
CSF3R	1441	hgsc.bcm.edu	37	1	36937065	36937065	+	Silent	SNP	A	A	G	rs3917980	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	29	75	1	0.58	0.0133333	A|0.732;G|0.268	0.268	strong	CSF3R_ENST00000373104,NS,carcinoma,-1,2	CSF3R	157	2	NM_156039	exon10	c.T1254C	p.R418R	AGTGGGACGAGAG	.	scavenged	Atlas-SNP
QSOX2	169714	hgsc.bcm.edu	37	9	139118673	139118673	+	Missense_Mutation	SNP	T	T	C	rs12380852	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	33	100	0	0.417722	0	T|0.895;C|0.105	0.105	strong	.	QSOX2	63	.	NM_181701	exon2	c.A376G	p.K126E	GGTTCTTCTCTTC	.	PASS	Atlas-SNP
PBRM1	55193	hgsc.bcm.edu	37	3	52637631	52637631	+	Silent	SNP	T	T	C	rs34341044	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	25	37	0	0.390625	0	T|0.975;C|0.025	0.025	strong	.	PBRM1	1252	.	NM_018313	exon18	c.A2685G	p.T895T	ATGTTTTGTGGTA	.	PASS	Atlas-SNP
ZNF264	9422	hgsc.bcm.edu	37	19	57723007	57723007	+	Missense_Mutation	SNP	G	G	C	rs2074858	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	74	90	0	1	0	G|0.358;C|0.642	0.642	strong	.	ZNF264	65	.	NM_003417	exon4	c.G542C	p.R181T	GAGATAGAGTCCG	.	PASS	Atlas-SNP
CPEB2	132864	hgsc.bcm.edu	37	4	15005604	15005604	+	Missense_Mutation	SNP	G	G	A	rs112476821	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	11	5	3	0	0.454545	0	G|0.440;A|0.560	0.560	strong	.	CPEB2	77	.	NM_001177381	exon1	c.G1307A	p.S436N	CGCTCAGCGCCAT	.	PASS	Atlas-SNP
UGT1A3	54659	hgsc.bcm.edu	37	2	234637912	234637912	+	Missense_Mutation	SNP	T	T	C	rs6431625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	74	141	1	0.513889	0.0070922	T|0.573;C|0.427	0.427	strong	UGT1A3,colon,carcinoma,0,1	UGT1A3	91	1	NM_019093	exon1	c.T140C	p.V47A	GGGAGGTCTTGCG	.	scavenged	Atlas-SNP
RBM34	23029	hgsc.bcm.edu	37	1	235324298	235324298	+	Silent	SNP	T	T	C	rs2295815	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	20	44	0	0.487805	0	T|0.850;C|0.150	0.150	strong	.	RBM34	41	.	NM_001161533	exon2	c.A138G	p.E46E	ATGGTGTTCGCCG	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373972	27373972	+	Silent	SNP	T	T	C	rs2234900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	26	64	0	0.346667	0	T|0.727;C|0.273	0.273	strong	.	IL4R	70	.	NM_000418	exon11	c.T1299C	p.L433L	CCTTCTTCCACCT	.	PASS	Atlas-SNP
MRGPRX1	259249	hgsc.bcm.edu	37	11	18956196	18956196	+	Missense_Mutation	SNP	C	C	T	rs78179510	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	48	69	0	0.32	0	C|0.842;T|0.158	0.158	strong	MRGPRX1,caecum,carcinoma,0,3	MRGPRX1	84	3	NM_147199	exon1	c.G136A	p.A46T	CAACTGCGTTTCC	.	PASS	Atlas-SNP
RBFOX3	146713	hgsc.bcm.edu	37	17	77111732	77111732	+	Silent	SNP	G	G	A	rs80198744	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	12	29	0	0.461538	0	G|0.804;A|0.196	0.196	strong	.	RBFOX3	10	.	NM_001082575	exon5	c.T66T	p.F22F	CGGGGCGTACTCG	.	PASS	Atlas-SNP
CAPZA3	93661	hgsc.bcm.edu	37	12	18891966	18891966	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	9	23	0	0.290323	0	.	.	none	.	CAPZA3	51	.	NM_033328	exon1	c.T764C	p.I255T	GAAAAATTCTACG	.	PASS	Atlas-SNP
HPR	3250	hgsc.bcm.edu	37	16	72110948	72110948	+	Missense_Mutation	SNP	C	C	G	rs79479988	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	80	115	0	1	0	.	.	weak	.	HPR	43	.	NM_020995	exon5	c.C1015G	p.H339D	ATCCAGCACTGGG	.	PASS	Atlas-SNP
TM4SF19	116211	hgsc.bcm.edu	37	3	196050862	196050862	+	Missense_Mutation	SNP	A	A	G	rs36016914	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	22	52	0	0.289474	0	A|0.989;G|0.011	0.011	strong	.	TM4SF19	21	.	NM_001204897	exon5	c.T452C	p.I151T	ATACAGATAATTC	.	PASS	Atlas-SNP
PNMAL2	57469	hgsc.bcm.edu	37	19	46997522	46997522	+	Missense_Mutation	SNP	C	C	T	rs3745790	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	21	42	0	0.456522	0	C|0.848;T|0.152	0.152	strong	.	PNMAL2	44	.	NM_020709	exon1	c.G1201A	p.V401I	GCAGGACCACGGC	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3072107	3072107	+	Silent	SNP	G	G	C	rs73183587	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	159	178	0	1	0	G|0.909;C|0.091	0.091	strong	.	CSMD1	1469	.	NM_033225	exon30	c.C4779G	p.G1593G	CTTATAGCCAGAG	.	PASS	Atlas-SNP
PTH2R	5746	hgsc.bcm.edu	37	2	209358262	209358262	+	Missense_Mutation	SNP	G	G	A	rs140566891	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	96	136	0	0.536313	0	G|0.999;A|0.001	0.001	strong	.	PTH2R	92	.	NM_005048	exon13	c.G1531A	p.E511K	TTCCACGAGGAGA	.	PASS	Atlas-SNP
NUB1	51667	hgsc.bcm.edu	37	7	151074296	151074296	+	Silent	SNP	A	A	G	rs2159158	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	68	73	0	1	0	A|0.597;G|0.403	0.403	strong	.	NUB1	31	.	NM_001243351	exon15	c.A1905G	p.A635A	GTCAGCAACAAAG	.	PASS	Atlas-SNP
KIRREL2	84063	hgsc.bcm.edu	37	19	36349752	36349752	+	Missense_Mutation	SNP	G	G	A	rs404299	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	65	197	0	0.427632	0	G|0.863;A|0.137	0.137	strong	.	KIRREL2	170	.	NM_199180	exon4	c.G508A	p.A170T	GATGGAGCCACCT	.	PASS	Atlas-SNP
TTK	7272	hgsc.bcm.edu	37	6	80718167	80718167	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	10	50	0	0.212766	0	.	.	none	.	TTK	199	.	NM_003318	exon4	c.G427A	p.A143T	AAATTTGCTTTTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509939	195509939	+	Missense_Mutation	SNP	G	G	T	rs202039836		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	9	137	0	0.0608108	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C8512A	p.P2838T	AGGAAGGGATGGT	.	PASS	Atlas-SNP
MAP1S	55201	hgsc.bcm.edu	37	19	17837512	17837512	+	Missense_Mutation	SNP	G	G	A	rs12983721	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	11	2	0	0.733333	0	G|0.856;A|0.144	0.144	strong	.	MAP1S	74	.	NM_018174	exon5	c.G1319A	p.C440Y	CCGCCTGCCTCCT	.	PASS	Atlas-SNP
AKAP6	9472	hgsc.bcm.edu	37	14	33292743	33292743	+	Silent	SNP	A	A	C	rs2239647	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	41	75	0	0.493976	0	A|0.319;C|0.681	0.681	strong	.	AKAP6	308	.	NM_004274	exon13	c.A5724C	p.G1908G	AAAGGGAAAACCG	.	PASS	Atlas-SNP
SERPINF1	5176	hgsc.bcm.edu	37	17	1673276	1673276	+	Missense_Mutation	SNP	C	C	T	rs1136287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	26	84	0	0.325	0	C|0.316;T|0.684	0.684	strong	SERPINF1,colon,carcinoma,0,1	SERPINF1	31	1	NM_002615	exon3	c.C215T	p.T72M	CCAGCACGAGCCC	.	PASS	Atlas-SNP
ENOSF1	55556	hgsc.bcm.edu	37	18	712568	712568	+	Missense_Mutation	SNP	G	G	A	rs3786349	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	18	7	0	0.947368	0	G|0.851;A|0.149	0.149	strong	.	ENOSF1	44	.	NM_017512	exon1	c.C20T	p.S7F	AGCCGGGAGATCC	.	PASS	Atlas-SNP
DHRS4L2	317749	hgsc.bcm.edu	37	14	24458236	24458236	+	Missense_Mutation	SNP	G	G	A	rs55795553	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	30	75	0	0.46875	0	G|0.962;A|0.038	0.038	strong	.	DHRS4L2	29	.	NM_198083	exon1	c.G80A	p.R27Q	CCCGCCGGGACCC	.	PASS	Atlas-SNP
GLI3	2737	hgsc.bcm.edu	37	7	42088232	42088232	+	Silent	SNP	G	G	A	rs3898405	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	123	120	0	0.675824	0	G|0.934;A|0.066	0.066	strong	.	GLI3	312	.	NM_000168	exon5	c.C537T	p.H179H	GTTCCGGTGTGGG	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	37	19	621712	621712	+	Silent	SNP	A	A	G	rs2238547	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	25	40	0	0.378788	0	A|0.472;G|0.528	0.528	strong	POLRMT,NS,carcinoma,0,1	POLRMT	91	1	NM_005035	exon10	c.T1986C	p.A662A	CAGGAAAGCACCA	.	PASS	Atlas-SNP
HOXB6	3216	hgsc.bcm.edu	37	17	46675240	46675240	+	Silent	SNP	G	G	T	rs34438598	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	22	54	0	0.52381	0	G|0.956;T|0.044	0.044	strong	.	HOXB6	13	.	NM_018952	exon3	c.C273A	p.S91S	GGCGCCGGAGAGT	.	PASS	Atlas-SNP
OR1L1	26737	hgsc.bcm.edu	37	9	125424507	125424507	+	Silent	SNP	A	A	C	rs70156	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	68	105	0	0.548387	0	A|0.606;C|0.394	0.394	strong	.	OR1L1	54	.	NM_001005236	exon1	c.A513C	p.S171S	TGCCTCAAATGTC	.	PASS	Atlas-SNP
VN1R4	317703	hgsc.bcm.edu	37	19	53770764	53770764	+	Missense_Mutation	SNP	G	G	A	rs74429916	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	69	165	1	0.556452	0.00606061	.	.	weak	VN1R4,NS,carcinoma,-1,1	VN1R4	65	1	NM_173857	exon1	c.C155T	p.A52V	AAGTTGGCTACAA	.	scavenged	Atlas-SNP
MICAL1	64780	hgsc.bcm.edu	37	6	109767931	109767931	+	Missense_Mutation	SNP	C	C	T	rs59056467	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	92	163	0	0.511111	0	C|0.695;G|0.000;T|0.305	0.305	strong	.	MICAL1	79	.	NM_022765	exon18	c.G2272A	p.A758T	CTTCCGCTTTGTG	.	PASS	Atlas-SNP
BAGE2	85319	hgsc.bcm.edu	37	21	11049623	11049623	+	Splice_Site	SNP	T	T	C	rs28537865	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	335	40	260	0	0.119403	0	T|0.643;C|0.357	0.357	strong	.	.	.	.	NM_182482	exon5	c.280-2A>G	.	CTTCGCTATAATT	.	PASS	Atlas-SNP
HLA-DQB2	3120	hgsc.bcm.edu	37	6	32726772	32726772	+	Silent	SNP	G	G	A	rs200147031		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	10	111	0	0.078125	0	.	.	weak	HLA-DQB2,NS,carcinoma,-2,4	HLA-DQB2	22	4	NM_001198858	exon3	c.C501T	p.A167A	AACACCGGCTGTC	.	scavenged	Atlas-SNP
GPRC5B	51704	hgsc.bcm.edu	37	16	19883364	19883364	+	Silent	SNP	G	G	A	rs61742688	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	33	71	0	0.559322	0	A|0.107;C|0.000;G|0.893	0.107	strong	.	GPRC5B	54	.	NM_016235	exon2	c.C804T	p.N268N	GGGGTCGTTCCAG	.	PASS	Atlas-SNP
ZIM3	114026	hgsc.bcm.edu	37	19	57649900	57649900	+	Missense_Mutation	SNP	C	C	T	rs2370134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	43	89	0	0.544304	0	C|0.856;T|0.143	0.143	strong	.	ZIM3	107	.	NM_052882	exon3	c.G82A	p.E28K	TCTGTTCGGGATT	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55179184	55179184	+	Silent	SNP	T	T	C	rs61743358	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	214	22	238	0	0.102804	0	T|0.633;C|0.367	0.367	strong	.	LILRB4	86	.	NM_006847	exon11	c.T1140C	p.S380S	ACTGTCTGGGGAA	.	PASS	Atlas-SNP
DIRAS1	148252	hgsc.bcm.edu	37	19	2717256	2717256	+	Silent	SNP	C	C	G	rs3745812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	54	96	0	0.490909	0	C|0.851;G|0.149	0.149	strong	.	DIRAS1	26	.	NM_145173	exon2	c.G549C	p.G183G	CTGCTTCCCGGAG	.	PASS	Atlas-SNP
ARID3A	1820	hgsc.bcm.edu	37	19	971933	971933	+	Silent	SNP	A	A	G	rs1051504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	14	5	0	1	0	A|0.328;G|0.672	0.672	strong	.	ARID3A	35	.	NM_005224	exon9	c.A1650G	p.G550G	CAAAGGAGGCGGC	.	PASS	Atlas-SNP
AKR1C4	1109	hgsc.bcm.edu	37	10	5260682	5260682	+	Missense_Mutation	SNP	C	C	G	rs17134592	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	58	139	0	0.552381	0	C|0.890;G|0.110	0.110	strong	AKR1C4,NS,carcinoma,0,1	AKR1C4	57	1	NM_001818	exon9	c.C931G	p.L311V	TTCAGTCTTATGG	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121207449	121207449	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	19	87	0	0.17757	0	.	.	none	.	POLQ	273	.	NM_199420	exon16	c.T4329G	p.N1443K	AAAACTATTTAAT	.	PASS	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	37	16	722331	722331	+	Missense_Mutation	SNP	C	C	T	rs3177338	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	22	40	0	0.478261	0	C|0.469;T|0.531	0.531	strong	.	RHOT2	35	.	NM_138769	exon15	c.C1273T	p.R425C	GGGGCCCGTGGAG	.	PASS	Atlas-SNP
TTLL5	23093	hgsc.bcm.edu	37	14	76368544	76368544	+	Missense_Mutation	SNP	T	T	C	rs1133834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	23	54	0	0.442308	0	C|0.345;N|0.000	0.345	strong	.	TTLL5	102	.	NM_015072	exon31	c.T3800C	p.F1267S	CAGCCTTTGTGCC	.	PASS	Atlas-SNP
OR56A5	390084	hgsc.bcm.edu	37	11	5989293	5989293	+	Silent	SNP	G	G	A	rs7113548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	42	74	0	0.56	0	G|0.755;A|0.245	0.245	strong	.	.	.	.	NM_001146033	exon1	c.C432T	p.V144V	CCTAGCGACAAAT	.	PASS	Atlas-SNP
OCA2	4948	hgsc.bcm.edu	37	15	28230318	28230318	+	Missense_Mutation	SNP	C	C	T	rs1800407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	62	93	0	0.984127	0	C|0.952;T|0.048	0.048	strong	.	OCA2	173	.	NM_000275	exon13	c.G1256A	p.R419Q	CGTCCCCGGGAGA	.	PASS	Atlas-SNP
BIRC7	79444	hgsc.bcm.edu	37	20	61870727	61870727	+	Missense_Mutation	SNP	G	G	C	rs1077019	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	32	51	0	0.457143	0	G|0.802;C|0.198	0.198	strong	BIRC7,NS,carcinoma,0,1	BIRC7	25	1	NM_139317	exon6	c.G667C	p.E223Q	CCAGCCGAGGCCC	.	PASS	Atlas-SNP
LMF1	64788	hgsc.bcm.edu	37	16	929711	929711	+	Silent	SNP	C	C	T	rs2076425	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	60	142	1	0.387097	0.00704225	C|0.827;T|0.173	0.173	strong	LMF1,colon,carcinoma,-1,1	LMF1	42	1	NM_022773	exon6	c.G756A	p.A252A	GTAGTACGCCACA	.	scavenged	Atlas-SNP
NIPA1	123606	hgsc.bcm.edu	37	15	23052632	23052632	+	Silent	SNP	T	T	C	rs11263683	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	72	98	0	1	0	T|0.325;C|0.675	0.675	strong	.	NIPA1	26	.	NM_144599	exon4	c.A441G	p.T147T	CTGAGTTGTCACA	.	PASS	Atlas-SNP
PZP	5858	hgsc.bcm.edu	37	12	9303296	9303296	+	Missense_Mutation	SNP	A	A	T	rs10842971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	71	69	0	1	0	A|0.782;T|0.218	0.218	strong	PZP_ENST00000381997,NS,carcinoma,0,2	PZP	422	2	NM_002864	exon34	c.T4328A	p.I1443N	ACTGGGATGTCTT	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31118511	31118511	+	Missense_Mutation	SNP	T	T	G	rs130067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	56	113	0	0.448	0	T|0.787;G|0.213	0.213	strong	.	CCHCR1	68	.	NM_001105564	exon6	c.A1092C	p.E364D	CATGGTTTCCAGA	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113508839	113508839	+	Silent	SNP	G	G	C	rs9549573	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	9	29	0	0.529412	0	G|0.292;C|0.708	0.708	strong	.	ATP11A	225	.	NM_032189	exon19	c.G2238C	p.L746L	CAACCTGTCCGGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179631214	179631214	+	Silent	SNP	T	T	C	rs2291312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	59	127	0	0.427536	0	T|0.898;C|0.102	0.102	strong	.	TTN	18412	.	NM_001267550	exon41	c.A9597G	p.E3199E	TCTTCTTTCCACT	.	PASS	Atlas-SNP
PALM3	342979	hgsc.bcm.edu	37	19	14164629	14164629	+	Missense_Mutation	SNP	C	C	T	rs75841596	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	45	65	0	0.555556	0	C|0.982;T|0.018	0.018	strong	.	PALM3	26	.	NM_001145028	exon6	c.G1810A	p.D604N	TGGCATCCCCCAA	.	PASS	Atlas-SNP
C6orf47	57827	hgsc.bcm.edu	37	6	31627449	31627449	+	Missense_Mutation	SNP	C	C	G	rs2242655	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	36	61	0	0.493151	0	C|0.866;G|0.134	0.134	strong	.	C6orf47	15	.	NM_021184	exon1	c.G276C	p.K92N	GTCCCACTTGAGG	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201187764	201187764	+	Silent	SNP	T	T	C	rs10920144	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	25	12	0	0.961538	0	C|0.912;G|0.000;T|0.088	0.912	strong	IGFN1_ENST00000335211,NS,carcinoma,+1,2	IGFN1	220	2	NM_001164586	exon18	c.T9876C	p.A3292A	GGATGCTGTCTTT	.	PASS	Atlas-SNP
HTR3C	170572	hgsc.bcm.edu	37	3	183774762	183774762	+	Missense_Mutation	SNP	C	C	A	rs6766410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	64	141	0	0.385542	0	C|0.546;A|0.454	0.454	strong	HTR3C,NS,carcinoma,0,1	HTR3C	65	1	NM_130770	exon5	c.C489A	p.N163K	CTGTAACCTGGAC	.	PASS	Atlas-SNP
TPRA1	131601	hgsc.bcm.edu	37	3	127295857	127295857	+	Silent	SNP	C	C	G	rs75067887	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	276	184	228	0	0.666667	0	C|0.981;G|0.019	0.019	strong	TPRA1,NS,carcinoma,0,1	TPRA1	21	1	NM_001142646	exon4	c.G321C	p.S107S	AGCGTTCGAGGTG	.	PASS	Atlas-SNP
CASP9	842	hgsc.bcm.edu	37	1	15844615	15844615	+	Silent	SNP	A	A	G	rs1132312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	128	0	1	0	G|0.589;A|0.411	0.589	strong	CASP9,NS,carcinoma,0,1	CASP9	40	1	NM_001229	exon2	c.T408C	p.F136F	ATCACCAAATCCT	.	PASS	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	37	3	140178485	140178485	+	Missense_Mutation	SNP	G	G	A	rs7632885	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	44	63	0	0.5	0	G|0.425;A|0.574	0.574	strong	.	CLSTN2	190	.	NM_022131	exon7	c.G1096A	p.V366I	GCCAAAGTCCCCG	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72984668	72984668	+	Silent	SNP	C	C	T	rs2228200	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	67	95	0	1	0	C|0.953;T|0.047	0.047	strong	.	ZFHX3	404	.	NM_006885	exon3	c.G2916A	p.S972S	GTCCTCCGACAGG	.	PASS	Atlas-SNP
FBXO24	26261	hgsc.bcm.edu	37	7	100197690	100197690	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	49	225	0	0.264865	0	.	.	none	.	FBXO24	125	.	NM_012172	exon9	c.G1357A	p.G453S	TGGTGCGGCCTCA	.	PASS	Atlas-SNP
ARHGEF15	22899	hgsc.bcm.edu	37	17	8215534	8215534	+	Silent	SNP	C	C	T	rs3744651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	260	132	213	0	0.507692	0	C|0.620;T|0.380	0.380	strong	.	ARHGEF15	97	.	NM_025014	exon2	c.C177T	p.T59T	GTGCACCCCCATC	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50584130	50584130	+	Missense_Mutation	SNP	G	G	A	rs55747387	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	18	46	0	0.486486	0	G|0.984;A|0.016	0.016	strong	.	MOV10L1	238	.	NM_018995	exon19	c.G2518A	p.A840T	ATTGACGCCGTCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9074950	9074950	+	Missense_Mutation	SNP	G	G	T	rs2591591	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	87	139	0	0.508772	0	G|0.758;T|0.242	0.242	strong	.	MUC16	4315	.	NM_024690	exon3	c.C12496A	p.H4166N	TAGCATGGATAGG	.	PASS	Atlas-SNP
COL5A3	50509	hgsc.bcm.edu	37	19	10106936	10106936	+	Silent	SNP	G	G	C	rs1559186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	27	42	0	0.55102	0	G|0.601;C|0.399	0.399	strong	.	COL5A3	243	.	NM_015719	exon14	c.C1425G	p.L475L	CATAGAGAGCTGG	.	PASS	Atlas-SNP
FRMPD1	22844	hgsc.bcm.edu	37	9	37729786	37729786	+	Missense_Mutation	SNP	C	C	T	rs1359590	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	11	43	0	0.23913	0	T|0.202;G|0.004	0.202	strong	FRMPD1,colon,carcinoma,-1,1	FRMPD1	237	1	NM_014907	exon8	c.C674T	p.A225V	CACTGGCCCTGGA	.	PASS	Atlas-SNP
AHRR	57491	hgsc.bcm.edu	37	5	422858	422858	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	53	107	0	0.445378	0	.	.	none	.	AHRR	67	.	NM_001242412	exon6	c.C468G	p.H156Q	AATGCACCAGAAC	.	PASS	Atlas-SNP
WDR61	80349	hgsc.bcm.edu	37	15	78585106	78585106	+	Silent	SNP	C	C	T	rs2280364	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	27	67	0	0.45	0	C|0.910;T|0.090	0.090	strong	.	WDR61	26	.	NM_025234	exon5	c.G171A	p.Q57Q	ACTCCACTGTAGG	.	PASS	Atlas-SNP
RGS3	5998	hgsc.bcm.edu	37	9	116356529	116356529	+	Missense_Mutation	SNP	C	C	G	rs10817493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	36	68	0	0.537313	0	C|0.230;G|0.770	0.770	strong	.	RGS3	251	.	NM_144489	exon1	c.C330G	p.C110W	AATCTGCGGCCCC	.	PASS	Atlas-SNP
OXA1L	5018	hgsc.bcm.edu	37	14	23236524	23236524	+	Missense_Mutation	SNP	C	C	T	rs8572	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	50	73	0	0.943396	0	C|0.216;T|0.784	0.784	strong	.	OXA1L	49	.	NM_005015	exon2	c.C311T	p.A104V	TCCCAGCAGCCCC	.	PASS	Atlas-SNP
LECT1	11061	hgsc.bcm.edu	37	13	53282749	53282749	+	Silent	SNP	G	G	A	rs61959654	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	97	211	0	0.459716	0	G|0.965;A|0.035	0.035	strong	.	LECT1	44	.	NM_007015	exon6	c.C711T	p.G237G	TCCAGCGCCTGGG	.	PASS	Atlas-SNP
OBSL1	23363	hgsc.bcm.edu	37	2	220427395	220427395	+	Silent	SNP	G	G	A	rs3183099	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	26	42	0	0.490566	0	G|0.802;A|0.198	0.198	strong	.	OBSL1	120	.	NM_001173431	exon8	c.C2682T	p.D894D	GGAGACGTCTGGA	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57077464	57077464	+	Silent	SNP	T	T	C	rs10896602	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	63	135	0	0.512195	0	T|0.650;C|0.350	0.350	strong	.	TNKS1BP1	148	.	NM_033396	exon6	c.A2721G	p.Q907Q	CAAATCTTGGCCC	.	PASS	Atlas-SNP
RGS12	6002	hgsc.bcm.edu	37	4	3344680	3344680	+	Missense_Mutation	SNP	G	G	A	rs61748736	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	39	82	0	0.443182	0	G|0.961;A|0.039	0.039	strong	RGS12,NS,carcinoma,+1,2	RGS12	128	2	NM_002926	exon3	c.G1898A	p.R633Q	TTGGGCGGGGAAC	.	PASS	Atlas-SNP
IGSF5	150084	hgsc.bcm.edu	37	21	41137507	41137507	+	Missense_Mutation	SNP	G	G	C	rs2205204	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	26	76	0	0.419355	0	G|0.344;C|0.656	0.656	strong	.	IGSF5	62	.	NM_001080444	exon3	c.G146C	p.R49T	ATGCAAGAGTCCT	.	PASS	Atlas-SNP
RPGRIP1L	23322	hgsc.bcm.edu	37	16	53726039	53726039	+	Silent	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	311	4	335	0	0.0128617	0	.	.	none	RPGRIP1L,NS,carcinoma,-2,2	RPGRIP1L	118	2	NM_001127897	exon4	c.T468C	p.R156R	GTTAATACGAGAT	.	scavenged	Atlas-SNP
XPO7	23039	hgsc.bcm.edu	37	8	21833965	21833965	+	Silent	SNP	C	C	T	rs2306641	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	56	98	0	0.486957	0	C|0.655;T|0.345	0.345	strong	.	XPO7	79	.	NM_015024	exon7	c.C696T	p.I232I	CTTCATCGGCACT	.	PASS	Atlas-SNP
SCEL	8796	hgsc.bcm.edu	37	13	78188078	78188078	+	Missense_Mutation	SNP	A	A	G	rs8002725	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	72	145	0	0.458599	0	A|0.790;G|0.209	0.209	strong	.	SCEL	85	.	NM_144777	exon24	c.A1439G	p.K480R	CTGTCAAAAACAC	.	PASS	Atlas-SNP
ETS2	2114	hgsc.bcm.edu	37	21	40190408	40190408	+	Missense_Mutation	SNP	C	C	A	rs61735785	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	32	61	0	0.463768	0	C|0.993;A|0.007	0.007	strong	.	ETS2	87	.	NM_001256295	exon8	c.C1069A	p.L357I	GGCGGCCTCCTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076083	9076083	+	Missense_Mutation	SNP	G	G	A	rs2547072	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	76	140	0	0.513514	0	G|0.750;A|0.250	0.250	strong	MUC16_ENST00000397910,colon,carcinoma,0,2	MUC16	4315	2	NM_024690	exon3	c.C11363T	p.T3788I	GCTGGTGTGACTG	.	PASS	Atlas-SNP
OR13G1	441933	hgsc.bcm.edu	37	1	247835908	247835908	+	Missense_Mutation	SNP	T	T	A	rs28556931	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	45	117	0	0.391304	0	T|0.665;A|0.335	0.335	strong	.	OR13G1	78	.	NM_001005487	exon1	c.A436T	p.M146L	TAGCCATGACCAT	.	PASS	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14542916	14542916	+	Missense_Mutation	SNP	G	G	T	rs4429251	bycluster;by2hit2allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	287	6	248	1	0.0209059	0.00403226	G|1.000;|0.000	.	weak	POTEC,NS,carcinoma,+1,1	POTEC	129	1	NM_001137671	exon1	c.C230A	p.T77K	TTGCTCGTGCCGC	.	scavenged	Atlas-SNP
LYPD2	137797	hgsc.bcm.edu	37	8	143833856	143833856	+	Missense_Mutation	SNP	C	C	T	rs11778314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	178	121	0	0.972678	0	C|0.808;T|0.192	0.192	strong	LYPD2,caecum,carcinoma,0,2	LYPD2	18	2	NM_205545	exon1	c.G14A	p.R5Q	GCCAGCCGCGTCC	.	PASS	Atlas-SNP
BACE1	23621	hgsc.bcm.edu	37	11	117186506	117186506	+	Silent	SNP	G	G	A	rs28917234	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	12	0	0	0.6	.	G|0.979;A|0.021	0.021	strong	.	BACE1	33	.	NM_138972	exon1	c.C6T	p.A2A	GGCTTGGGCCATG	.	PASS	Atlas-SNP
TSC2	7249	hgsc.bcm.edu	37	16	2138269	2138269	+	Silent	SNP	T	T	C	rs1748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	42	94	0	0.482759	0	T|0.695;G|0.000;C|0.305;A|0.000	0.305	strong	.	TSC2	364	.	NM_000548	exon41	c.T5202C	p.D1734D	CACCGATATCTAC	.	PASS	Atlas-SNP
A4GNT	51146	hgsc.bcm.edu	37	3	137849888	137849888	+	Missense_Mutation	SNP	C	C	T	rs79791762	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	51	130	0	0.337748	0	C|0.980;T|0.020	0.020	strong	.	A4GNT	42	.	NM_016161	exon2	c.G211A	p.V71I	ACTCTACGGAACA	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38120303	38120303	+	Silent	SNP	C	C	A	rs79945262	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	79	295	0	0.441341	0	C|0.966;A|0.034	0.034	strong	.	TRIOBP	262	.	NM_001039141	exon7	c.C1740A	p.A580A	CTGTGCCCAGCGG	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42877265	42877265	+	Silent	SNP	G	G	C	rs9315906	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	48	94	0	0.551724	0	G|0.878;C|0.122	0.122	strong	.	AKAP11	146	.	NM_016248	exon8	c.G4383C	p.L1461L	CTCTCTGGTTCAC	.	PASS	Atlas-SNP
PAPOLB	56903	hgsc.bcm.edu	37	7	4901385	4901385	+	Missense_Mutation	SNP	A	A	C	rs3750009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	17	29	0	0.265625	0	A|0.534;C|0.466	0.466	strong	.	PAPOLB	93	.	NM_020144	exon1	c.T57G	p.N19K	GTAGCGATTCGGC	.	PASS	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	37	12	112622244	112622244	+	Missense_Mutation	SNP	A	A	G	rs369692553		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	18	30	0	0.5	0	.	.	weak	.	.	.	.	NM_001109662	exon61	c.T10124C	p.V3375A	GGATCCACAGAGA	.	PASS	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	37	5	36985274	36985274	+	Silent	SNP	C	C	T	rs116049172	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	68	94	0	0.561983	0	C|1.000;T|0.000	0.000	strong	.	NIPBL	513	.	NM_015384	exon10	c.C1992T	p.N664N	ACAAAACGAGAGC	.	PASS	Atlas-SNP
CLCA1	1179	hgsc.bcm.edu	37	1	86965419	86965419	+	Silent	SNP	T	T	C	rs1882753	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	27	78	0	0.435484	0	T|0.690;C|0.310	0.310	strong	.	CLCA1	109	.	NM_001285	exon14	c.T2436C	p.T812T	TACTACTGCTCTC	.	PASS	Atlas-SNP
NRIP1	8204	hgsc.bcm.edu	37	21	16339348	16339348	+	Missense_Mutation	SNP	A	A	G	rs77402452	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	243	118	232	0	0.485597	0	A|0.991;G|0.009	0.009	strong	.	NRIP1	103	.	NM_003489	exon4	c.T1166C	p.I389T	TTAGGTATAGTCT	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41351321	41351321	+	Missense_Mutation	SNP	C	C	T	rs78337605	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	11	184	0	0.0443548	0	C|0.500;T|0.500	0.500	strong	.	CYP2A6	69	.	NM_000762	exon7	c.G1039A	p.A347T	TCTTGGCCCGGTC	.	PASS	Atlas-SNP
RASGRF1	5923	hgsc.bcm.edu	37	15	79296172	79296172	+	Silent	SNP	G	G	A	rs1562008	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	62	0	0.454545	0	G|0.849;A|0.151	0.151	strong	.	RASGRF1	168	.	NM_002891	exon16	c.C2469T	p.P823P	GTCTTCGGGCTTC	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17273444	17273444	+	Silent	SNP	G	G	A	rs7545185	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	14	53	0	0.197183	0	G|0.809;A|0.191	0.191	strong	CROCC,NS,carcinoma,0,1	CROCC	185	1	NM_014675	exon17	c.G2472A	p.T824T	CCCCACGCTGCGC	.	PASS	Atlas-SNP
MDH1B	130752	hgsc.bcm.edu	37	2	207603221	207603221	+	Missense_Mutation	SNP	T	T	C	rs2287632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	56	113	0	0.424242	0	T|0.898;C|0.102	0.102	strong	.	MDH1B	89	.	NM_001039845	exon12	c.A1543G	p.T515A	CCACGGTTTTGCC	.	PASS	Atlas-SNP
ATP6AP1	537	hgsc.bcm.edu	37	X	153657083	153657083	+	Silent	SNP	A	A	G	rs28497482	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	11	11	0	0	1	.	A|0.090;G|0.910	0.910	strong	.	ATP6AP1	46	.	NM_001183	exon1	c.A45G	p.R15R	GCCGCGATGCGCC	.	PASS	Atlas-SNP
PAK2	5062	hgsc.bcm.edu	37	3	196530013	196530013	+	Silent	SNP	A	A	G	rs73205842	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	18	50	2	0.169811	0.04	A|0.970;G|0.030	0.030	strong	PAK2_ENST00000327134,rectum,carcinoma,0,2	PAK2	113	2	NM_002577	exon4	c.A414G	p.K138K	GCAGAAATATCTG	.	scavenged	Atlas-SNP
ZNF599	148103	hgsc.bcm.edu	37	19	35250448	35250448	+	Nonsense_Mutation	SNP	C	C	A	rs112895297	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	32	53	1	0.581818	0.0188679	C|0.997;A|0.003	0.003	strong	ZNF599,right_upper_lobe,carcinoma,0,1	ZNF599	72	1	NM_001007248	exon4	c.G1258T	p.E420X	GCTTCTCTCCGGT	.	scavenged	Atlas-SNP
DFNB59	494513	hgsc.bcm.edu	37	2	179325735	179325735	+	Missense_Mutation	SNP	C	C	T	rs17304212	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	37	115	0	0.445783	0	C|0.932;G|0.038;T|0.030	0.030	strong	DFNB59,lymph_node,lymphoid_neoplasm,0,1	DFNB59	37	1	NM_001042702	exon7	c.C793T	p.R265C	ATTTCTCGTTCAC	.	PASS	Atlas-SNP
EMILIN2	84034	hgsc.bcm.edu	37	18	2909700	2909700	+	Missense_Mutation	SNP	C	C	T	rs56288451	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	71	108	0	0.422619	0	C|0.917;T|0.083	0.083	strong	.	EMILIN2	97	.	NM_032048	exon7	c.C2707T	p.P903S	CCGGTGCCTTCTC	.	PASS	Atlas-SNP
R3HDM4	91300	hgsc.bcm.edu	37	19	899444	899444	+	Silent	SNP	C	C	T	rs2965284	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	36	59	0	0.553846	0	C|0.877;T|0.123	0.123	strong	C19orf22,NS,carcinoma,0,1	.	.	1	NM_138774	exon7	c.G699A	p.S233S	ACTGGCCGAGATG	.	PASS	Atlas-SNP
ARHGAP44	9912	hgsc.bcm.edu	37	17	12862170	12862170	+	Silent	SNP	C	C	T	rs3213687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	35	65	0	0.538462	0	C|0.926;T|0.074	0.074	strong	.	ARHGAP44	55	.	NM_014859	exon16	c.C1479T	p.S493S	CCTCAGCGTCGCC	.	PASS	Atlas-SNP
TLK2	11011	hgsc.bcm.edu	37	17	60683503	60683503	+	Silent	SNP	A	A	G	rs8078132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	28	68	0	0.451613	0	A|0.486;G|0.514	0.514	strong	.	TLK2	223	.	NM_006852	exon20	c.A1872G	p.P624P	ACCACCAGAGTGT	.	PASS	Atlas-SNP
SUPV3L1	6832	hgsc.bcm.edu	37	10	70940191	70940191	+	Silent	SNP	C	C	T	rs2292192	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	25	57	0	0.480769	0	C|0.884;T|0.116	0.116	strong	.	SUPV3L1	61	.	NM_003171	exon1	c.C144T	p.A48A	CACCGCCTCCTCC	.	PASS	Atlas-SNP
SLC22A16	85413	hgsc.bcm.edu	37	6	110760008	110760008	+	Missense_Mutation	SNP	A	A	G	rs12210538	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	54	100	0	0.461538	0	A|0.851;G|0.149	0.149	strong	.	SLC22A16	81	.	NM_033125	exon5	c.T1226C	p.M409T	TTGTCCATGGCGA	.	PASS	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	37	2	239059578	239059578	+	Missense_Mutation	SNP	G	G	A	rs369686635		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	65	138	0	0.471014	0	.	.	weak	.	KLHL30	79	.	NM_198582	exon8	c.G1609A	p.D537N	GCCTACGACACGG	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204399064	204399064	+	Silent	SNP	G	G	A	rs2271420	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	34	0	0.479167	0	G|0.866;A|0.134	0.134	strong	.	PIK3C2B	142	.	NM_002646	exon30	c.C4383T	p.P1461P	CTCAGGGGGTGCG	.	PASS	Atlas-SNP
PTPN7	5778	hgsc.bcm.edu	37	1	202129895	202129895	+	Missense_Mutation	SNP	G	G	A	rs3935295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	31	51	0	0.462687	0	G|0.868;A|0.132	0.132	strong	.	PTPN7	31	.	NM_002832	exon1	c.C41T	p.T14M	GGCCCCGTTCCCT	.	PASS	Atlas-SNP
TBC1D1	23216	hgsc.bcm.edu	37	4	38054737	38054737	+	Missense_Mutation	SNP	C	C	T	rs58983546	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	245	111	246	0	0.453061	0	C|0.910;T|0.090	0.090	strong	.	TBC1D1	94	.	NM_001253912	exon13	c.C2083T	p.R695C	TCCTACCGTAATG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179632496	179632496	+	Missense_Mutation	SNP	T	T	C	rs4893853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	18	44	0	0.418605	0	T|0.956;C|0.044	0.044	strong	.	TTN	18412	.	NM_001267550	exon40	c.A9461G	p.K3154R	ACCTCCTTTTTAA	.	PASS	Atlas-SNP
ABHD8	79575	hgsc.bcm.edu	37	19	17412366	17412366	+	Silent	SNP	G	G	A	rs11086066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	21	44	0	0.4375	0	G|0.784;A|0.216	0.216	strong	.	ABHD8	26	.	NM_024527	exon2	c.C60T	p.A20A	CCCCACGGCGTTG	.	PASS	Atlas-SNP
CES5A	221223	hgsc.bcm.edu	37	16	55907811	55907811	+	Missense_Mutation	SNP	C	C	T	rs2397965	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	40	78	0	0.56338	0	C|0.743;T|0.257	0.257	strong	.	CES5A	206	.	NM_001190158	exon3	c.G299A	p.R100Q	GTAAATCGCAGGG	.	PASS	Atlas-SNP
GUF1	60558	hgsc.bcm.edu	37	4	44682465	44682465	+	Missense_Mutation	SNP	T	T	C	rs6447368	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	111	101	0	1	0	T|0.484;C|0.516	0.516	strong	GUF1,NS,carcinoma,0,1	GUF1	72	1	NM_021927	exon2	c.T173C	p.L58P	AAAAACTTGACAT	.	PASS	Atlas-SNP
UGT1A3	54659	hgsc.bcm.edu	37	2	234638249	234638249	+	Silent	SNP	A	A	G	rs7574296	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	203	113	199	0	0.55665	0	A|0.477;G|0.523	0.523	strong	UGT1A3,NS,carcinoma,+2,1	UGT1A3	91	1	NM_019093	exon1	c.A477G	p.A159A	CGCGGCAGTGCTG	.	PASS	Atlas-SNP
INPP1	3628	hgsc.bcm.edu	37	2	191224981	191224981	+	Silent	SNP	G	G	T	rs4656	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	32	69	0	0.450704	0	G|0.559;T|0.441	0.441	strong	.	INPP1	29	.	NM_002194	exon2	c.G153T	p.T51T	CAAGACGCTGGCT	.	PASS	Atlas-SNP
STARD6	147323	hgsc.bcm.edu	37	18	51880889	51880889	+	Nonsense_Mutation	SNP	G	G	A	rs17292725	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	267	76	170	0	0.284644	0	G|0.974;A|0.026	0.026	strong	.	STARD6	19	.	NM_139171	exon1	c.C55T	p.R19X	TATCTCGATTATA	.	PASS	Atlas-SNP
HOPX	84525	hgsc.bcm.edu	37	4	57516896	57516896	+	Missense_Mutation	SNP	G	G	A	rs4371677	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	37	86	0	0.359223	0	G|0.501;A|0.499	0.499	strong	HOPX_ENST00000554144,NS,carcinoma,0,1	HOPX	28	1	NM_001145460	exon4	c.C281T	p.P94L	AAGCACGGCAGAC	.	PASS	Atlas-SNP
DDOST	1650	hgsc.bcm.edu	37	1	20982631	20982631	+	Silent	SNP	G	G	A	rs4704	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	65	170	0	0.474453	0	G|0.379;A|0.621	0.621	strong	.	DDOST	30	.	NM_005216	exon3	c.C366T	p.G122G	GCCTCCGCCGTCA	.	PASS	Atlas-SNP
EMR2	30817	hgsc.bcm.edu	37	19	14854338	14854338	+	Missense_Mutation	SNP	C	C	T	rs117617387	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	99	169	1	0.521053	0.00591716	C|0.989;T|0.011	0.011	strong	EMR2,NS,carcinoma,+1,1	EMR2	99	1	NM_013447	exon20	c.G2357A	p.R786Q	TGCTCCCGGACCT	.	scavenged	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7436239	7436239	+	Missense_Mutation	SNP	C	C	T	rs56402179	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	35	52	0	0.546875	0	C|0.882;T|0.118	0.118	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.G368A	p.R123H	GCCCCACGGAGCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9020153	9020153	+	Missense_Mutation	SNP	C	C	T	rs75217292	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	43	90	0	0.511905	0	C|0.917;T|0.083	0.083	strong	.	MUC16	4315	.	NM_024690	exon21	c.G37342A	p.E12448K	CCTTCTCAGACCT	.	PASS	Atlas-SNP
TRPC3	7222	hgsc.bcm.edu	37	4	122872719	122872719	+	Silent	SNP	G	G	A	rs1396082	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	11	11	1	0	1	0	G|0.558;A|0.442	0.442	strong	.	TRPC3	201	.	NM_001130698	exon1	c.C117T	p.G39G	CCTCCAGCCCCGG	.	PASS	Atlas-SNP
PSG11	5680	hgsc.bcm.edu	37	19	43519442	43519442	+	Missense_Mutation	SNP	T	T	C	rs10414166	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	43	87	0	0.505882	0	T|0.203;C|0.797	0.797	strong	.	PSG11	57	.	NM_002785	exon4	c.A790G	p.N264D	TAGAGTTTGCGAA	.	PASS	Atlas-SNP
IGFALS	3483	hgsc.bcm.edu	37	16	1840853	1840853	+	Silent	SNP	C	C	T	rs2230053	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	19	31	0	0.527778	0	T|0.022;C|0.978	0.022	strong	.	IGFALS	29	.	NM_001146006	exon2	c.G1680A	p.T560T	CTGCGGCGTGAAG	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373872	27373872	+	Missense_Mutation	SNP	A	A	C	rs1805011	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	28	60	0	0.41791	0	A|0.756;C|0.244	0.244	strong	IL4R,NS,carcinoma,0,1	IL4R	70	1	NM_000418	exon11	c.A1199C	p.E400A	GAAGGGAGGGCAT	.	PASS	Atlas-SNP
LNP1	348801	hgsc.bcm.edu	37	3	100170634	100170634	+	Silent	SNP	T	T	C	rs9848109	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	26	91	0	0.226087	0	T|0.500;C|0.500	0.500	strong	LNP1,caecum,carcinoma,0,2	LNP1	26	2	NM_001085451	exon3	c.T228C	p.F76F	AGAATTTCGATGC	.	PASS	Atlas-SNP
FITM1	161247	hgsc.bcm.edu	37	14	24600828	24600828	+	Missense_Mutation	SNP	C	C	T	rs147792464	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	46	123	0	0.455446	0	C|1.000;T|0.000	0.000	weak	.	FITM1	25	.	NM_203402	exon1	c.C56T	p.A19V	TCCAGGCACTGCT	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136268952	136268952	+	Missense_Mutation	SNP	G	G	T	rs33919837	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	27	46	0	0.490909	0	G|0.944;T|0.056	0.056	strong	.	C9orf96	77	.	NM_153710	exon15	c.G1603T	p.G535C	CTGCTGGGTGAGC	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1122147	1122147	+	Silent	SNP	G	G	A	rs2072280	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	47	53	0	1	0	G|0.572;A|0.428	0.428	strong	.	SBNO2	112	.	NM_014963	exon11	c.C1140T	p.F380F	GCCCTCGAAGGCC	.	PASS	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	37	19	31039669	31039669	+	Missense_Mutation	SNP	C	C	T	rs77238711	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	22	28	0	0.628571	0	C|0.970;T|0.030	0.030	strong	.	ZNF536	424	.	NM_014717	exon4	c.C3143T	p.A1048V	GGGAGGCGAGTAA	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141337126	141337126	+	Silent	SNP	C	C	T	rs164076	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	82	196	0	0.471264	0	C|0.497;T|0.503	0.503	strong	.	PCDH12	133	.	NM_016580	exon1	c.G291A	p.L97L	TCGGCACAGCTGC	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63918307	63918307	+	Silent	SNP	G	G	C	rs1140422	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	36	51	0	0.493151	0	G|0.899;C|0.101	0.101	strong	.	HERC1	624	.	NM_003922	exon71	c.C13152G	p.P4384P	ATACTGGGGGGGC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281479	152281479	+	Missense_Mutation	SNP	G	G	T	rs3126079	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	509	397	198	0	0.779961	0	A|0.000;G|0.622;T|0.378	0.378	strong	.	FLG	900	.	NM_002016	exon3	c.C5883A	p.H1961Q	GTCTTCGTGATGG	.	PASS	Atlas-SNP
FBXO18	84893	hgsc.bcm.edu	37	10	5979117	5979117	+	Silent	SNP	T	T	C	rs2274033	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	74	154	0	0.453988	0	T|0.958;C|0.042	0.042	strong	.	FBXO18	108	.	NM_032807	exon22	c.T3159C	p.C1053C	CTCCTGTGCGGAG	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	37	7	107743664	107743664	+	Silent	SNP	A	A	G	rs402113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	26	42	0	1	0	A|0.701;G|0.299	0.299	strong	.	LAMB4	253	.	NM_007356	exon10	c.T1005C	p.N335N	GTGGCTATTACAG	.	PASS	Atlas-SNP
CPXM2	119587	hgsc.bcm.edu	37	10	125521533	125521533	+	Silent	SNP	G	G	A	rs10794566	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	17	54	0	0.386364	0	G|0.352;A|0.648	0.648	strong	.	CPXM2	120	.	NM_198148	exon11	c.C1632T	p.D544D	GTGGTCGTCGGGG	.	PASS	Atlas-SNP
EFCAB13	124989	hgsc.bcm.edu	37	17	45468858	45468858	+	Nonsense_Mutation	SNP	T	T	G	rs118004742	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	97	190	0	0.521505	0	T|0.958;G|0.042	0.042	strong	C17orf57,NS,carcinoma,0,1	.	.	1	NM_152347	exon15	c.T1638G	p.Y546X	GGATTATGAGGAT	.	PASS	Atlas-SNP
DOCK5	80005	hgsc.bcm.edu	37	8	25149612	25149612	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	16	51	0	0.231884	0	.	.	none	.	DOCK5	167	.	NM_024940	exon6	c.C394T	p.L132L	CAGATCCTGTCTG	.	PASS	Atlas-SNP
RBBP8NL	140893	hgsc.bcm.edu	37	20	60989187	60989187	+	Missense_Mutation	SNP	G	G	T	rs45514096	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	26	28	0	0.530612	0	G|0.989;T|0.011	0.011	strong	.	.	.	.	NM_080833	exon10	c.C1220A	p.A407D	GCTGCGGCCAGAG	.	PASS	Atlas-SNP
MTNR1A	4543	hgsc.bcm.edu	37	4	187454951	187454951	+	Silent	SNP	T	T	C	rs8192551	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	81	167	0	0.457627	0	T|0.936;C|0.064	0.064	strong	.	MTNR1A	46	.	NM_005958	exon2	c.A945G	p.T315T	CCTGGCTGTACAG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29821089	29821089	+	Silent	SNP	C	C	T	rs17756919	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	13	48	0	0.325	0	C|0.659;T|0.341	0.341	strong	.	SVIL	226	.	NM_021738	exon9	c.G1851A	p.V617V	CCTCTCCACCCGT	.	PASS	Atlas-SNP
CDHR1	92211	hgsc.bcm.edu	37	10	85958847	85958847	+	Silent	SNP	C	C	T	rs148125234	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	39	98	0	0.414894	0	C|0.999;T|0.001	0.001	strong	.	CDHR1	122	.	NM_001171971	exon5	c.C408T	p.I136I	GTTCATCCAGGAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152283236	152283236	+	Missense_Mutation	SNP	T	T	C	rs11581433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	85	110	1	0.648855	0.00909091	T|0.807;C|0.193	0.193	strong	FLG,NS,carcinoma,+1,1	FLG	900	1	NM_002016	exon3	c.A4126G	p.R1376G	CTTGTCTGTGCCC	.	scavenged	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21232804	21232804	+	Silent	SNP	G	G	A	rs1041968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	75	128	0	0.483871	0	G|0.640;A|0.360	0.360	strong	APOB,NS,malignant_melanoma,-2,1	APOB	761	1	NM_000384	exon26	c.C6936T	p.D2312D	AAGAATGTCATTT	.	PASS	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	37	6	169632219	169632219	+	Silent	SNP	G	G	A	rs35935937	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	50	100	0	0.431034	0	G|0.839;C|0.000;A|0.161	0.161	strong	THBS2,NS,carcinoma,0,1	THBS2	230	1	NM_003247	exon14	c.C2007T	p.G669G	GAAGTGGCCCAGG	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11942615	11942615	+	Silent	SNP	A	A	C	rs394416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	37	90	0	0.41573	0	A|0.516;C|0.484	0.484	strong	ZNF440,NS,carcinoma,0,1	ZNF440	56	1	NM_152357	exon4	c.A624C	p.A208A	GAAAGCATTCCAT	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57414434	57414434	+	Missense_Mutation	SNP	A	A	G	rs4462937	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	128	109	0	1	0	A|0.728;G|0.272	0.272	strong	.	DNAH12	182	.	NM_178504	exon34	c.T5110C	p.Y1704H	CTTGATATTCTGG	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196822004	196822004	+	Missense_Mutation	SNP	A	A	G	rs62623378	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	344	343	352	1	0.997093	0.00284091	A|0.921;G|0.079	0.079	strong	.	DNAH7	512	.	NM_018897	exon19	c.T3059C	p.I1020T	CTCATTATATCTC	.	PASS	Atlas-SNP
PTPRB	5787	hgsc.bcm.edu	37	12	70925864	70925864	+	Missense_Mutation	SNP	C	C	G	rs17226367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	160	135	0	0.993789	0	C|0.968;G|0.032	0.032	strong	.	PTPRB	676	.	NM_001109754	exon32	c.G6455C	p.G2152A	ACTGCTCCATAAA	.	PASS	Atlas-SNP
PDYN	5173	hgsc.bcm.edu	37	20	1961298	1961298	+	Missense_Mutation	SNP	T	T	G	rs77155664	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	49	81	0	0.532609	0	T|0.997;G|0.003	0.003	strong	.	PDYN	74	.	NM_001190898	exon4	c.A436C	p.M146L	CCCTCATCAGCTC	.	PASS	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	37	1	109338861	109338861	+	Silent	SNP	G	G	C	rs1127635	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	233	112	273	0	0.480687	0	G|0.624;C|0.375	0.375	strong	.	STXBP3	44	.	NM_007269	exon14	c.G1116C	p.L372L	GGACCTGGCACTT	.	PASS	Atlas-SNP
NLRP9	338321	hgsc.bcm.edu	37	19	56249672	56249672	+	Silent	SNP	A	A	G	rs56211941	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	54	150	0	0.482143	0	A|0.852;G|0.148	0.148	strong	NLRP9,colon,carcinoma,0,1	NLRP9	163	1	NM_176820	exon1	c.T69C	p.F23F	TTTCCAAAACTCT	.	PASS	Atlas-SNP
LPPR1	0	hgsc.bcm.edu	37	9	104032338	104032338	+	Silent	SNP	C	C	T	rs7847596	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	61	116	0	0.554545	0	C|0.973;T|0.027	0.027	strong	.	.	.	.	NM_207299	exon3	c.C240T	p.T80T	TGCCACCCCAACT	.	PASS	Atlas-SNP
ATP2B1	490	hgsc.bcm.edu	37	12	90028901	90028901	+	Silent	SNP	T	T	C	rs1050395	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	49	91	0	0.422414	0	T|0.837;C|0.163	0.163	strong	.	ATP2B1	191	.	NM_001001323	exon3	c.A534G	p.E178E	CTGTTTTTCCTTA	.	PASS	Atlas-SNP
EBLN2	55096	hgsc.bcm.edu	37	3	73111809	73111809	+	Missense_Mutation	SNP	A	A	G	rs2231926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	43	61	0	0.565789	0	A|0.500;G|0.500	0.500	strong	.	EBLN2	18	.	NM_018029	exon1	c.A577G	p.I193V	ATAGGCATTGCGG	.	PASS	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91666248	91666248	+	Silent	SNP	T	T	C	rs28715808	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	60	125	0	0.5	0	T|0.967;C|0.033	0.033	strong	.	C14orf159	57	.	NM_001102368	exon11	c.T1443C	p.T481T	ATCAACTGGTAAG	.	PASS	Atlas-SNP
C2orf44	80304	hgsc.bcm.edu	37	2	24262060	24262060	+	Missense_Mutation	SNP	G	G	A	rs3731620	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	67	118	0	0.531746	0	G|0.898;N|0.000	.	strong	.	C2orf44	56	.	NM_025203	exon2	c.C305T	p.T102M	TGAGACGTCAGCC	.	PASS	Atlas-SNP
WASF1	8936	hgsc.bcm.edu	37	6	110448742	110448742	+	Silent	SNP	G	G	A	rs55817927	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	65	143	0	0.471014	0	G|0.929;A|0.071	0.071	strong	.	WASF1	35	.	NM_001024935	exon3	c.C63T	p.G21G	CTTAATGCCTCTA	.	PASS	Atlas-SNP
SENP7	57337	hgsc.bcm.edu	37	3	101066717	101066717	+	Missense_Mutation	SNP	T	T	A	rs2433031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	46	108	0	0.351145	0	T|0.679;A|0.321	0.321	strong	SENP7,NS,carcinoma,0,1	SENP7	170	1	NM_020654	exon13	c.A1836T	p.Q612H	CTCACATTGCTGG	.	PASS	Atlas-SNP
PLD2	5338	hgsc.bcm.edu	37	17	4721376	4721376	+	Missense_Mutation	SNP	A	A	G	rs17854914	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	30	82	0	0.375	0	A|0.896;G|0.104	0.104	strong	PLD2,NS,carcinoma,0,1	PLD2	138	1	NM_001243108	exon18	c.A1895G	p.E632G	TCAGGGAGAGCCA	.	PASS	Atlas-SNP
CST11	140880	hgsc.bcm.edu	37	20	23432528	23432528	+	Silent	SNP	A	A	G	rs2236021	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	58	151	0	0.495726	0	A|0.763;G|0.237	0.237	strong	.	CST11	27	.	NM_130794	exon2	c.T258C	p.N86N	TTCCACATTCAGG	.	PASS	Atlas-SNP
UAP1L1	91373	hgsc.bcm.edu	37	9	139973820	139973820	+	Missense_Mutation	SNP	C	C	T	rs7037849	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	48	109	0	0.444444	0	C|0.558;T|0.442	0.442	strong	.	UAP1L1	46	.	NM_207309	exon5	c.C956T	p.A319V	TACGTGCCTCCGA	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169529826	169529826	+	Silent	SNP	C	C	A	rs6022	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	69	102	0	0.385475	0	C|0.638;A|0.362	0.362	strong	.	F5	301	.	NM_000130	exon4	c.G552T	p.S184S	CAGCCCCGAGTTG	.	PASS	Atlas-SNP
EVPL	2125	hgsc.bcm.edu	37	17	74014628	74014628	+	Silent	SNP	G	G	A	rs2071193	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	81	177	0	0.515924	0	T|0.000;G|0.562;C|0.000;A|0.438	0.438	strong	.	EVPL	155	.	NM_001988	exon12	c.C1338T	p.H446H	CCAGGCGTGCGGG	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49197416	49197416	+	Silent	SNP	A	A	G	rs144950409	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	25	67	0	0.352113	0	A|0.914;G|0.086	0.086	strong	.	FOLH1	141	.	NM_004476	exon8	c.T1014C	p.S338S	CTGTGTAGAAAAG	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	703648	703648	+	Missense_Mutation	SNP	A	A	G	rs143047488	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	34	94	0	0.557377	0	A|0.997;G|0.003	0.003	strong	.	WDR90	107	.	NM_145294	exon12	c.A1357G	p.M453V	AGCCCAATGCACG	.	PASS	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	37	3	7620382	7620382	+	Silent	SNP	C	C	T	rs7614915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	77	110	0	0.583333	0	C|0.804;T|0.196	0.196	strong	.	GRM7	223	.	NM_000844	exon8	c.C1789T	p.L597L	GTCTTCCTGGCAA	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632781	32632781	+	Missense_Mutation	SNP	A	A	T	rs74184882	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	14	93	0	0.264151	0	CCC|1.000;|0.000	.	alt	.	HLA-DQB1	15	.	NM_002123	exon2	c.T173A	p.L58H	GTCACAAGACGCA	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52746153	52746153	+	Silent	SNP	C	C	T	rs9298462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	49	59	0	1	0	C|0.530;T|0.470	0.470	strong	.	PCMTD1	73	.	NM_052937	exon4	c.G507A	p.V169V	TTTCTGCACTCCA	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111862074	111862074	+	Silent	SNP	C	C	T	rs2820092	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	48	101	0	0.475248	0	C|0.834;T|0.166	0.166	strong	.	CHIA	115	.	NM_201653	exon11	c.C1161T	p.L387L	GGCCCTCGGCCTG	.	PASS	Atlas-SNP
FOCAD	54914	hgsc.bcm.edu	37	9	20953049	20953049	+	Missense_Mutation	SNP	A	A	G	rs3206852	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	26	78	0	0.45614	0	G|0.351;A|0.649	0.351	strong	KIAA1797,NS,carcinoma,0,1	.	.	1	NM_017794	exon37	c.A4117G	p.T1373A	TTCATTACAGGAG	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46908355	46908355	+	Silent	SNP	T	T	C	rs11702425	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	28	68	0	0.405797	0	T|0.680;C|0.320	0.320	strong	.	COL18A1	129	.	NM_030582	exon17	c.T2460C	p.L820L	GGGACTTAAGGTC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13700783	13700783	+	Missense_Mutation	SNP	C	C	G	rs374221053		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	75	173	0	0.483871	0	.	.	weak	.	DNAH5	868	.	NM_001369	exon78	c.G13689C	p.L4563F	AGGCATCAACTCA	.	PASS	Atlas-SNP
ACTR3C	653857	hgsc.bcm.edu	37	7	149981856	149981856	+	Missense_Mutation	SNP	G	G	A	rs117425825	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	35	58	0	0.57377	0	G|0.976;A|0.024	0.024	strong	.	.	.	.	NM_001164459	exon6	c.C550T	p.R184C	GCGGACGCCGCAC	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42525132	42525132	+	Silent	SNP	G	G	C	rs61736911	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	23	50	0	0.319444	0	G|0.414;C|0.586	0.586	strong	.	CYP2D6	104	.	NM_000106	exon3	c.C408G	p.V136V	GGTGGAGACGGAG	.	PASS	Atlas-SNP
SLC6A5	9152	hgsc.bcm.edu	37	11	20623023	20623023	+	Silent	SNP	C	C	T	rs2241941	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	19	26	0	0.431818	0	C|0.662;A|0.004	.	strong	.	SLC6A5	151	.	NM_004211	exon2	c.C352T	p.L118L	AACGCGCTGCACT	.	PASS	Atlas-SNP
PKP3	11187	hgsc.bcm.edu	37	11	403980	403980	+	Silent	SNP	G	G	A	rs11748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	35	68	0	0.686275	0	G|0.467;A|0.533	0.533	strong	.	PKP3	36	.	NM_007183	exon11	c.G2115A	p.P705P	GCTGCCGGGCAGC	.	PASS	Atlas-SNP
ME3	10873	hgsc.bcm.edu	37	11	86159223	86159223	+	Silent	SNP	C	C	T	rs34662182	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	48	62	0	0.592593	0	C|0.946;T|0.054	0.054	strong	ME3,NS,carcinoma,0,1	ME3	70	1	NM_006680	exon11	c.G1206A	p.V402V	CCTCACCACCTCC	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11105608	11105608	+	Silent	SNP	T	T	C	rs7935	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	63	116	0	0.5	0	C|0.324;N|0.001	0.324	strong	.	SMARCA4	502	.	NM_003072	exon9	c.T1524C	p.H508H	GTACCATGCCAAC	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	37	3	58112488	58112488	+	Silent	SNP	C	C	T	rs2362904	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	40	111	0	0.357143	0	C|0.489;T|0.511	0.511	strong	.	FLNB	430	.	NM_001457	exon24	c.C4221T	p.P1407P	CATCCCCGGTGAG	.	PASS	Atlas-SNP
CHAMP1	283489	hgsc.bcm.edu	37	13	115090193	115090193	+	Silent	SNP	G	G	A	rs3813133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	41	74	0	0.672131	0	G|0.893;A|0.107	0.107	strong	.	.	.	.	NM_001164144	exon3	c.G876A	p.P292P	GAAGCCGTTCCCT	.	PASS	Atlas-SNP
GPATCH8	23131	hgsc.bcm.edu	37	17	42475983	42475983	+	Silent	SNP	G	G	C	rs936019	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	41	94	0	0.488095	0	G|0.435;C|0.565	0.565	strong	GPATCH8,NS,adenoma,0,1	GPATCH8	114	1	NM_001002909	exon8	c.C3462G	p.T1154T	CTTTCGGGTAGCT	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31242869	31242869	+	Silent	SNP	G	G	A	rs201738430	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	421	124	327	0	0.294537	0	G|0.889;A|0.111	0.111	strong	DDX11_ENST00000407793,NS,carcinoma,0,16	DDX11	188	16	NM_030653	exon9	c.G930A	p.E310E	GCAGGAGAAGCAG	.	scavenged	Atlas-SNP
C8orf44	56260	hgsc.bcm.edu	37	8	67592152	67592152	+	Missense_Mutation	SNP	T	T	C	rs1057463	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	60	48	0	1	0	T|0.781;C|0.219	0.219	strong	.	C8orf44	18	.	NM_019607	exon3	c.T443C	p.F148S	AAGGCTTCTGGAG	.	PASS	Atlas-SNP
TREX1	11277	hgsc.bcm.edu	37	3	48508585	48508585	+	Silent	SNP	C	C	T	rs11797	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	93	140	0	0.615894	0	C|0.642;T|0.358	0.358	strong	.	TREX1	17	.	NM_016381	exon1	c.C696T	p.Y232Y	GAGCTACAGCCTA	.	PASS	Atlas-SNP
NUDT5	11164	hgsc.bcm.edu	37	10	12209752	12209752	+	Silent	SNP	T	T	C	rs6686	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	40	54	0	0.454545	0	T|0.523;C|0.477	0.477	strong	.	NUDT5	10	.	NM_014142	exon10	c.A609G	p.A203A	TTTCAGTGCTAGA	.	PASS	Atlas-SNP
C1orf112	55732	hgsc.bcm.edu	37	1	169773317	169773317	+	Silent	SNP	G	G	A	rs11590604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	120	133	0	0.594059	0	G|0.890;A|0.110	0.110	strong	C1orf112,NS,carcinoma,0,1	C1orf112	74	1	NM_018186	exon6	c.G414A	p.L138L	GGAACTGCTGGAC	.	PASS	Atlas-SNP
ABT1	29777	hgsc.bcm.edu	37	6	26598188	26598188	+	Silent	SNP	A	A	G	rs3800303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	47	135	0	0.423423	0	A|0.536;G|0.464	0.464	strong	.	ABT1	39	.	NM_013375	exon2	c.A288G	p.G96G	CGGAGGAAAAAAG	.	PASS	Atlas-SNP
POLA2	23649	hgsc.bcm.edu	37	11	65064690	65064690	+	Missense_Mutation	SNP	G	G	A	rs487989	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	18	37	0	0.545455	0	A|0.140;C|0.005	0.140	strong	.	POLA2	75	.	NM_002689	exon18	c.G1747A	p.G583R	GCGGACGGGGCAG	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31250830	31250830	+	Missense_Mutation	SNP	C	C	G	rs2911826	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	16	137	4	0.114286	0.0291971	.	.	weak	DDX11,extremity,malignant_melanoma,0,1	DDX11	188	1	NM_030653	exon18	c.C1774G	p.Q592E	CTCAGTCAGAGCA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513365	195513365	+	Missense_Mutation	SNP	G	G	A	rs62282501	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	317	107	133	0	0.337539	0	G|0.863;A|0.137	0.137	strong	.	MUC4	1505	.	NM_018406	exon2	c.C5086T	p.R1696C	GAAGACGGGTGGT	.	PASS	Atlas-SNP
AQP12B	653437	hgsc.bcm.edu	37	2	241621869	241621869	+	Missense_Mutation	SNP	G	G	A	rs74882485	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	23	37	1	0.333333	0.027027	G|0.972;A|0.028	0.028	strong	AQP12B,rectum,carcinoma,0,2	AQP12B	33	2	NM_001102467	exon1	c.C386T	p.T129M	AGGCGCGTCAGGG	.	scavenged	Atlas-SNP
CNTN3	5067	hgsc.bcm.edu	37	3	74344356	74344356	+	Silent	SNP	T	T	G	rs10490832	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	56	83	0	0.528302	0	T|0.912;G|0.088	0.088	strong	.	CNTN3	174	.	NM_020872	exon18	c.A2433C	p.A811A	GCTATTTGCAGAG	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149481994	149481994	+	Missense_Mutation	SNP	G	G	T	rs73168055	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	38	60	0	0.475	0	G|0.966;T|0.034	0.034	strong	.	.	.	.	NM_198455	exon20	c.G2782T	p.V928F	GAGCTTGTCTATG	.	PASS	Atlas-SNP
GLDN	342035	hgsc.bcm.edu	37	15	51689772	51689772	+	Missense_Mutation	SNP	G	G	A	rs17648128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	62	128	0	0.521008	0	G|0.690;A|0.310	0.310	strong	.	GLDN	54	.	NM_181789	exon6	c.G794A	p.S265N	AGCCAAGCATGTT	.	PASS	Atlas-SNP
MASP2	10747	hgsc.bcm.edu	37	1	11090897	11090897	+	Missense_Mutation	SNP	A	A	G	rs2273346	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	92	206	0	0.479167	0	A|0.916;G|0.084	0.084	strong	.	MASP2	71	.	NM_006610	exon9	c.T1130C	p.V377A	TACTCCACTCGGC	.	PASS	Atlas-SNP
BLK	640	hgsc.bcm.edu	37	8	11406593	11406593	+	Silent	SNP	T	T	C	rs3816668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	67	142	0	0.468531	0	T|0.538;C|0.462	0.462	strong	.	BLK	78	.	NM_001715	exon5	c.T330C	p.S110S	GCCCAGTAACTTT	.	PASS	Atlas-SNP
TBC1D2	55357	hgsc.bcm.edu	37	9	100995721	100995721	+	Missense_Mutation	SNP	A	A	G	rs879369	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	27	51	0	0.574468	0	T|0.000;G|0.439;C|0.000;A|0.561	0.439	strong	.	TBC1D2	70	.	NM_001267571	exon4	c.T758C	p.L253S	GAGGCCAAGGGCT	.	PASS	Atlas-SNP
ARGFX	503582	hgsc.bcm.edu	37	3	121304933	121304933	+	Missense_Mutation	SNP	G	G	A	rs9813391	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	104	82	0	1	0	G|0.786;A|0.214	0.214	strong	.	ARGFX	36	.	NM_001012659	exon5	c.G434A	p.R145Q	AGCAACGAAACCA	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112686988	112686988	+	Missense_Mutation	SNP	G	G	A	rs13027171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	230	121	224	0	0.526087	0	G|0.804;A|0.196	0.196	strong	.	MERTK	112	.	NM_006343	exon2	c.G353A	p.S118N	CAATCAGTGTACC	.	PASS	Atlas-SNP
FBXW5	54461	hgsc.bcm.edu	37	9	139835558	139835558	+	Missense_Mutation	SNP	C	C	T	rs45559439	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	39	73	0	0.481481	0	C|0.985;T|0.015	0.015	strong	.	FBXW5	36	.	NM_018998	exon9	c.G1523A	p.R508Q	TCGTGCCGCAGCC	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164783165	164783165	+	Missense_Mutation	SNP	T	T	C	rs9283633	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	104	138	0	0.55914	0	T|0.416;C|0.584	0.584	strong	.	SI	500	.	NM_001041	exon7	c.A691G	p.T231A	GACGGGTTGAGAT	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39137104	39137104	+	Missense_Mutation	SNP	A	A	G	rs9908389	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	33	65	0	0.6	0	A|0.657;G|0.343	0.343	strong	.	KRT40	27	.	NM_182497	exon7	c.T908C	p.M303T	ATCTCCATCTGGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195517124	195517124	+	Silent	SNP	G	G	A	rs1806440	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	198	79	164	0	0.39899	0	G|0.871;A|0.129	0.129	strong	.	MUC4	1505	.	NM_018406	exon2	c.C1327T	p.L443L	GAGGTAGAGAACT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470068	10470068	+	Missense_Mutation	SNP	C	C	T	rs74990397	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	19	17	0	1	0	C|0.632;T|0.368	0.368	strong	RP1L1,NS,haematopoietic_neoplasm,0,1	RP1L1	453	1	NM_178857	exon4	c.G1540A	p.G514S	CTGGGCCGCCCAG	.	PASS	Atlas-SNP
UMPS	7372	hgsc.bcm.edu	37	3	124462808	124462808	+	Silent	SNP	C	C	T	rs13146	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	57	124	0	0.375	0	C|0.830;A|0.001	.	strong	.	UMPS	43	.	NM_000373	exon6	c.C1320T	p.G440G	TATTGGCAAACGA	.	PASS	Atlas-SNP
OR4D11	219986	hgsc.bcm.edu	37	11	59271637	59271637	+	Missense_Mutation	SNP	T	T	C	rs7120079	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	337	164	286	1	0.486647	0.0034965	T|0.696;C|0.304	0.304	strong	OR4D11,NS,carcinoma,0,1	OR4D11	62	1	NM_001004706	exon1	c.T589C	p.F197L	CTTGAGTTCTTGA	.	PASS	Atlas-SNP
TM7SF2	7108	hgsc.bcm.edu	37	11	64880743	64880743	+	Missense_Mutation	SNP	C	C	T	rs11539360	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	14	22	0	0.341463	0	C|0.967;T|0.033	0.033	strong	.	TM7SF2	30	.	NM_003273	exon4	c.C356T	p.A119V	TGTCAGCGGGGCT	.	PASS	Atlas-SNP
ZNF765	91661	hgsc.bcm.edu	37	19	53911510	53911510	+	Silent	SNP	G	G	A	rs8182488	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	51	100	0	0.476636	0	G|0.796;A|0.204	0.204	strong	.	ZNF765	61	.	NM_001040185	exon4	c.G702A	p.Q234Q	ACATCAGTTAATC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1087972	1087972	+	Silent	SNP	C	C	T	rs10902088	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	61	101	0	0.525862	0	C|0.712;T|0.288	0.288	strong	.	MUC2	614	.	NM_002457	exon25	c.C3447T	p.N1149N	CATCAACGGCATC	.	PASS	Atlas-SNP
ZNF805	390980	hgsc.bcm.edu	37	19	57764770	57764770	+	Missense_Mutation	SNP	G	G	A	rs10421632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	99	99	0	1	0	G|0.634;A|0.366	0.366	strong	.	ZNF805	30	.	NM_001023563	exon4	c.G583A	p.V195I	AATCCAGTTATTC	.	PASS	Atlas-SNP
KDM5A	5927	hgsc.bcm.edu	37	12	406292	406292	+	Silent	SNP	G	G	A	rs2229351	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	14	45	0	0.341463	0	T|0.139;G|0.444;C|0.211;A|0.206	0.206	strong	KDM5A_ENST00000399788,trunk,malignant_melanoma,-1,2	KDM5A	307	2	NM_001042603	exon25	c.C4149T	p.S1383S	CTCCTCGGATTTG	.	PASS	Atlas-SNP
PPP1R1C	151242	hgsc.bcm.edu	37	2	182981968	182981968	+	Silent	SNP	A	A	G	rs1882212	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	231	125	233	0	0.541126	0	A|0.704;G|0.296	0.296	strong	.	PPP1R1C	14	.	NM_001261424	exon5	c.A297G	p.A99A	ATCAGCATTCCCT	.	PASS	Atlas-SNP
EIF2A	83939	hgsc.bcm.edu	37	3	150285520	150285520	+	Silent	SNP	T	T	C	rs2293151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	222	135	157	0	0.608108	0	T|0.885;C|0.115	0.115	strong	.	EIF2A	59	.	NM_032025	exon7	c.T516C	p.D172D	TAATGATTTTGTA	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156289917	156289917	+	Missense_Mutation	SNP	G	G	A	rs3733391	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	311	149	391	0	0.4791	0	G|0.847;A|0.153	0.153	strong	MAP9,NS,carcinoma,+1,2	MAP9	79	2	NM_001039580	exon5	c.C529T	p.R177W	TTGGCCGAGGTGA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280782	152280782	+	Missense_Mutation	SNP	A	A	G	rs2184953	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	362	270	235	0	0.745856	0	A|0.483;G|0.517	0.517	strong	.	FLG	900	.	NM_002016	exon3	c.T6580C	p.Y2194H	TGTCATATGTTTT	.	PASS	Atlas-SNP
CHPF2	54480	hgsc.bcm.edu	37	7	150935430	150935430	+	Missense_Mutation	SNP	G	G	C	rs3748098	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	46	43	0	1	0	G|0.948;C|0.052	0.052	strong	.	CHPF2	52	.	NM_019015	exon4	c.G1982C	p.G661A	CTATAGGGGGGAG	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851968	97851968	+	Missense_Mutation	SNP	C	C	T	rs139235176	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	484	48	414	2	0.0991736	0.00483092	C|0.989;T|0.011	0.011	strong	OR5H1,colon,carcinoma,0,1	OR5H1	71	1	NM_001005338	exon1	c.C427T	p.R143W	TGCATCCGGCTAT	.	scavenged	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549424	32549424	+	Missense_Mutation	SNP	C	C	T	rs112116022	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	249	20	229	0	0.0803213	0	C|0.500;T|0.500	0.500	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.G562A	p.V188M	GCATCACCAGGGT	.	PASS	Atlas-SNP
MTRF1L	54516	hgsc.bcm.edu	37	6	153316326	153316326	+	Silent	SNP	A	A	G	rs3734467	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	88	218	0	0.442211	0	A|0.888;G|0.112	0.112	strong	MTRF1L,NS,carcinoma,0,1	MTRF1L	21	1	NM_019041	exon3	c.T468C	p.Y156Y	TGCAGCATATTGC	.	PASS	Atlas-SNP
GDAP1	54332	hgsc.bcm.edu	37	8	75274141	75274141	+	Silent	SNP	T	T	G	rs11554166	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	21	44	0	0.552632	0	T|0.753;G|0.247	0.247	strong	.	GDAP1	36	.	NM_018972	exon4	c.T507G	p.S169S	AGAGTCTGAGCTG	.	PASS	Atlas-SNP
GLB1L3	112937	hgsc.bcm.edu	37	11	134147600	134147600	+	Silent	SNP	T	T	C	rs76849136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	23	74	0	0.377049	0	T|0.981;C|0.019	0.019	strong	.	GLB1L3	102	.	NM_001080407	exon3	c.T156C	p.N52N	GTTTAATTGGTCT	.	PASS	Atlas-SNP
IFI44	10561	hgsc.bcm.edu	37	1	79115905	79115905	+	Missense_Mutation	SNP	T	T	C	rs2070123	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	43	123	0	0.434343	0	T|0.891;C|0.109	0.109	strong	IFI44,NS,carcinoma,-1,1	IFI44	55	1	NM_006417	exon2	c.T25C	p.W9R	TTGACATGGTTGC	.	PASS	Atlas-SNP
WWC3	55841	hgsc.bcm.edu	37	X	10085602	10085602	+	Silent	SNP	A	A	C	rs56130457	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	27	25	0	1	0	A|0.995;C|0.005	0.005	strong	.	WWC3	142	.	NM_015691	exon11	c.A1503C	p.A501A	GCGGGCACACGCC	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140994517	140994517	+	Missense_Mutation	SNP	C	C	G	rs62611966	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	112	145	0	1	0	C|0.929;G|0.071	0.071	strong	.	MAGEC1	317	.	NM_005462	exon4	c.C1327G	p.L443V	TCTCCTCTCCAGA	.	PASS	Atlas-SNP
MROH7	374977	hgsc.bcm.edu	37	1	55119637	55119637	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	77	171	0	0.52381	0	.	.	none	.	.	.	.	NM_001039464	exon3	c.C1038G	p.S346R	GTTCAGCGACACC	.	PASS	Atlas-SNP
MYO9B	4650	hgsc.bcm.edu	37	19	17301935	17301935	+	Silent	SNP	G	G	A	rs55959020	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	43	107	0	0.373913	0	G|0.975;A|0.025	0.025	strong	.	MYO9B	264	.	NM_001130065	exon20	c.G2718A	p.L906L	GCTCCTGCCCAAG	.	PASS	Atlas-SNP
MPPE1	65258	hgsc.bcm.edu	37	18	11886563	11886563	+	Missense_Mutation	SNP	C	C	G	rs662515	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	118	174	0	0.614583	0	C|0.545;G|0.455	0.455	strong	.	MPPE1	21	.	NM_023075	exon9	c.G802C	p.A268P	CCTCTGCAGGAGC	.	PASS	Atlas-SNP
GRB14	2888	hgsc.bcm.edu	37	2	165476253	165476253	+	Missense_Mutation	SNP	A	A	T	rs61748245	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	239	238	205	0	0.995816	0	A|0.485;T|0.515	0.515	strong	GRB14,trunk,malignant_melanoma,+1,1	GRB14	73	1	NM_004490	exon2	c.T268A	p.F90I	ATGTAAATGGAGA	.	PASS	Atlas-SNP
RNF20	56254	hgsc.bcm.edu	37	9	104324545	104324545	+	Silent	SNP	G	G	A	rs10521057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	50	96	0	0.490196	0	G|0.836;A|0.164	0.164	strong	RNF20,NS,carcinoma,0,1	RNF20	110	1	NM_019592	exon20	c.G2769A	p.P923P	CTGTCCGTGCTGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9059181	9059181	+	Missense_Mutation	SNP	G	G	A	rs12459532	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	55	81	0	0.482456	0	G|0.977;A|0.023	0.023	strong	.	MUC16	4315	.	NM_024690	exon3	c.C28265T	p.P9422L	GGGCTTGGCCATG	.	PASS	Atlas-SNP
TAS2R9	50835	hgsc.bcm.edu	37	12	10962115	10962115	+	Missense_Mutation	SNP	A	A	G	rs3741845	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	81	78	0	0.975904	0	G|0.526;N|0.001	0.526	strong	.	TAS2R9	39	.	NM_023917	exon1	c.T560C	p.V187A	ACCATCACCCCCA	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97873994	97873994	+	Silent	SNP	G	G	A	rs1874344	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	42	55	1	1	0.0181818	G|0.696;A|0.304	0.304	strong	TECPR1,NS,carcinoma,0,2	TECPR1	77	2	NM_015395	exon5	c.C420T	p.Y140Y	GATGGCGTACGTC	.	scavenged	Atlas-SNP
ATF5	22809	hgsc.bcm.edu	37	19	50436115	50436115	+	Silent	SNP	C	C	T	rs61742136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	32	66	0	0.457143	0	C|0.967;T|0.033	0.033	strong	.	ATF5	27	.	NM_012068	exon4	c.C615T	p.T205T	TGCCACCACCCGA	.	PASS	Atlas-SNP
DAGLA	747	hgsc.bcm.edu	37	11	61511133	61511133	+	Silent	SNP	G	G	A	rs3741251	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	18	7	0	1	0	G|0.868;A|0.132	0.132	strong	.	DAGLA	109	.	NM_006133	exon20	c.G2301A	p.A767A	GCTGGCGGCGGAG	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	37	19	23557502	23557502	+	Missense_Mutation	SNP	G	G	A	rs141062920	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	27	60	0	0.574468	0	G|0.932;A|0.068	0.068	strong	.	ZNF91	349	.	NM_003430	exon2	c.C95T	p.T32I	TGTGCAGTGTCCA	.	PASS	Atlas-SNP
PPP1R12C	54776	hgsc.bcm.edu	37	19	55624113	55624113	+	Silent	SNP	G	G	A	rs34521018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	38	74	0	0.5	0	G|0.877;A|0.123	0.123	strong	.	PPP1R12C	46	.	NM_017607	exon2	c.C372T	p.G124G	AGTGGCGCCCTGC	.	PASS	Atlas-SNP
TMEM132B	114795	hgsc.bcm.edu	37	12	126137060	126137060	+	Missense_Mutation	SNP	C	C	T	rs61021440	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	144	163	0	0.888889	0	C|0.759;T|0.241	0.241	strong	TMEM132B,NS,carcinoma,-1,1	TMEM132B	207	1	NM_052907	exon8	c.C1973T	p.A658V	CCATCGCGGAGCT	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	740901	740901	+	Silent	SNP	C	C	T	rs2296049	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	36	80	1	0.428571	0.0125	C|0.732;T|0.268	0.268	strong	KANK1,NS,carcinoma,0,1	KANK1	231	1	NM_001256876	exon13	c.C3663T	p.F1221F	ACTCTTCGGCTGT	.	scavenged	Atlas-SNP
P2RX7	5027	hgsc.bcm.edu	37	12	121622419	121622419	+	Silent	SNP	G	G	T	rs3751142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	28	32	0	0.528302	0	G|0.883;T|0.117	0.117	strong	.	P2RX7	53	.	NM_002562	exon13	c.G1602T	p.L534L	CTTGCTGGCGCTG	.	PASS	Atlas-SNP
TMEM232	642987	hgsc.bcm.edu	37	5	109954164	109954164	+	Missense_Mutation	SNP	C	C	T	rs61978570	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	68	115	0	0.507463	0	C|0.980;T|0.020	0.020	strong	.	TMEM232	57	.	NM_001039763	exon8	c.G868A	p.V290I	GGAAGACGAGATG	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	840378	840378	+	Missense_Mutation	SNP	A	A	G	rs3765263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	37	72	0	0.451219	0	A|0.564;G|0.436	0.436	strong	CHTF18,NS,carcinoma,0,1	CHTF18	52	1	NM_022092	exon6	c.A731G	p.K244R	CCCAGAAGCTTTC	.	PASS	Atlas-SNP
OR13G1	441933	hgsc.bcm.edu	37	1	247836207	247836207	+	Missense_Mutation	SNP	T	T	A	rs28711149	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	31	84	0	0.382716	0	T|0.663;A|0.337	0.337	strong	.	OR13G1	78	.	NM_001005487	exon1	c.A137T	p.K46I	TAGATTTTGGCAA	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81211496	81211496	+	Missense_Mutation	SNP	C	C	A	rs9935113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	34	43	0	0.68	0	C|0.823;A|0.177	0.177	strong	.	PKD1L2	361	.	NM_001076780	exon14	c.G2353T	p.G785C	CGGTGCCCTCCTC	.	PASS	Atlas-SNP
PARL	55486	hgsc.bcm.edu	37	3	183580581	183580581	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	30	46	0	0.416667	0	.	.	none	.	PARL	32	.	NM_018622	exon4	c.G471A	p.K157K	CCACCACTTGTTA	.	PASS	Atlas-SNP
C17orf53	78995	hgsc.bcm.edu	37	17	42225547	42225547	+	Missense_Mutation	SNP	A	A	C	rs227584	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	44	97	0	0.468085	0	T|0.004;G|0.002	.	strong	.	C17orf53	59	.	NM_001171251	exon3	c.A376C	p.T126P	AGAGAGACAGCAA	.	PASS	Atlas-SNP
PCNXL2	80003	hgsc.bcm.edu	37	1	233122127	233122127	+	Missense_Mutation	SNP	C	C	T	rs41309639	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	34	54	0	0.435897	0	C|0.800;T|0.200	0.200	strong	PCNXL2,NS,carcinoma,0,2	PCNXL2	204	2	NM_014801	exon33	c.G5951A	p.R1984Q	GAGAGCCGGCTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511364	195511364	+	Missense_Mutation	SNP	T	T	A	rs75187745	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	11	65	2	0.0635838	0.0307692	T|0.500;A|0.500	0.500	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A7087T	p.T2363S	CACCTGTGGATAC	.	scavenged	Atlas-SNP
RBMXL2	27288	hgsc.bcm.edu	37	11	7110548	7110548	+	Missense_Mutation	SNP	C	C	T	rs11041170	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	23	52	0	0.359375	0	C|0.795;T|0.205	0.205	strong	.	RBMXL2	47	.	NM_014469	exon1	c.C197T	p.A66V	CCGCCGCCAGAGA	.	PASS	Atlas-SNP
ELFN1	392617	hgsc.bcm.edu	37	7	1785738	1785738	+	Silent	SNP	G	G	A	rs61236605	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	21	9	0	0.807692	0	G|0.868;A|0.132	0.132	strong	.	ELFN1	22	.	NM_001128636	exon2	c.G1506A	p.A502A	GCCTGCGGCCGGC	.	PASS	Atlas-SNP
MDH1B	130752	hgsc.bcm.edu	37	2	207619779	207619779	+	Silent	SNP	A	A	G	rs59358632	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	66	127	0	0.559322	0	A|0.884;G|0.116	0.116	strong	.	MDH1B	89	.	NM_001039845	exon5	c.T864C	p.G288G	CGCTTCACCTTCC	.	PASS	Atlas-SNP
AGMAT	79814	hgsc.bcm.edu	37	1	15905471	15905471	+	Missense_Mutation	SNP	G	G	T	rs116813534	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	51	86	0	0.607143	0	A|0.007;G|0.993;T|0.000	0.000	strong	.	AGMAT	25	.	NM_024758	exon4	c.C603A	p.H201Q	CGCCCCGTGGTAG	.	PASS	Atlas-SNP
C9orf139	401563	hgsc.bcm.edu	37	9	139929435	139929435	+	Missense_Mutation	SNP	A	A	G	rs12337910	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	21	44	0	0.388889	0	A|0.906;G|0.094	0.094	strong	.	C9orf139	12	.	NM_207511	exon3	c.A502G	p.K168E	GAAAGAAAAGGGC	.	PASS	Atlas-SNP
SERPINA10	51156	hgsc.bcm.edu	37	14	94756750	94756750	+	Missense_Mutation	SNP	T	T	C	rs941591	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	58	54	0	1	0	T|0.700;C|0.300	0.300	strong	SERPINA10,NS,carcinoma,0,1	SERPINA10	83	1	NM_001100607	exon2	c.A181G	p.S61G	CCTCACTGGCCTT	.	PASS	Atlas-SNP
FAM135B	51059	hgsc.bcm.edu	37	8	139164570	139164570	+	Silent	SNP	C	C	T	rs3750307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	44	90	0	0.488889	0	C|0.791;N|0.000	.	strong	LOC51059,caecum,carcinoma,0,2	FAM135B	423	2	NM_015912	exon13	c.G2148A	p.P716P	AACAAACGGGTGC	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305956	39305956	+	Missense_Mutation	SNP	G	G	A	rs1497383	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	48	92	0	0.48	0	G|0.556;A|0.444	0.444	strong	.	KRTAP4-5	34	.	NM_033188	exon1	c.C64T	p.R22C	TGGGGCGGCAGCA	.	PASS	Atlas-SNP
LDB3	11155	hgsc.bcm.edu	37	10	88466465	88466465	+	Silent	SNP	C	C	T	rs45459491	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	71	139	0	0.432927	0	C|0.976;T|0.024	0.024	strong	.	LDB3	164	.	NM_007078	exon7	c.C1074T	p.A358A	TCCTGCCGACAGC	.	PASS	Atlas-SNP
LAMP2	3920	hgsc.bcm.edu	37	X	119576455	119576455	+	Silent	SNP	G	G	A	rs73219144	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	36	46	0	0.947368	0	G|0.975;A|0.025	0.025	strong	.	LAMP2	101	.	NM_013995	exon7	c.C927T	p.S309S	CTTACCGGAGCCA	.	PASS	Atlas-SNP
FUT6	2528	hgsc.bcm.edu	37	19	5832209	5832209	+	Missense_Mutation	SNP	G	G	A	rs778805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	62	121	2	0.492063	0.0165289	G|0.555;A|0.445	0.445	strong	FUT6,NS,carcinoma,+1,1	FUT6	30	1	NM_000150	exon3	c.C370T	p.P124S	GCCTCGGGGAGCG	.	scavenged	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40392360	40392360	+	Missense_Mutation	SNP	G	G	A	rs200977347		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	13	405	0	0.541667	0	.	.	weak	FCGBP,rectum,carcinoma,0,1	FCGBP	416	1	NM_003890	exon16	c.C8144T	p.A2715V	CCAGCTGCCTGGC	.	scavenged	Atlas-SNP
MLN	4295	hgsc.bcm.edu	37	6	33768897	33768897	+	Missense_Mutation	SNP	A	A	G	rs2281820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	60	130	0	0.458015	0	A|0.403;G|0.597	0.597	strong	.	MLN	16	.	NM_002418	exon2	c.T44C	p.V15A	GCAGCTACATGCA	.	PASS	Atlas-SNP
OR7C1	26664	hgsc.bcm.edu	37	19	14910321	14910321	+	Missense_Mutation	SNP	A	A	G	rs16979912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	24	75	0	0.387097	0	A|0.757;G|0.243	0.243	strong	.	OR7C1	58	.	NM_198944	exon1	c.T628C	p.S210P	TGAAGGAAATCAC	.	PASS	Atlas-SNP
OR51I1	390063	hgsc.bcm.edu	37	11	5462255	5462255	+	Missense_Mutation	SNP	C	C	G	rs11037445	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	42	103	0	0.482759	0	C|0.771;G|0.229	0.229	strong	.	OR51I1	66	.	NM_001005288	exon1	c.G490C	p.V164L	TCACCACAAAAGG	.	PASS	Atlas-SNP
FZD6	8323	hgsc.bcm.edu	37	8	104312432	104312432	+	Missense_Mutation	SNP	A	A	G	rs827528	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	100	178	0	0.531915	0	A|0.785;G|0.215;T|0.000	0.215	strong	FZD6,colon,carcinoma,0,1	FZD6	61	1	NM_003506	exon2	c.A97G	p.M33V	AGATGTATGAAAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9058942	9058942	+	Missense_Mutation	SNP	C	C	T	rs1833778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	60	124	0	0.582524	0	C|0.535;T|0.465	0.465	strong	.	MUC16	4315	.	NM_024690	exon3	c.G28504A	p.A9502T	TAGAAGCGGCCAG	.	PASS	Atlas-SNP
PRAMEF4	400735	hgsc.bcm.edu	37	1	12942047	12942047	+	Missense_Mutation	SNP	C	C	T	rs79683176		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	4	44	2	0.0816327	0.0454545	T|1.000;|0.000	1.000	weak	PRAMEF4,NS,carcinoma,+1,1	PRAMEF4	62	1	NM_001009611	exon3	c.G503A	p.C168Y	AGGAGGCAGGTGA	.	scavenged	Atlas-SNP
CCDC150	284992	hgsc.bcm.edu	37	2	197541296	197541296	+	Silent	SNP	G	G	A	rs17271281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	279	125	356	0	0.448029	0	G|0.912;A|0.088	0.088	strong	.	CCDC150	96	.	NM_001080539	exon12	c.G1281A	p.E427E	CCTTGAGCATAAC	.	PASS	Atlas-SNP
SYT8	90019	hgsc.bcm.edu	37	11	1857762	1857762	+	Silent	SNP	C	C	T	rs3741230	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	33	92	0	0.417722	0	C|0.910;T|0.090	0.090	strong	.	SYT8	29	.	NM_138567	exon6	c.C666T	p.T222T	GGGCACCGTGGAT	.	PASS	Atlas-SNP
OR7D4	125958	hgsc.bcm.edu	37	19	9325252	9325252	+	Missense_Mutation	SNP	G	G	A	rs61729907	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	60	136	0	0.491803	0	G|0.845;A|0.155	0.155	strong	.	OR7D4	66	.	NM_001005191	exon1	c.C262T	p.R88W	TGCTCCGTGCCTG	.	PASS	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1584324	1584324	+	Silent	SNP	A	A	G	rs7503397	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	46	109	0	0.403509	0	A|0.695;G|0.305	0.305	strong	.	PRPF8	169	.	NM_006445	exon7	c.T891C	p.N297N	AATATCATTGAAT	.	PASS	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	37	22	21988602	21988602	+	Missense_Mutation	SNP	C	C	T	rs861853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	16	28	0	0.571429	0	C|0.817;T|0.183	0.183	strong	.	CCDC116	56	.	NM_152612	exon3	c.C364T	p.R122W	GGTGGACGGCGGG	.	PASS	Atlas-SNP
RNF17	56163	hgsc.bcm.edu	37	13	25367301	25367301	+	Silent	SNP	C	C	T	rs1158061	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	28	54	0	0.528302	0	C|0.771;T|0.229	0.229	strong	.	RNF17	259	.	NM_001184993	exon10	c.C1057T	p.L353L	TCTGTCCTAACCA	.	PASS	Atlas-SNP
ECSIT	51295	hgsc.bcm.edu	37	19	11617073	11617073	+	Missense_Mutation	SNP	C	C	T	rs35513404	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	29	36	0	0.644444	0	C|0.978;T|0.022	0.022	strong	.	ECSIT	32	.	NM_016581	exon8	c.G1222A	p.E408K	GCTCCTCCAGCCC	.	PASS	Atlas-SNP
FGFR4	2264	hgsc.bcm.edu	37	5	176520243	176520243	+	Missense_Mutation	SNP	G	G	A	rs351855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	35	35	0	0.538462	0	G|0.732;T|0.008	.	strong	FGFR4_ENST00000292408,rectum,carcinoma,0,1	FGFR4	174	1	NM_002011	exon9	c.G1162A	p.G388R	CTGGCCGGGCTGT	.	PASS	Atlas-SNP
CDC16	8881	hgsc.bcm.edu	37	13	115002275	115002275	+	Silent	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	4	91	0	0.047619	0	.	.	none	.	CDC16	50	.	NM_003903	exon3	c.A105G	p.E35E	TCCAGAAGAACCC	.	PASS	Atlas-SNP
COMT	1312	hgsc.bcm.edu	37	22	19950235	19950235	+	Silent	SNP	C	C	T	rs4633	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	53	64	0	1	0	C|0.586;T|0.414	0.414	strong	COMT,NS,carcinoma,0,1	COMT	10	1	NM_000754	exon3	c.C186T	p.H62H	GAACCACGTGCTG	.	PASS	Atlas-SNP
CXCL16	58191	hgsc.bcm.edu	37	17	4641755	4641755	+	Silent	SNP	C	C	T	rs1050997	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	43	66	0	0.589041	0	C|0.322;T|0.678	0.678	strong	CXCL16_ENST00000293778,NS,carcinoma,0,1	CXCL16	30	1	NM_022059	exon3	c.G306A	p.G102G	GTTGCCCCCACAC	.	PASS	Atlas-SNP
LNP1	348801	hgsc.bcm.edu	37	3	100170596	100170596	+	Missense_Mutation	SNP	T	T	C	rs75122231	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	16	96	0	0.109589	0	A|0.001;C|0.044;T|0.955	0.044	strong	.	LNP1	26	.	NM_001085451	exon3	c.T190C	p.C64R	TCTGACTGCCATC	.	PASS	Atlas-SNP
CACNA1C	775	hgsc.bcm.edu	37	12	2558186	2558186	+	Silent	SNP	G	G	A	rs1544514	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	51	118	0	0.463636	0	G|0.860;A|0.140	0.140	strong	CACNA1C_ENST00000344100,colon,carcinoma,+1,2	CACNA1C	1023	2	NM_001129831	exon4	c.G522A	p.A174A	GGAAGCGTTTTTA	.	PASS	Atlas-SNP
PSME4	23198	hgsc.bcm.edu	37	2	54197829	54197829	+	Missense_Mutation	SNP	C	C	A	rs78645734	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	22	59	0	0.511628	0	C|0.982;A|0.018	0.018	strong	.	PSME4	247	.	NM_014614	exon1	c.G93T	p.E31D	GACGATCTCCTTC	.	PASS	Atlas-SNP
DIDO1	11083	hgsc.bcm.edu	37	20	61528306	61528306	+	Missense_Mutation	SNP	A	A	G	rs1883848	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	105	104	1	0.990566	0.00961538	A|0.551;G|0.449	0.449	strong	DIDO1,NS,carcinoma,0,1	DIDO1	321	1	NM_080797	exon7	c.T1631C	p.M544T	GCTGCCATGGCTG	.	PASS	Atlas-SNP
HERC6	55008	hgsc.bcm.edu	37	4	89300241	89300241	+	Silent	SNP	C	C	A	rs61978650	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	14	20	0	0.583333	0	C|0.875;A|0.125	0.125	strong	.	HERC6	104	.	NM_017912	exon1	c.C168A	p.G56G	GCTGGGCCGCAGG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29839787	29839787	+	Missense_Mutation	SNP	A	A	G	rs10160013	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	24	78	0	0.40678	0	A|0.692;G|0.308	0.308	strong	SVIL,NS,carcinoma,0,1	SVIL	226	1	NM_003174	exon8	c.T566C	p.V189A	TCACCCACATGGA	.	PASS	Atlas-SNP
SH2D4A	63898	hgsc.bcm.edu	37	8	19190491	19190491	+	Silent	SNP	A	A	G	rs1574288	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	31	64	0	0.378049	0	A|0.739;G|0.261	0.261	strong	.	SH2D4A	49	.	NM_022071	exon3	c.A207G	p.K69K	TTGGAAACTTGGA	.	PASS	Atlas-SNP
ALDH1L1	10840	hgsc.bcm.edu	37	3	125872293	125872293	+	Silent	SNP	G	G	A	rs16837178	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	33	32	0	0.622642	0	G|0.922;A|0.078	0.078	strong	.	ALDH1L1	138	.	NM_001270364	exon7	c.C882T	p.D294D	CATTTTGTCATCA	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197176	39197176	+	Silent	SNP	G	G	A	rs41535252		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	58	108	0	0.446154	0	G|1.000;|0.000	.	weak	.	KRTAP1-1	23	.	NM_030967	exon1	c.C474T	p.Y158Y	TCCACAGTAGGAT	.	PASS	Atlas-SNP
MGLL	11343	hgsc.bcm.edu	37	3	127540635	127540635	+	Silent	SNP	C	C	T	rs11538698	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	81	113	0	0.536424	0	T|0.033;G|0.000;C|0.967	0.033	strong	.	MGLL	19	.	NM_007283	exon2	c.G57A	p.R19R	CGGGGTCCGCCTG	.	PASS	Atlas-SNP
ROBO1	6091	hgsc.bcm.edu	37	3	78676523	78676523	+	Silent	SNP	A	A	G	rs62260386	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	113	140	0	0.607527	0	A|0.997;G|0.003	0.003	strong	.	ROBO1	833	.	NM_002941	exon26	c.T3823C	p.L1275L	CCTGTAACATGGG	.	PASS	Atlas-SNP
CLASP1	23332	hgsc.bcm.edu	37	2	122182786	122182786	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	2	130	0	0.013245	0	.	.	none	CLASP1,bladder,carcinoma,0,1	CLASP1	135	1	NM_001142273	exon23	c.C2165T	p.S722L	TTTTCTGAAGACG	.	scavenged	Atlas-SNP
FAM131B	9715	hgsc.bcm.edu	37	7	143053723	143053723	+	Missense_Mutation	SNP	C	C	T	rs17854363	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	51	74	0	0.485714	0	C|0.809;T|0.191	0.191	strong	.	FAM131B	104	.	NM_001031690	exon7	c.G1003A	p.A335T	TGAGAGCGGTAGA	.	PASS	Atlas-SNP
NARFL	64428	hgsc.bcm.edu	37	16	781633	781633	+	Silent	SNP	G	G	A	rs3829492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	6	18	0	0.3	0	G|0.714;A|0.286	0.286	strong	NARFL,NS,adenoma,0,1	NARFL	31	1	NM_022493	exon9	c.C966T	p.H322H	GAACACGTGCTCC	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2750477	2750477	+	Silent	SNP	A	A	G	rs2304859	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	39	69	0	0.345133	0	G|0.336;N|0.000	0.336	strong	SMCHD1,colon,carcinoma,+1,3	SMCHD1	88	3	NM_015295	exon32	c.A4137G	p.A1379A	AGATGCATCCTTC	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43522349	43522349	+	Silent	SNP	T	T	C	rs220109	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	33	70	0	0.471429	0	T|0.458;C|0.542	0.542	strong	.	UMODL1	186	.	NM_173568	exon8	c.T1260C	p.S420S	CAGCAGTGTGGAG	.	PASS	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5841778	5841778	+	Silent	SNP	T	T	A	rs73394374	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	72	158	0	0.467532	0	T|0.939;A|0.061	0.061	strong	.	OR52N2	58	.	NM_001005174	exon1	c.T213A	p.T71T	CTTCACTGATGTC	.	PASS	Atlas-SNP
MAP4	4134	hgsc.bcm.edu	37	3	47958037	47958037	+	Missense_Mutation	SNP	G	G	T	rs1060407	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	137	173	0	0.622727	0	G|0.754;T|0.246	0.246	strong	.	MAP4	176	.	NM_001134364	exon7	c.C1280A	p.S427Y	TCTGTGGATGATA	.	PASS	Atlas-SNP
ADH7	131	hgsc.bcm.edu	37	4	100349669	100349669	+	Missense_Mutation	SNP	C	C	G	rs1573496	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	43	92	0	0.477778	0	C|0.933;G|0.067	0.067	strong	ADH7_ENST00000476959,NS,malignant_melanoma,-1,2	ADH7	76	2	NM_001166504	exon3	c.G299C	p.G100A	GTCACTCCTTCTC	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136301982	136301982	+	Missense_Mutation	SNP	C	C	G	rs2301612	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	192	195	0	0.994819	0	C|0.735;G|0.265	0.265	strong	.	ADAMTS13	113	.	NM_139027	exon12	c.C1342G	p.Q448E	ATGTCGCAACAGT	.	PASS	Atlas-SNP
SIM1	6492	hgsc.bcm.edu	37	6	100868721	100868721	+	Missense_Mutation	SNP	G	G	A	rs3734355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	45	106	0	0.436893	0	G|0.857;A|0.143	0.143	strong	SIM1,NS,carcinoma,0,1	SIM1	173	1	NM_005068	exon9	c.C1112T	p.A371V	GATTTGGCCCCCT	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178552115	178552115	+	Silent	SNP	G	G	A	rs201215425	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	70	148	0	0.414201	0	.	.	weak	.	ADAMTS2	190	.	NM_014244	exon19	c.C2817T	p.S939S	GCGCACGGAGCGC	.	PASS	Atlas-SNP
ARHGEF19	128272	hgsc.bcm.edu	37	1	16525657	16525657	+	Missense_Mutation	SNP	A	A	G	rs148325785	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	72	161	0	0.5	0	A|0.991;G|0.009	0.009	strong	.	ARHGEF19	49	.	NM_153213	exon15	c.T2239C	p.W747R	TGGTCCAGGTCCT	.	PASS	Atlas-SNP
TGFBRAP1	9392	hgsc.bcm.edu	37	2	105885961	105885961	+	Missense_Mutation	SNP	T	T	C	rs2241797	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	74	182	0	0.406593	0	T|0.465;C|0.535	0.535	strong	.	TGFBRAP1	70	.	NM_004257	exon11	c.A2174G	p.H725R	CCAGCATGCAGGT	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57190356	57190356	+	Silent	SNP	G	G	A	rs7695701	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	250	248	239	0	0.992	0	G|0.741;A|0.259	0.259	strong	KIAA1211,NS,carcinoma,0,2	KIAA1211	178	2	NM_020722	exon10	c.G3465A	p.R1155R	GAAGAGGCCCGAG	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121653398	121653398	+	Missense_Mutation	SNP	G	G	A	rs1147504	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	59	109	0	0.5	0	G|0.353;A|0.647	0.647	strong	.	PTPRZ1	605	.	NM_002851	exon12	c.G4298A	p.G1433D	ACAGAGGTAGTGA	.	PASS	Atlas-SNP
NPAS2	4862	hgsc.bcm.edu	37	2	101541736	101541736	+	Missense_Mutation	SNP	G	G	C	rs138995271	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	68	145	0	0.412121	0	G|0.999;C|0.001	0.001	strong	.	NPAS2	88	.	NM_002518	exon3	c.G161C	p.G54A	TCATCGGATTTTT	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55174498	55174498	+	Missense_Mutation	SNP	T	T	C	rs28366008	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	14	26	0	0.538462	0	T|0.700;C|0.300	0.300	strong	LILRB4,NS,carcinoma,0,1	LILRB4	86	1	NM_006847	exon1	c.T13C	p.F5L	CCCACCTTCACGG	.	PASS	Atlas-SNP
ODAM	54959	hgsc.bcm.edu	37	4	71062426	71062426	+	Silent	SNP	C	C	T	rs17704351	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	76	197	0	0.434286	0	C|0.741;T|0.259	0.259	strong	.	ODAM	38	.	NM_017855	exon2	c.C69T	p.L23L	GCGTCTCATGTCT	.	PASS	Atlas-SNP
ZNF773	374928	hgsc.bcm.edu	37	19	58017758	58017758	+	Missense_Mutation	SNP	G	G	C	rs55823456	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	41	75	0	0.539474	0	G|0.790;C|0.210	0.210	strong	.	ZNF773	62	.	NM_198542	exon4	c.G295C	p.A99P	GCAGCTGCTGAGC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	716971	716971	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	51	113	0	0.51	0	.	.	none	.	WDR90	107	.	NM_145294	exon40	c.C5071T	p.L1691L	CACCTCCTGGCTG	.	PASS	Atlas-SNP
NOL9	79707	hgsc.bcm.edu	37	1	6614535	6614535	+	Missense_Mutation	SNP	G	G	A	rs4908923	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	6	5	0	0	0.833333	.	G|0.274;A|0.726	0.726	strong	.	NOL9	49	.	NM_024654	exon1	c.C28T	p.R10W	AACCCCGCTTTAG	.	PASS	Atlas-SNP
GABRB3	2562	hgsc.bcm.edu	37	15	26812780	26812780	+	Silent	SNP	C	C	T	rs76812964	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	16	68	0	0.363636	0	C|0.975;T|0.025	0.025	strong	.	GABRB3	338	.	NM_021912	exon7	c.G783A	p.S261S	CACCCACGACAGA	.	PASS	Atlas-SNP
ARSG	22901	hgsc.bcm.edu	37	17	66364770	66364770	+	Silent	SNP	G	G	A	rs146307895	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	36	81	0	0.418605	0	G|0.993;A|0.007	0.007	strong	.	ARSG	55	.	NM_001267727	exon7	c.G786A	p.A262A	AGCAGCGCCACGG	.	PASS	Atlas-SNP
ZNF521	25925	hgsc.bcm.edu	37	18	22775185	22775185	+	Silent	SNP	C	C	T	rs1140026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	39	77	0	0.527027	0	C|0.786;T|0.214	0.214	strong	.	ZNF521	269	.	NM_015461	exon5	c.G3597A	p.K1199K	CTGACACTTGATG	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121414061	121414061	+	Missense_Mutation	SNP	C	C	T	rs1127412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	306	117	224	0	0.382353	0	C|0.760;T|0.240	0.240	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.G5309A	p.G1770D	ACATTACCTTCTA	.	PASS	Atlas-SNP
VEGFC	7424	hgsc.bcm.edu	37	4	177650866	177650866	+	Missense_Mutation	SNP	C	C	T	rs41278571	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	36	72	0	0.545455	0	C|0.992;T|0.008	0.008	strong	VEGFC,caecum,carcinoma,-1,2	VEGFC	94	2	NM_005429	exon2	c.G182A	p.R61Q	ACAGACCGTAACT	.	PASS	Atlas-SNP
CDH20	28316	hgsc.bcm.edu	37	18	59195294	59195294	+	Missense_Mutation	SNP	A	A	G	rs35923922	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	113	181	0	0.610811	0	A|0.992;G|0.008	0.008	strong	CDH20,NS,carcinoma,+1,1	CDH20	117	1	NM_031891	exon6	c.A1112G	p.Q371R	CATTTCAGGACAC	.	PASS	Atlas-SNP
CTU2	348180	hgsc.bcm.edu	37	16	88779032	88779032	+	Silent	SNP	G	G	C	rs2290896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	85	160	0	0.485714	0	G|0.895;C|0.105	0.105	strong	CTU2_ENST00000453996,NS,carcinoma,0,2	CTU2	66	2	NM_001012759	exon7	c.G456C	p.V152V	GAAGGTGTTCAGC	.	PASS	Atlas-SNP
RDH5	5959	hgsc.bcm.edu	37	12	56115585	56115585	+	Silent	SNP	C	C	T	rs3138142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	13	34	0	0.361111	0	C|0.865;T|0.135	0.135	strong	.	RDH5	25	.	NM_001199771	exon3	c.C423T	p.I141I	TCCCATCGGGGTC	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	37	4	882643	882643	+	Silent	SNP	G	G	A	rs2279181	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	27	72	0	0.346154	0	G|0.901;A|0.099	0.099	strong	.	GAK	104	.	NM_005255	exon11	c.C1197T	p.S399S	AGCGACGGACTGG	.	PASS	Atlas-SNP
TSPAN8	7103	hgsc.bcm.edu	37	12	71533534	71533534	+	Missense_Mutation	SNP	C	C	G	rs3763978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	47	110	0	0.439252	0	C|0.707;G|0.293	0.293	strong	TSPAN8,colon,carcinoma,0,1	TSPAN8	30	1	NM_004616	exon4	c.G218C	p.G73A	CAGCATCCCAGGA	.	PASS	Atlas-SNP
INSR	3643	hgsc.bcm.edu	37	19	7184518	7184518	+	Silent	SNP	G	G	A	rs891087	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	48	65	0	0.516129	0	A|0.117;C|0.000;G|0.883;T|0.000	0.117	strong	.	INSR	265	.	NM_000208	exon3	c.C783T	p.D261D	CCTGCCGTCCAGG	.	PASS	Atlas-SNP
NUB1	51667	hgsc.bcm.edu	37	7	151064064	151064064	+	Silent	SNP	C	C	T	rs386956	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	88	100	0	1	0	C|0.538;T|0.462	0.462	strong	NUB1,caecum,carcinoma,0,1	NUB1	31	1	NM_016118	exon9	c.C912T	p.Y304Y	TAACTACGCCGTC	.	PASS	Atlas-SNP
LRRC8E	80131	hgsc.bcm.edu	37	19	7964616	7964616	+	Silent	SNP	G	G	C	rs45603833	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	30	38	0	0.555556	0	G|0.834;C|0.166	0.166	strong	.	LRRC8E	67	.	NM_001268284	exon4	c.G1209C	p.T403T	GTGGACGCCCGAG	.	PASS	Atlas-SNP
CKM	1158	hgsc.bcm.edu	37	19	45818835	45818835	+	Silent	SNP	A	A	G	rs1133190	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	16	11	0	1	0	A|0.522;G|0.478	0.478	strong	CKM,colon,carcinoma,0,1	CKM	40	1	NM_001824	exon4	c.T369C	p.P123P	GTAGTTAGGGTCC	.	PASS	Atlas-SNP
DIAPH3	81624	hgsc.bcm.edu	37	13	60240961	60240961	+	Silent	SNP	C	C	T	rs9538494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	230	230	212	2	1	0.00943396	C|0.820;T|0.180	0.180	strong	.	DIAPH3	139	.	NM_001042517	exon28	c.G3339A	p.L1113L	TTCTGTCAACTGC	.	PASS	Atlas-SNP
TMEM171	134285	hgsc.bcm.edu	37	5	72419287	72419287	+	Silent	SNP	C	C	T	rs35987724	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	271	145	244	1	0.535055	0.00409836	C|0.972;T|0.028	0.028	strong	.	TMEM171	41	.	NM_173490	exon2	c.C87T	p.G29G	CTTCGGCGCCGTC	.	PASS	Atlas-SNP
ADCY9	115	hgsc.bcm.edu	37	16	4164364	4164364	+	Silent	SNP	C	C	T	rs2230738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	44	110	0	0.392857	0	C|0.761;T|0.239	0.239	strong	.	ADCY9	151	.	NM_001116	exon2	c.G1080A	p.R360R	GGCATGCCTCTTG	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46785301	46785301	+	Silent	SNP	C	C	T	rs11090875	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	76	112	0	0.603175	0	C|0.908;T|0.092	0.092	strong	CELSR1,NS,carcinoma,0,1	CELSR1	242	1	NM_014246	exon18	c.G6441A	p.T2147T	AAAGAGCGTGCCC	.	PASS	Atlas-SNP
OR8B4	283162	hgsc.bcm.edu	37	11	124294213	124294213	+	Missense_Mutation	SNP	C	C	A	rs61736181	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	58	117	0	0.479339	0	C|0.982;A|0.018	0.018	strong	.	OR8B4	60	.	NM_001005196	exon1	c.G555T	p.Q185H	GGAGAGCTGCAAG	.	PASS	Atlas-SNP
MS4A10	341116	hgsc.bcm.edu	37	11	60565921	60565921	+	Missense_Mutation	SNP	C	C	T	rs12419635	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	26	51	0	0.565217	0	C|0.926;T|0.074	0.074	strong	.	MS4A10	38	.	NM_206893	exon7	c.C656T	p.P219L	GCCTGCCGGTGGA	.	PASS	Atlas-SNP
RAB36	9609	hgsc.bcm.edu	37	22	23503170	23503170	+	Missense_Mutation	SNP	A	A	G	rs5759612	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	31	63	0	0.462687	0	A|0.466;G|0.534	0.534	strong	.	RAB36	26	.	NM_004914	exon10	c.A922G	p.N308D	GTCGGCAATGGAG	.	PASS	Atlas-SNP
APOBEC4	403314	hgsc.bcm.edu	37	1	183616926	183616926	+	Missense_Mutation	SNP	T	T	C	rs1174657	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	224	223	195	0	0.995536	0	T|0.608;C|0.392	0.392	strong	.	APOBEC4	45	.	NM_203454	exon2	c.A991G	p.K331E	GGTCCTTGGTTTC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124330311	124330311	+	Missense_Mutation	SNP	C	C	T	rs34934281	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	31	70	0	0.424658	0	C|0.933;T|0.067	0.067	strong	.	DNAH10	888	.	NM_207437	exon30	c.C5171T	p.T1724M	TGGTAACGCGCAT	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80936082	80936082	+	Silent	SNP	C	C	T	rs11114503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	48	94	0	0.489796	0	C|0.585;T|0.415	0.415	strong	.	PTPRQ	119	.	NM_001145026	exon19	c.C3144T	p.A1048A	TGCTGCCGCAAGA	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	37	8	2092803	2092803	+	Silent	SNP	A	A	G	rs1063523	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	26	42	0	0.52	0	A|0.741;G|0.259	0.259	strong	.	MYOM2	251	.	NM_003970	exon37	c.A4296G	p.T1432T	CGTGACAGTGAGC	.	PASS	Atlas-SNP
C15orf55	256646	hgsc.bcm.edu	37	15	34649631	34649631	+	Missense_Mutation	SNP	G	G	A	rs2279685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	23	50	0	0.410714	0	G|0.915;A|0.085	0.085	strong	.	C15orf55	110	.	NM_175741	exon7	c.G3338A	p.R1113H	AGCCTCGTAAAAG	.	PASS	Atlas-SNP
NEDD9	4739	hgsc.bcm.edu	37	6	11190215	11190215	+	Silent	SNP	G	G	A	rs35719173	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	32	57	0	0.457143	0	G|0.986;A|0.014	0.014	strong	.	NEDD9	191	.	NM_001142393	exon6	c.C1887T	p.Y629Y	GTAATCGTAGTCA	.	PASS	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	37	2	239049928	239049928	+	Missense_Mutation	SNP	G	G	A	rs112962843	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	32	50	0	0.533333	0	G|0.959;A|0.041	0.041	strong	.	KLHL30	79	.	NM_198582	exon2	c.G533A	p.R178Q	GAGAGCGGCTGGT	.	PASS	Atlas-SNP
ITGAE	3682	hgsc.bcm.edu	37	17	3654980	3654980	+	Silent	SNP	A	A	G	rs11652878	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	21	53	0	0.396226	0	A|0.864;G|0.136	0.136	strong	.	ITGAE	96	.	NM_002208	exon15	c.T1857C	p.N619N	GTGTCCATTGTAG	.	PASS	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	37	21	41725625	41725625	+	Missense_Mutation	SNP	C	C	T	rs41395652	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	17	45	0	0.435897	0	C|0.978;T|0.022	0.022	strong	.	DSCAM	347	.	NM_001271534	exon5	c.G701A	p.R234H	GCTTTGCGATGGT	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104640098	104640098	+	Silent	SNP	G	G	A	rs61745565	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	31	31	0	0.553571	0	G|0.981;A|0.019	0.019	strong	.	KIF26A	84	.	NM_015656	exon10	c.G1923A	p.A641A	GGCGGCGGCTGGC	.	PASS	Atlas-SNP
C10orf53	282966	hgsc.bcm.edu	37	10	50901938	50901938	+	Silent	SNP	C	C	T	rs1133837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	109	0	1	0	C|0.595;T|0.405	0.405	strong	.	C10orf53	19	.	NM_182554	exon2	c.C216T	p.F72F	GGAGTTCGGTAAG	.	PASS	Atlas-SNP
ELK4	2005	hgsc.bcm.edu	37	1	205589574	205589574	+	Silent	SNP	C	C	T	rs1064406	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	115	136	0	0.614973	0	C|0.873;T|0.127	0.127	strong	.	ELK4	45	.	NM_021795	exon3	c.G600A	p.P200P	TTCAACCGGTGGC	.	PASS	Atlas-SNP
WNT7A	7476	hgsc.bcm.edu	37	3	13896140	13896140	+	Silent	SNP	A	A	G	rs3762719	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	52	31	0	1	0	A|0.795;G|0.205	0.205	strong	.	WNT7A	70	.	NM_004625	exon3	c.T459C	p.S153S	GTCGGCAGAGCAG	.	PASS	Atlas-SNP
MYOG	4656	hgsc.bcm.edu	37	1	203054651	203054651	+	Missense_Mutation	SNP	G	G	A	rs61745017	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	82	109	0	0.594203	0	G|0.979;A|0.021	0.021	strong	.	MYOG	28	.	NM_002479	exon1	c.C439T	p.R147C	GGTAGCGGAGGTC	.	PASS	Atlas-SNP
SLC22A12	116085	hgsc.bcm.edu	37	11	64360274	64360274	+	Silent	SNP	T	T	C	rs11231825	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	62	60	0	1	0	T|0.525;C|0.475	0.475	strong	.	SLC22A12	68	.	NM_144585	exon2	c.T426C	p.H142H	CTCTCATGCTCTG	.	PASS	Atlas-SNP
DRD5	1816	hgsc.bcm.edu	37	4	9783905	9783905	+	Silent	SNP	C	C	T	rs2227848	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	11	131	5	0.0753425	0.0381679	C|0.963;T|0.037	0.037	strong	DRD5,colon,carcinoma,+1,1	DRD5	119	1	NM_000798	exon1	c.C252T	p.A84A	TCTGGCCGTGTCA	.	scavenged	Atlas-SNP
CHRD	8646	hgsc.bcm.edu	37	3	184106493	184106493	+	Silent	SNP	T	T	G	rs2293606	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	61	99	0	0.592233	0	T|0.904;G|0.096	0.096	strong	CHRD,NS,carcinoma,0,1	CHRD	149	1	NM_003741	exon21	c.T2673G	p.P891P	GCCCCCTTTTGGA	.	PASS	Atlas-SNP
MAML2	84441	hgsc.bcm.edu	37	11	95825362	95825362	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	5	106	5	0.0632911	0.0471698	.	.	none	MAML2,NS,carcinoma,0,4	MAML2	94	4	NM_032427	exon2	c.G1833A	p.Q611Q	TTGCTGCTGCTGC	.	scavenged	Atlas-SNP
NAGA	4668	hgsc.bcm.edu	37	22	42463814	42463814	+	Silent	SNP	C	C	T	rs133369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	53	58	0	0.981481	0	C|0.347;T|0.653	0.653	strong	.	NAGA	26	.	NM_000262	exon3	c.G279A	p.P93P	GGGATCCGGCATC	.	PASS	Atlas-SNP
C5orf54	63920	hgsc.bcm.edu	37	5	159820931	159820931	+	Missense_Mutation	SNP	C	C	A	rs10515808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	52	122	0	0.390977	0	C|0.943;A|0.057	0.057	strong	C5orf54,NS,carcinoma,+1,1	C5orf54	46	1	NM_022090	exon2	c.G1567T	p.A523S	GAAATGCTGTGAA	.	PASS	Atlas-SNP
CHL1	10752	hgsc.bcm.edu	37	3	407785	407785	+	Missense_Mutation	SNP	A	A	G	rs143907501	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	60	65	0	0.645161	0	A|1.000;G|0.000	0.000	strong	.	CHL1	242	.	NM_001253388	exon13	c.A1738G	p.T580A	AATGGCACAGAAG	.	PASS	Atlas-SNP
RARA	5914	hgsc.bcm.edu	37	17	38508756	38508756	+	Silent	SNP	C	C	T	rs41283421	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	26	45	0	0.619048	0	C|0.987;T|0.013	0.013	strong	.	RARA	52	.	NM_000964	exon6	c.C804T	p.I268I	GGACATCCTGGTG	.	PASS	Atlas-SNP
SBF2	81846	hgsc.bcm.edu	37	11	9879838	9879838	+	Missense_Mutation	SNP	C	C	T	rs7102464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	42	88	0	0.575342	0	C|0.933;T|0.067	0.067	strong	.	SBF2	146	.	NM_030962	exon18	c.G2035A	p.E679K	CCTGTTCCTGCAC	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56703746	56703746	+	Silent	SNP	A	A	C	rs13094666	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	93	76	0	0.574074	0	A|0.623;C|0.377	0.377	strong	FAM208A,NS,carcinoma,0,1	FAM208A	113	1	NM_001112736	exon5	c.T717G	p.V239V	AAAAATAACAACA	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737734	248737734	+	Missense_Mutation	SNP	G	G	A	rs946770	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	433	12	373	4	0.0277136	0.0107239	.	.	weak	OR2T34,NS,carcinoma,0,4	OR2T34	72	4	NM_001001821	exon1	c.C325T	p.H109Y	TCAGGTGGAAGAA	.	scavenged	Atlas-SNP
ZNF615	284370	hgsc.bcm.edu	37	19	52497943	52497943	+	Missense_Mutation	SNP	G	G	A	rs10500311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	44	97	0	0.505747	0	G|0.596;A|0.404	0.404	strong	ZNF615,NS,carcinoma,0,2	ZNF615	111	2	NM_001199324	exon7	c.C419T	p.T140M	TCAAACGTATCAC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179611875	179611875	+	Silent	SNP	A	A	G	rs61233923	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	20	133	0	0.123457	0	A|0.963;G|0.037	0.037	strong	.	TTN	18412	.	NM_133379	exon46	c.T15252C	p.Y5084Y	TGTGGAATATCTC	.	PASS	Atlas-SNP
NDN	4692	hgsc.bcm.edu	37	15	23931507	23931507	+	Silent	SNP	G	G	A	rs2192206	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	20	64	0	0.377358	0	G|0.810;A|0.190	0.190	strong	.	NDN	79	.	NM_002487	exon1	c.C858T	p.D286D	CTGGGGGTCTTTC	.	PASS	Atlas-SNP
GABRA3	2556	hgsc.bcm.edu	37	X	151358333	151358333	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	13	33	0	0.288889	0	.	.	none	.	GABRA3	97	.	NM_000808	exon9	c.A1012G	p.M338V	AGTCCATGGCCGT	.	PASS	Atlas-SNP
CHRNA1	1134	hgsc.bcm.edu	37	2	175614716	175614716	+	Silent	SNP	G	G	A	rs2229957	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	72	113	0	0.631579	0	T|0.025;G|0.730;C|0.169;A|0.077	0.077	strong	.	CHRNA1	92	.	NM_001039523	exon8	c.C1035T	p.H345H	TGAGCGGTGGTGT	.	PASS	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	37	14	71444788	71444788	+	Silent	SNP	G	G	A	rs3814871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	43	69	0	0.565789	0	G|0.604;A|0.396	0.396	strong	PCNX,NS,carcinoma,0,1	PCNX	198	1	NM_014982	exon6	c.G1734A	p.R578R	GCATAGGGACTAT	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87229702	87229702	+	Silent	SNP	A	A	G	rs4546639	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	28	83	0	0.424242	0	A|0.858;G|0.142	0.142	strong	.	SLC7A13	97	.	NM_138817	exon3	c.T1176C	p.Y392Y	TACCTTATAAGGT	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24406647	24406647	+	Silent	SNP	G	G	A	rs4649175	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	38	84	0	0.387755	0	G|0.639;A|0.361	0.361	strong	.	MYOM3	131	.	NM_152372	exon20	c.C2445T	p.A815A	GGATGTGGCCCGC	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	37	19	14000870	14000870	+	Missense_Mutation	SNP	C	C	T	rs2305775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	42	45	0	1	0	C|0.657;T|0.343	0.343	strong	.	C19orf57	34	.	NM_024323	exon6	c.G799A	p.G267R	GCCCTCCAGGCAG	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	141461062	141461062	+	Silent	SNP	G	G	A	rs3735803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	33	53	0	0.452055	0	G|0.538;A|0.462	0.462	strong	.	TRAPPC9	114	.	NM_031466	exon2	c.C705T	p.N235N	CTCGTAGTTGGGG	.	PASS	Atlas-SNP
MX1	4599	hgsc.bcm.edu	37	21	42824733	42824733	+	Silent	SNP	G	G	A	rs469304	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	68	79	0	1	0	G|0.620;A|0.380	0.380	strong	.	MX1	58	.	NM_001144925	exon18	c.G1695A	p.Q565Q	TTTCCAGTCCAGC	.	PASS	Atlas-SNP
MAP3K4	4216	hgsc.bcm.edu	37	6	161507618	161507618	+	Silent	SNP	C	C	T	rs145569434	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	45	78	0	0.494505	0	C|0.994;T|0.006	0.006	strong	.	MAP3K4	364	.	NM_006724	exon9	c.C2475T	p.D825D	CTAGGACCTGGAA	.	PASS	Atlas-SNP
ASCL3	56676	hgsc.bcm.edu	37	11	8959370	8959370	+	Silent	SNP	G	G	A	rs2742505	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	55	109	0	0.509259	0	G|0.718;A|0.282	0.282	strong	ASCL3,NS,carcinoma,-1,2	ASCL3	19	2	NM_020646	exon2	c.C339T	p.Y113Y	CTGGGCGTAGCCT	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62483599	62483599	+	Silent	SNP	G	G	A	rs34726576	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	95	90	0	1	0	G|0.818;A|0.182	0.182	strong	.	INADL	179	.	NM_176877	exon29	c.G3939A	p.K1313K	ATCAAAGGTCAAG	.	PASS	Atlas-SNP
CDHR2	54825	hgsc.bcm.edu	37	5	176005481	176005481	+	Missense_Mutation	SNP	G	G	A	rs61743422	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	38	75	0	0.584615	0	G|0.987;A|0.013	0.013	strong	.	CDHR2	152	.	NM_017675	exon16	c.G1690A	p.G564R	GACGGCGGGAACC	.	PASS	Atlas-SNP
OR1N1	138883	hgsc.bcm.edu	37	9	125289033	125289033	+	Silent	SNP	A	A	G	rs41277122	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	48	83	0	0.505263	0	A|0.931;G|0.069	0.069	strong	.	OR1N1	38	.	NM_012363	exon1	c.T540C	p.T180T	GACAGGAGTGATG	.	PASS	Atlas-SNP
ACO1	48	hgsc.bcm.edu	37	9	32433803	32433803	+	Silent	SNP	C	C	A	rs61752944	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	26	68	0	0.42623	0	C|0.999;A|0.001	0.001	strong	.	ACO1	149	.	NM_002197	exon16	c.C1929A	p.I643I	GTATATCAAATCA	.	PASS	Atlas-SNP
THSD1	55901	hgsc.bcm.edu	37	13	52952680	52952680	+	Silent	SNP	G	G	A	rs9536043	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	32	59	0	0.4	0	G|0.948;A|0.052	0.052	strong	THSD1,NS,carcinoma,-1,1	THSD1	89	1	NM_018676	exon5	c.C1425T	p.R475R	GCTCCCGCGCTGC	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77662125	77662125	+	Silent	SNP	C	C	T	rs36036308	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	18	28	0	0.375	0	C|0.951;T|0.049	0.049	strong	.	SHROOM3	134	.	NM_020859	exon5	c.C2799T	p.S933S	ACAGTCCCGTGTC	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129902368	129902368	+	Missense_Mutation	SNP	T	T	A	rs79661992	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	36	92	0	0.580645	0	T|0.949;A|0.051	0.051	strong	MKI67,NS,carcinoma,0,1	MKI67	363	1	NM_002417	exon13	c.A7736T	p.D2579V	TTTTTGTCAATAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152283862	152283862	+	Missense_Mutation	SNP	G	G	C	rs58001094	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	229	134	175	0	0.585153	0	G|0.640;C|0.360	0.360	strong	FLG,brain,glioma,0,1	FLG	900	1	NM_002016	exon3	c.C3500G	p.A1167G	GGGTGTGCACGAA	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47773103	47773103	+	Silent	SNP	C	C	A	rs2249057	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	19	65	0	0.333333	0	C|0.694;A|0.306	0.306	strong	PCNT,NS,carcinoma,0,1	PCNT	283	1	NM_006031	exon10	c.C1542A	p.S514S	TGAGTCCGAACTG	.	PASS	Atlas-SNP
AIFM3	150209	hgsc.bcm.edu	37	22	21328568	21328568	+	Missense_Mutation	SNP	G	G	A	rs56179977	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	64	97	0	0.551724	0	G|0.983;A|0.017	0.017	strong	.	AIFM3	49	.	NM_001146288	exon6	c.G511A	p.V171I	GTGTACGTCCGGG	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370835	32370835	+	Missense_Mutation	SNP	T	T	C	rs2076523	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	81	141	0	0.487952	0	T|0.648;C|0.352	0.352	strong	.	BTNL2	50	.	NM_019602	exon3	c.A586G	p.K196E	CATCTTTATCTTG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280614	152280614	+	Missense_Mutation	SNP	C	C	G	rs3120645	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	256	24	188	0	0.09375	0	C|0.996;G|0.003;T|0.001	0.003	strong	FLG,right_upper_lobe,carcinoma,+2,1	FLG	900	1	NM_002016	exon3	c.G6748C	p.E2250Q	GTCCCTCACTGTC	.	scavenged	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60887581	60887581	+	Missense_Mutation	SNP	G	G	A	rs944895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	7	7	12	0	1	0	G|0.358;A|0.642	0.642	strong	LAMA5,NS,carcinoma,0,1	LAMA5	268	1	NM_005560	exon68	c.C9235T	p.R3079W	AGAGCCGTCGCAG	.	PASS	Atlas-SNP
ZNF768	79724	hgsc.bcm.edu	37	16	30536672	30536672	+	Silent	SNP	A	A	G	rs3751847	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	73	76	0	1	0	A|0.389;G|0.611	0.611	strong	.	ZNF768	28	.	NM_024671	exon2	c.T789C	p.C263C	GATGCCACAGATG	.	PASS	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	37	4	6594947	6594947	+	Missense_Mutation	SNP	A	A	C	rs2301796	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	72	80	0	0.972973	0	C|0.413;A|0.587	0.413	strong	MAN2B2,NS,carcinoma,0,1	MAN2B2	80	1	NM_015274	exon6	c.A728C	p.Q243P	CTCCCCAAGATGG	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746050	143746050	+	Missense_Mutation	SNP	C	C	T	rs2976399	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	17	18	0	0.586207	0	C|0.577;T|0.423	0.423	strong	.	.	.	.	NM_003724	exon3	c.G1426A	p.G476R	CTCCTCCGCCGTC	.	PASS	Atlas-SNP
LNP1	348801	hgsc.bcm.edu	37	3	100174722	100174722	+	Silent	SNP	G	G	A	rs1132022	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	386	248	281	0	0.642487	0	G|0.515;A|0.485	0.485	strong	.	LNP1	26	.	NM_001085451	exon4	c.G489A	p.E163E	AGAAGAGCATGGA	.	PASS	Atlas-SNP
MOCS2	4338	hgsc.bcm.edu	37	5	52397311	52397311	+	Silent	SNP	T	T	C	rs2233216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	26	62	0	0.5	0	T|0.959;C|0.041	0.041	strong	.	MOCS2	28	.	NM_004531	exon5	c.A255G	p.K85K	GACTTTTTTCCCT	.	PASS	Atlas-SNP
OXR1	55074	hgsc.bcm.edu	37	8	107754473	107754473	+	Silent	SNP	G	G	A	rs1681904	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	147	198	0	0.986577	0	G|0.627;A|0.373	0.373	strong	.	OXR1	190	.	NM_001198532	exon14	c.G2343A	p.E781E	ATCTGAGCCACTG	.	PASS	Atlas-SNP
A4GALT	53947	hgsc.bcm.edu	37	22	43089833	43089833	+	Missense_Mutation	SNP	A	A	G	rs148881382	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	44	71	0	0.488889	0	A|1.000;G|0.000	0.000	weak	.	A4GALT	35	.	NM_017436	exon3	c.T125C	p.V42A	CCCACAACGTGCC	.	PASS	Atlas-SNP
LINGO3	645191	hgsc.bcm.edu	37	19	2290870	2290870	+	Silent	SNP	G	G	C	rs8111892	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	25	20	0	0.543478	0	G|0.803;C|0.197	0.197	strong	.	LINGO3	19	.	NM_001101391	exon2	c.C906G	p.A302A	GGCCCCGGCCAGG	.	PASS	Atlas-SNP
EPB41L4B	54566	hgsc.bcm.edu	37	9	111938926	111938926	+	Silent	SNP	C	C	T	rs10979729	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	33	67	0	0.445946	0	C|0.923;T|0.077	0.077	strong	.	EPB41L4B	111	.	NM_019114	exon25	c.G2538A	p.P846P	GATCAGCGGGGAA	.	PASS	Atlas-SNP
EDARADD	128178	hgsc.bcm.edu	37	1	236645609	236645609	+	Missense_Mutation	SNP	C	C	T	rs114632254	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	58	109	0	0.513274	0	C|0.980;T|0.020	0.020	strong	.	EDARADD	31	.	NM_145861	exon6	c.C308T	p.S103F	CTTGTTCCTCCTG	.	PASS	Atlas-SNP
ELAVL1	1994	hgsc.bcm.edu	37	19	8028544	8028544	+	Silent	SNP	A	A	G	rs14394	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	69	152	0	0.482517	0	A|0.776;G|0.224	0.224	strong	.	ELAVL1	44	.	NM_001419	exon6	c.T804C	p.G268G	GACGGCACCAAAC	.	PASS	Atlas-SNP
RXRG	6258	hgsc.bcm.edu	37	1	165377552	165377552	+	Silent	SNP	G	G	A	rs2134095	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	49	97	0	0.379845	0	G|0.486;A|0.514	0.514	strong	.	RXRG	91	.	NM_006917	exon8	c.C1050T	p.V350V	AGTTAGGACTCTG	.	PASS	Atlas-SNP
TBX4	9496	hgsc.bcm.edu	37	17	59557600	59557600	+	Missense_Mutation	SNP	C	C	T	rs3744438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	36	68	0	0.473684	0	C|0.789;T|0.211	0.211	strong	TBX4,mouth,carcinoma,-1,1	TBX4	69	1	NM_018488	exon7	c.C941T	p.A314V	AGCTCGCGGAGCC	.	PASS	Atlas-SNP
PAK7	57144	hgsc.bcm.edu	37	20	9543622	9543622	+	Missense_Mutation	SNP	C	C	T	rs2297345	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	82	93	0	1	0	C|0.503;T|0.497	0.497	strong	.	PAK7	194	.	NM_177990	exon6	c.G1532A	p.S511N	TAGCTGCTGTACA	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24413159	24413159	+	Silent	SNP	T	T	C	rs6424152	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	34	57	0	0.459459	0	T|0.602;C|0.398	0.398	strong	.	MYOM3	131	.	NM_152372	exon15	c.A1773G	p.E591E	GATGGGTTCGCTG	.	PASS	Atlas-SNP
HIF1A	3091	hgsc.bcm.edu	37	14	62207553	62207553	+	Silent	SNP	G	G	A	rs34005929	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	53	98	0	0.490741	0	G|0.998;A|0.002	0.002	strong	.	HIF1A	120	.	NM_001243084	exon12	c.G1812A	p.L604L	TCAGTTGTCACCA	.	PASS	Atlas-SNP
SLC5A1	6523	hgsc.bcm.edu	37	22	32506050	32506050	+	Missense_Mutation	SNP	C	C	G	rs33954001	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	62	126	0	0.596154	0	C|0.953;G|0.047	0.047	strong	.	SLC5A1	80	.	NM_000343	exon15	c.C1845G	p.H615Q	GCAGCACGGTGCA	.	PASS	Atlas-SNP
TNFRSF10A	8797	hgsc.bcm.edu	37	8	23049292	23049292	+	Missense_Mutation	SNP	C	C	T	rs2230229	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	90	71	0	1	0	C|0.120;T|0.880	0.880	strong	.	TNFRSF10A	40	.	NM_003844	exon10	c.G1322A	p.R441K	TTCTCTCTTGCAT	.	PASS	Atlas-SNP
CCDC7	221016	hgsc.bcm.edu	37	10	32780886	32780886	+	Missense_Mutation	SNP	T	T	C	rs145255525	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	36	86	0	0.529412	0	T|1.000;C|0.000	0.000	strong	.	CCDC7	47	.	NM_145023	exon10	c.T833C	p.M278T	ATGCCATGTTGAA	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24393563	24393563	+	Missense_Mutation	SNP	C	C	T	rs16829071	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	63	139	0	0.4375	0	C|0.765;T|0.235	0.235	strong	.	MYOM3	131	.	NM_152372	exon28	c.G3371A	p.R1124Q	AACGGCCGCTCAA	.	PASS	Atlas-SNP
RFPL4A	342931	hgsc.bcm.edu	37	19	56273293	56273293	+	Missense_Mutation	SNP	G	G	A	rs75204738	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	455	71	378	1	0.156044	0.0026455	G|0.500;A|0.500	0.500	strong	ENSG00000188683,NS,carcinoma,0,1	RFPL4A	8	1	NM_001145014	exon2	c.G127A	p.D43N	GAGCCCGATGGGG	.	scavenged	Atlas-SNP
KYNU	8942	hgsc.bcm.edu	37	2	143798189	143798189	+	Missense_Mutation	SNP	A	A	G	rs9013	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	40	76	0	0.506329	0	A|0.832;G|0.168	0.168	strong	.	KYNU	110	.	NM_001199241	exon14	c.A1234G	p.K412E	CCAAACAAAGATG	.	PASS	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55494188	55494188	+	Silent	SNP	C	C	T	rs61730066	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	53	99	0	0.490741	0	C|0.833;T|0.167	0.167	strong	.	NLRP2	161	.	NM_017852	exon6	c.C1122T	p.D374D	TGGAGACGAGGAC	.	PASS	Atlas-SNP
CPSF1	29894	hgsc.bcm.edu	37	8	145634452	145634452	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	51	92	0	0.476636	0	.	.	none	.	CPSF1	92	.	NM_013291	exon2	c.G91A	p.V31I	CCACTACCAGGTT	.	PASS	Atlas-SNP
SGSM2	9905	hgsc.bcm.edu	37	17	2266812	2266812	+	Silent	SNP	T	T	C	rs2003968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	93	107	1	0.978947	0.00934579	C|0.502;T|0.498	0.502	strong	SGSM2,rectum,carcinoma,0,1	SGSM2	60	1	NM_001098509	exon7	c.T726C	p.C242C	TGCCTGTGCCCGC	.	PASS	Atlas-SNP
KLHL38	340359	hgsc.bcm.edu	37	8	124658210	124658210	+	Silent	SNP	C	C	T	rs16898671	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	62	115	0	0.504065	0	C|0.859;T|0.141	0.141	strong	KLHL38,NS,carcinoma,-1,2	KLHL38	81	2	NM_001081675	exon3	c.G1515A	p.A505A	CATGTCCGCACAT	.	PASS	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	37	1	16360137	16360137	+	Missense_Mutation	SNP	C	C	T	rs12746751	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	259	107	339	1	0.413127	0.00294985	C|0.917;T|0.083	0.083	strong	.	CLCNKA	56	.	NM_004070	exon20	c.C2048T	p.P683L	CAAATCCGCCAGC	.	PASS	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	37	14	68257352	68257352	+	Missense_Mutation	SNP	T	T	A	rs17192170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	218	106	202	0	0.486239	0	T|0.932;A|0.068	0.068	strong	.	ZFYVE26	223	.	NM_015346	exon15	c.A2692T	p.T898S	GAATGGTGCTGCT	.	PASS	Atlas-SNP
OR10A4	283297	hgsc.bcm.edu	37	11	6898663	6898663	+	Missense_Mutation	SNP	G	G	A	rs10839635	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	22	76	0	0.458333	0	G|0.724;A|0.276	0.276	strong	OR10A4,NS,carcinoma,-1,1	OR10A4	65	1	NM_207186	exon1	c.G785A	p.R262Q	ATTTCCGACCCCA	.	PASS	Atlas-SNP
PRB4	5545	hgsc.bcm.edu	37	12	11461802	11461802	+	Nonsense_Mutation	SNP	G	G	A	rs12829245	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	18	60	0	0.290323	0	G|0.900;A|0.100	0.100	strong	.	PRB4	59	.	NM_001261399	exon3	c.C115T	p.R39X	GGCGTCGTCCTTC	.	PASS	Atlas-SNP
EMC1	23065	hgsc.bcm.edu	37	1	19565338	19565338	+	Missense_Mutation	SNP	C	C	T	rs709682	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	23	58	0	0.396552	0	C|0.816;T|0.184	0.184	strong	KIAA0090,NS,carcinoma,0,1	.	.	1	NM_001271428	exon10	c.G1040A	p.S347N	TCAGAACTGCTAC	.	PASS	Atlas-SNP
VN1R1	57191	hgsc.bcm.edu	37	19	57967049	57967049	+	Missense_Mutation	SNP	G	G	T	rs61744949	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	241	118	238	1	0.489627	0.00420168	G|0.675;T|0.325	0.325	strong	.	VN1R1	48	.	NM_020633	exon1	c.C806A	p.A269D	GCTCTGGCTTCCT	.	PASS	Atlas-SNP
EME1	146956	hgsc.bcm.edu	37	17	48455985	48455985	+	Silent	SNP	A	A	T	rs2189712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	60	122	0	0.535714	0	A|0.812;T|0.188	0.188	strong	EME1,NS,carcinoma,0,1	EME1	39	1	NM_152463	exon4	c.A933T	p.T311T	GCCAACAGTACTG	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179300971	179300971	+	Silent	SNP	G	G	A	rs62176107	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	32	85	0	0.333333	0	G|0.775;A|0.225	0.225	strong	PRKRA,colon,carcinoma,0,1	PRKRA	56	1	NM_003690	exon7	c.C685T	p.L229L	TTTTCAGTAAGTT	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177933344	177933344	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	43	61	0	0.472527	0	.	.	none	.	SEC16B	92	.	NM_033127	exon5	c.T604C	p.F202L	CTGGAAACAGCTC	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17263290	17263290	+	Missense_Mutation	SNP	G	G	A	rs57442576	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	28	79	0	0.304348	0	G|0.924;A|0.076	0.076	strong	.	CROCC	185	.	NM_014675	exon9	c.G1115A	p.R372Q	AGCTGCGGGACAA	.	PASS	Atlas-SNP
ZNF773	374928	hgsc.bcm.edu	37	19	58018618	58018618	+	Silent	SNP	A	A	G	rs2074064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	29	62	0	0.54717	0	A|0.791;G|0.209	0.209	strong	.	ZNF773	62	.	NM_198542	exon4	c.A1155G	p.K385K	AGAAAAACCTTTT	.	PASS	Atlas-SNP
TTC39A	22996	hgsc.bcm.edu	37	1	51754619	51754619	+	Missense_Mutation	SNP	T	T	C	rs138509677	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	70	101	0	0.538462	0	T|0.999;C|0.001	0.001	strong	.	TTC39A	40	.	NM_001144832	exon17	c.A1514G	p.K505R	TTAATCTTCTTTT	.	PASS	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	37	4	11401012	11401012	+	Silent	SNP	A	A	G	rs1047385	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	71	57	0	1	0	G|0.240;N|0.000	0.240	strong	.	HS3ST1	41	.	NM_005114	exon2	c.T618C	p.F206F	CGGGAAAAAGCGC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152186042	152186042	+	Missense_Mutation	SNP	A	A	G	rs12751022	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	8	49	3	0.8	0.0612245	A|0.478;G|0.522	0.522	strong	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.T8063C	p.L2688S	TGACCCAAGCGAG	.	scavenged	Atlas-SNP
MBIP	51562	hgsc.bcm.edu	37	14	36784062	36784062	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	57	119	0	0.385135	0	.	.	none	.	MBIP	25	.	NM_016586	exon3	c.G309C	p.E103D	TCCTATCTCTTCA	.	PASS	Atlas-SNP
GPR50	9248	hgsc.bcm.edu	37	X	150349649	150349649	+	Missense_Mutation	SNP	A	A	G	rs561077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	116	0	1	0	A|0.574;G|0.426	0.426	strong	.	GPR50	195	.	NM_004224	exon2	c.A1594G	p.T532A	AAGCCCACTGCTG	.	PASS	Atlas-SNP
ZBTB42	100128927	hgsc.bcm.edu	37	14	105268104	105268104	+	Silent	SNP	G	G	A	rs10141867	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	37	115	0	0.411111	0	G|0.771;A|0.229	0.229	strong	ZBTB42_ENST00000342537,NS,carcinoma,0,2	ZBTB42	10	2	NM_001137601	exon2	c.G570A	p.L190L	GGACCTGTCGTTG	.	PASS	Atlas-SNP
IL20RA	53832	hgsc.bcm.edu	37	6	137323213	137323213	+	Missense_Mutation	SNP	G	G	A	rs1342642	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	54	116	0	0.442623	0	G|0.794;N|0.001	.	strong	.	IL20RA	54	.	NM_014432	exon7	c.C1144T	p.L382F	GGGTGAGAGAAGT	.	PASS	Atlas-SNP
LIPG	9388	hgsc.bcm.edu	37	18	47093864	47093864	+	Missense_Mutation	SNP	C	C	T	rs2000813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	57	66	0	0.587629	0	C|0.760;T|0.240	0.240	strong	.	LIPG	47	.	NM_006033	exon3	c.C332T	p.T111I	TGCACACAAGAGA	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5396715	5396715	+	Missense_Mutation	SNP	T	T	C	rs35508364	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	203	143	113	0	0.704434	0	T|0.609;C|0.391	0.391	strong	TNRC18_ENST00000430969,NS,carcinoma,0,2	TNRC18	311	2	NM_001080495	exon16	c.A5026G	p.N1676D	TCCTGTTCTTCCC	.	PASS	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	37	3	7620168	7620168	+	Silent	SNP	A	A	G	rs34373930	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	105	160	0	0.567568	0	A|0.788;G|0.212	0.212	strong	.	GRM7	223	.	NM_000844	exon8	c.A1575G	p.L525L	CACACTACCATGT	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55955444	55955444	+	Missense_Mutation	SNP	T	T	G	rs4935502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	25	61	0	0.403226	0	G|0.226;N|0.000	0.226	strong	PCDH15_ENST00000417177,colon,carcinoma,-1,12	PCDH15	1715	12	NM_001142763	exon12	c.A1319C	p.D440A	CTTACATCTTCTA	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55539057	55539057	+	Missense_Mutation	SNP	G	G	A	rs444772	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	19	52	0	0.44186	0	G|0.735;A|0.265	0.265	strong	RP1,caecum,carcinoma,0,1	RP1	429	1	NM_006269	exon4	c.G2615A	p.R872H	AAAAACGTAAAGG	.	PASS	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	37	11	6644600	6644600	+	Silent	SNP	C	C	T	rs72911011	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	33	34	0	0.622642	0	C|0.839;T|0.161	0.161	strong	.	DCHS1	277	.	NM_003737	exon21	c.G8307A	p.A2769A	CACTCGCGCACGC	.	PASS	Atlas-SNP
CPNE1	8904	hgsc.bcm.edu	37	20	34219480	34219480	+	Silent	SNP	G	G	A	rs2230219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	19	54	0	0.475	0	G|0.969;A|0.031	0.031	strong	.	CPNE1	44	.	NM_003915	exon8	c.C663T	p.D221D	GTCACTGTCATAA	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97847040	97847040	+	Silent	SNP	G	G	A	rs2279676	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	89	66	0	0.967391	0	G|0.772;A|0.228	0.228	strong	TECPR1,colon,carcinoma,0,1	TECPR1	77	1	NM_015395	exon25	c.C3348T	p.H1116H	GGGCTCGTGAGGC	.	PASS	Atlas-SNP
STK31	56164	hgsc.bcm.edu	37	7	23775477	23775477	+	Missense_Mutation	SNP	G	G	T	rs10264967	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	43	38	0	0.671875	0	G|0.862;T|0.138	0.138	strong	.	STK31	175	.	NM_031414	exon7	c.G804T	p.K268N	CTTGAAGGATGAA	.	PASS	Atlas-SNP
VTN	7448	hgsc.bcm.edu	37	17	26694861	26694861	+	Missense_Mutation	SNP	G	G	A	rs704	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	50	65	0	0.980392	0	G|0.469;A|0.531	0.531	strong	.	VTN	45	.	NM_000638	exon7	c.C1199T	p.T400M	AGCCACGTGGCGC	.	PASS	Atlas-SNP
EMP2	2013	hgsc.bcm.edu	37	16	10631912	10631912	+	Silent	SNP	C	C	T	rs2279868	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	25	52	0	0.462963	0	C|0.762;T|0.238	0.238	strong	.	EMP2	21	.	NM_001424	exon4	c.G189A	p.A63A	CTGGACCGCCTGC	.	PASS	Atlas-SNP
C10orf53	282966	hgsc.bcm.edu	37	10	50916542	50916542	+	Missense_Mutation	SNP	C	C	T	rs4838554	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	141	159	0	1	0	C|0.571;T|0.429	0.429	strong	.	C10orf53	19	.	NM_182554	exon3	c.C353T	p.T118I	CTTGTACTGTATT	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	37	8	41525914	41525914	+	Silent	SNP	C	C	T	rs750625	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	76	197	0	0.469136	0	C|0.778;A|0.001	.	strong	.	ANK1	497	.	NM_001142446	exon40	c.G5388A	p.V1796V	TACAGACACCAGG	.	PASS	Atlas-SNP
PIKFYVE	200576	hgsc.bcm.edu	37	2	209190632	209190632	+	Missense_Mutation	SNP	T	T	G	rs999890	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	41	79	0	0.482353	0	T|0.884;G|0.116	0.116	strong	.	PIKFYVE	223	.	NM_015040	exon20	c.T3097G	p.S1033A	GTCACCTCCTCTG	.	PASS	Atlas-SNP
IMPDH1	3614	hgsc.bcm.edu	37	7	128034629	128034629	+	Silent	SNP	C	C	T	rs2228075	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	25	31	0	0.609756	0	T|0.249;G|0.000;C|0.750	0.249	strong	.	IMPDH1	38	.	NM_000883	exon15	c.G1575A	p.A525A	ACCCTGCGCGATC	.	PASS	Atlas-SNP
ZNF488	118738	hgsc.bcm.edu	37	10	48370595	48370595	+	Silent	SNP	G	G	A	rs11204210	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	18	61	0	0.4	0	G|0.644;A|0.356	0.356	strong	ZNF488,NS,carcinoma,0,2	ZNF488	38	2	NM_153034	exon2	c.G63A	p.G21G	AGCTGGGAAGGGA	.	PASS	Atlas-SNP
EPB41L4A	64097	hgsc.bcm.edu	37	5	111611076	111611076	+	Silent	SNP	A	A	G	rs12521830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	57	133	0	0.456	0	A|0.639;G|0.361	0.361	strong	.	EPB41L4A	130	.	NM_022140	exon4	c.T282C	p.F94F	AATACCAAAATAC	.	PASS	Atlas-SNP
KIF7	374654	hgsc.bcm.edu	37	15	90188392	90188392	+	Silent	SNP	A	A	T	rs72750755	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	9	15	0	0.5	0	A|0.976;T|0.024	0.024	strong	.	KIF7	130	.	NM_198525	exon10	c.T2043A	p.V681V	CCCACCAACTGCT	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17834198	17834198	+	Silent	SNP	T	T	G	rs4716189	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	35	102	0	0.507246	0	T|0.583;G|0.417	0.417	strong	.	KIF13A	276	.	NM_001105567	exon12	c.A1260C	p.I420I	CTGTGCTATCTCT	.	PASS	Atlas-SNP
ADAM18	8749	hgsc.bcm.edu	37	8	39496029	39496029	+	Silent	SNP	T	T	C	rs12708194	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	187	230	1	0.994681	0.00434783	T|0.346;C|0.654	0.654	strong	.	ADAM18	169	.	NM_014237	exon10	c.T873C	p.T291T	TGGCACTGTATGC	.	PASS	Atlas-SNP
TNFRSF1B	7133	hgsc.bcm.edu	37	1	12252955	12252955	+	Missense_Mutation	SNP	T	T	G	rs1061622	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	46	31	1	1	0.0322581	T|0.792;G|0.208	0.208	strong	TNFRSF1B,NS,carcinoma,0,1	TNFRSF1B	28	1	NM_001066	exon6	c.T587G	p.M196R	CAAGCATGGATGC	.	scavenged	Atlas-SNP
SSU72	29101	hgsc.bcm.edu	37	1	1479333	1479333	+	Silent	SNP	A	A	G	rs7533	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	47	37	0	0.979167	0	A|0.488;G|0.512	0.512	strong	.	SSU72	15	.	NM_014188	exon4	c.T399C	p.P133P	GTGCACAGGCTGG	.	PASS	Atlas-SNP
GRHL1	29841	hgsc.bcm.edu	37	2	10126330	10126330	+	Missense_Mutation	SNP	G	G	A	rs2303920	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	38	84	0	0.452381	0	G|0.743;A|0.257	0.257	strong	GRHL1,NS,carcinoma,0,1	GRHL1	95	1	NM_198182	exon9	c.G1189A	p.V397I	ATTCAAGTTGATA	.	PASS	Atlas-SNP
PFKL	5211	hgsc.bcm.edu	37	21	45732116	45732116	+	Silent	SNP	C	C	T	rs1057034	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	198	185	1	0.970588	0.00540541	C|0.555;T|0.445	0.445	strong	.	PFKL	65	.	NM_002626	exon4	c.C366T	p.L122L	CAGCCTCACAGGT	.	PASS	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	37	1	46498375	46498375	+	Silent	SNP	A	A	G	rs1622208	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	91	0	1	0	A|0.293;G|0.707	0.707	strong	.	MAST2	136	.	NM_015112	exon26	c.A3522G	p.V1174V	GGTGGTAGAGCTG	.	PASS	Atlas-SNP
PAPLN	89932	hgsc.bcm.edu	37	14	73716774	73716774	+	Silent	SNP	G	G	A	rs177393	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	75	88	0	0.9375	0	G|0.667;A|0.333	0.333	strong	.	PAPLN	180	.	NM_173462	exon6	c.G417A	p.T139T	TGGGACGCCCTGC	.	PASS	Atlas-SNP
ELF3	1999	hgsc.bcm.edu	37	1	201981774	201981774	+	Missense_Mutation	SNP	G	G	A	rs55729978	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	41	65	0	0.621212	0	G|0.938;A|0.062	0.062	strong	ELF3_ENST00000359651,NS,carcinoma,0,2	ELF3	92	2	NM_001114309	exon5	c.G485A	p.G162D	ACCAGGGCAGCCC	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38136476	38136476	+	Missense_Mutation	SNP	G	G	A	rs34290809	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	55	112	0	0.387324	0	G|0.998;A|0.002	0.002	strong	.	DLEC1	278	.	NM_007337	exon13	c.G2026A	p.E676K	GACAAGGAGACTG	.	PASS	Atlas-SNP
NCAPG2	54892	hgsc.bcm.edu	37	7	158449369	158449369	+	Missense_Mutation	SNP	G	G	A	rs61752310	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	48	92	0	0.551724	0	G|0.997;A|0.003	0.003	strong	.	NCAPG2	80	.	NM_017760	exon18	c.C2089T	p.R697W	CCTCCCGGCTTCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179578704	179578704	+	Missense_Mutation	SNP	G	G	A	rs13398235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	60	123	0	0.431655	0	G|0.920;A|0.080	0.080	strong	.	TTN	18412	.	NM_001267550	exon92	c.C26681T	p.P8894L	TCACTCGGTGCTA	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104056737	104056737	+	Silent	SNP	G	G	A	rs148397037	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	41	89	0	0.41	0	G|0.993;A|0.007	0.007	strong	.	STAB2	370	.	NM_017564	exon18	c.G1983A	p.L661L	GATTCTGCCCCAT	.	PASS	Atlas-SNP
PTPRR	5801	hgsc.bcm.edu	37	12	71078528	71078528	+	Missense_Mutation	SNP	C	C	T	rs35390084	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	48	136	0	0.48	0	C|0.965;T|0.035	0.035	strong	.	PTPRR	109	.	NM_002849	exon9	c.G1315A	p.V439I	CGGTTACATTTTT	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49227620	49227620	+	Missense_Mutation	SNP	A	A	G	rs202676	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	27	63	0	0.490909	0	A|0.657;G|0.343	0.343	strong	.	FOLH1	141	.	NM_004476	exon2	c.T223C	p.Y75H	CTTACTATAAGAA	.	PASS	Atlas-SNP
ALDH1B1	219	hgsc.bcm.edu	37	9	38396065	38396065	+	Missense_Mutation	SNP	G	G	T	rs2073478	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	37	56	0	0.596774	0	A|0.003;C|0.003	.	strong	ALDH1B1,colon,carcinoma,0,1	ALDH1B1	50	1	NM_000692	exon2	c.G320T	p.R107L	TGAACCGCCTGGC	.	PASS	Atlas-SNP
C11orf16	56673	hgsc.bcm.edu	37	11	8942942	8942942	+	Missense_Mutation	SNP	C	C	T	rs2653601	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	66	144	2	0.47482	0.0138889	T|0.268;G|0.006	0.268	strong	C11orf16,NS,carcinoma,0,1	C11orf16	43	1	NM_020643	exon6	c.G1325A	p.R442Q	GGGGTCCGCGGTG	.	scavenged	Atlas-SNP
ZNF350	59348	hgsc.bcm.edu	37	19	52468587	52468587	+	Silent	SNP	G	G	T	rs3764538	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	45	111	0	0.48913	0	G|0.855;T|0.145	0.145	strong	.	ZNF350	48	.	NM_021632	exon5	c.C1119A	p.P373P	TTCAAAGGGTTTC	.	PASS	Atlas-SNP
ADAMTS17	170691	hgsc.bcm.edu	37	15	100821467	100821467	+	Silent	SNP	G	G	A	rs7496640	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	10	19	0	0.454545	0	G|0.576;A|0.424	0.424	strong	ADAMTS17,NS,carcinoma,0,1	ADAMTS17	127	1	NM_139057	exon4	c.C756T	p.A252A	CTGGGCGGCCTCG	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170053505	170053505	+	Missense_Mutation	SNP	C	C	T	rs2228171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	21	38	0	0.403846	0	T|0.232;G|0.108;C|0.608;A|0.053	0.232	strong	.	LRP2	751	.	NM_004525	exon46	c.G8614A	p.A2872T	CAGATGCGCATTG	.	PASS	Atlas-SNP
ERI2	112479	hgsc.bcm.edu	37	16	20810067	20810067	+	Missense_Mutation	SNP	T	T	C	rs3213646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	51	92	0	0.548387	0	T|0.674;C|0.326	0.326	strong	.	ERI2	50	.	NM_001142725	exon9	c.A1055G	p.Y352C	TGCATATAGATAG	.	PASS	Atlas-SNP
TMCO4	255104	hgsc.bcm.edu	37	1	20009737	20009737	+	Silent	SNP	G	G	A	rs10917514	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	201	84	165	0	0.41791	0	G|0.888;A|0.112	0.112	strong	.	TMCO4	46	.	NM_181719	exon16	c.C1701T	p.S567S	GTCTCCGGATATG	.	PASS	Atlas-SNP
ZSCAN22	342945	hgsc.bcm.edu	37	19	58850357	58850357	+	Missense_Mutation	SNP	G	G	A	rs138944686	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	20	28	0	0.425532	0	G|0.986;A|0.014	0.014	strong	.	ZSCAN22	47	.	NM_181846	exon3	c.G1141A	p.E381K	CCCTACGAGTGTG	.	PASS	Atlas-SNP
ASTN1	460	hgsc.bcm.edu	37	1	176992676	176992676	+	Silent	SNP	C	C	T	rs10798496	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	49	112	0	0.379845	0	C|0.677;T|0.323	0.323	strong	.	ASTN1	314	.	NM_004319	exon7	c.G1302A	p.Q434Q	ATCCAGCTGGCTC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32610009	32610009	+	Missense_Mutation	SNP	C	C	G	rs2308891	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	98	375	0	0.809917	0	A|0.077;C|0.499;G|0.424	0.424	strong	.	HLA-DQA1	52	.	NM_002122	exon3	c.C592G	p.Q198E	CTGGACCAGCCTC	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116436022	116436022	+	Silent	SNP	G	G	A	rs2023748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	174	179	0	1	0	G|0.618;A|0.382	0.382	strong	MET,NS,carcinoma,0,1	MET	412	1	NM_001127500	exon21	c.G4071A	p.A1357A	ATCAGCGATCTTC	.	PASS	Atlas-SNP
PTGS1	5742	hgsc.bcm.edu	37	9	125143792	125143792	+	Silent	SNP	C	C	A	rs5788	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	78	130	1	0.590909	0.00769231	C|0.722;A|0.278	0.278	strong	PTGS1,NS,carcinoma,0,1	PTGS1	84	1	NM_000962	exon6	c.C639A	p.G213G	TTCTGGCAAGATG	.	scavenged	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548628	32548628	+	Missense_Mutation	SNP	G	G	A	rs34624872	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	196	51	206	0	0.260204	0	G|0.814;A|0.185	0.185	strong	.	HLA-DRB1	41	.	NM_002124	exon4	c.C658T	p.R220W	CAGACCGTGCTCC	.	PASS	Atlas-SNP
HECTD1	25831	hgsc.bcm.edu	37	14	31582526	31582526	+	Silent	SNP	T	T	C	rs2273483	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	51	54	0	1	0	T|0.505;C|0.495	0.495	strong	HECTD1,rectum,carcinoma,0,1	HECTD1	159	1	NM_015382	exon33	c.A6021G	p.L2007L	TATATATAGAATA	.	PASS	Atlas-SNP
SAMD15	161394	hgsc.bcm.edu	37	14	77845121	77845121	+	Missense_Mutation	SNP	A	A	G	rs2193595	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	49	48	0	0.569767	0	A|0.451;G|0.549	0.549	strong	SAMD15,NS,carcinoma,0,1	SAMD15	60	1	NM_001010860	exon1	c.A1360G	p.K454E	AGTGACAAATTTA	.	PASS	Atlas-SNP
BSG	682	hgsc.bcm.edu	37	19	580665	580665	+	Silent	SNP	T	T	C	rs4682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	20	71	0	0.322581	0	T|0.744;C|0.256	0.256	strong	BSG_ENST00000346916,NS,carcinoma,0,4	BSG	48	4	NM_001728	exon5	c.T675C	p.A225A	GAAGGCTGTGAAG	.	PASS	Atlas-SNP
BRF1	2972	hgsc.bcm.edu	37	14	105688082	105688082	+	Silent	SNP	C	C	T	rs28406206	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	24	74	0	0.380952	0	C|0.927;T|0.073	0.073	strong	.	BRF1	102	.	NM_001519	exon11	c.G1218A	p.P406P	CAGGGCCGGAGGT	.	PASS	Atlas-SNP
MMP9	4318	hgsc.bcm.edu	37	20	44640225	44640225	+	Missense_Mutation	SNP	A	A	G	rs17576	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	46	61	0	1	0	A|0.578;G|0.422	0.422	strong	.	MMP9	84	.	NM_004994	exon6	c.A836G	p.Q279R	ACACCCAGGACGG	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52534758	52534758	+	Missense_Mutation	SNP	C	C	G	rs61734508	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	27	51	0	0.435484	0	C|0.977;G|0.023	0.023	strong	.	NID2	201	.	NM_007361	exon2	c.G352C	p.G118R	CTCTGCCGTGGCT	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201183424	201183424	+	Missense_Mutation	SNP	G	G	A	rs41304263	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	30	61	0	0.375	0	G|0.960;A|0.040	0.040	strong	.	IGFN1	220	.	NM_001164586	exon13	c.G8848A	p.V2950I	GATGGCGTCAAGG	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373311	5373311	+	Missense_Mutation	SNP	T	T	C	rs5006883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	80	156	0	0.444444	0	T|0.772;C|0.228	0.228	strong	OR51B6,NS,carcinoma,-1,1	OR51B6	53	1	NM_001004750	exon1	c.T574C	p.F192L	ATCACCTTCAACC	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113960093	113960093	+	Silent	SNP	A	A	C	rs61753740	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	22	18	0	0.611111	0	A|0.997;C|0.003	0.003	strong	.	CSMD3	2325	.	NM_198123	exon9	c.T1434G	p.G478G	TTTAATACCTCCC	.	PASS	Atlas-SNP
AKR1C4	1109	hgsc.bcm.edu	37	10	5247784	5247784	+	Missense_Mutation	SNP	C	C	G	rs3829125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	95	126	0	0.572289	0	C|0.890;G|0.110	0.110	strong	.	AKR1C4	57	.	NM_001818	exon4	c.C434G	p.S145C	ATCTCTCTGCCAC	.	PASS	Atlas-SNP
ASPH	444	hgsc.bcm.edu	37	8	62489334	62489334	+	Silent	SNP	C	C	T	rs16927574	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	30	71	0	0.37037	0	C|0.883;N|0.000	.	strong	.	ASPH	87	.	NM_004318	exon16	c.G1146A	p.A382A	TACCTGCGCCTTC	.	PASS	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	37	13	103528002	103528002	+	Missense_Mutation	SNP	G	G	C	rs17655	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	38	88	0	0.520548	0	G|0.655;C|0.345	0.345	strong	.	.	.	.	NM_001204425	exon23	c.G4672C	p.D1558H	AGTGAAGATGCTG	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	37	22	45748339	45748339	+	Silent	SNP	A	A	G	rs5765275	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	25	72	1	0.396825	0.0138889	A|0.638;G|0.361	0.361	strong	SMC1B_ENST00000357450,colon,carcinoma,-1,2	SMC1B	215	2	NM_148674	exon22	c.T3417C	p.A1139A	GTGCACAGCAAAC	.	scavenged	Atlas-SNP
GABRR1	2569	hgsc.bcm.edu	37	6	89926962	89926962	+	Missense_Mutation	SNP	T	T	C	rs1186902	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	64	170	0	0.474074	0	T|0.779;C|0.221	0.221	strong	GABRR1,NS,carcinoma,0,1	GABRR1	63	1	NM_001256703	exon1	c.A80G	p.H27R	GGCCAGTGCATTC	.	PASS	Atlas-SNP
SCN1B	6324	hgsc.bcm.edu	37	19	35524944	35524944	+	Missense_Mutation	SNP	G	G	C	rs67486287	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	189	97	242	0	0.513228	0	G|0.870;C|0.130	0.130	strong	.	SCN1B	32	.	NM_199037	exon3	c.G749C	p.R250T	GCCAAAGGGTTGT	.	PASS	Atlas-SNP
KRTAP5-3	387266	hgsc.bcm.edu	37	11	1628948	1628948	+	Missense_Mutation	SNP	G	G	A	rs117085626	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	62	0	0.493827	0	G|0.917;A|0.083	0.083	strong	.	KRTAP5-3	33	.	NM_001012708	exon1	c.C668T	p.S223F	TGGGAGGAGCAGG	.	PASS	Atlas-SNP
PRKRIP1	79706	hgsc.bcm.edu	37	7	102036877	102036877	+	Missense_Mutation	SNP	T	T	G	rs6951185	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	51	105	0	0.455357	0	T|0.938;G|0.062	0.062	strong	.	PRKRIP1	25	.	NM_024653	exon1	c.T19G	p.S7A	GCCGCCTCCTCGG	.	PASS	Atlas-SNP
PAPLN	89932	hgsc.bcm.edu	37	14	73726151	73726151	+	Missense_Mutation	SNP	A	A	G	rs17182244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	60	135	0	0.483871	0	A|0.976;G|0.024	0.024	strong	.	PAPLN	180	.	NM_173462	exon15	c.A1802G	p.H601R	GGCCCCACGACTG	.	PASS	Atlas-SNP
XIRP1	165904	hgsc.bcm.edu	37	3	39226114	39226114	+	Missense_Mutation	SNP	G	G	A	rs34810344	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	53	87	0	0.616279	0	G|0.874;A|0.126	0.126	strong	.	XIRP1	173	.	NM_194293	exon2	c.C4823T	p.A1608V	TTGACTGCAGTTT	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49426818	49426818	+	Silent	SNP	G	G	A	rs376471354		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	29	58	0	0.453125	0	.	.	weak	.	MLL2	1173	.	NM_003482	exon39	c.C11670T	p.S3890S	CTGAGCGCTCAGT	.	PASS	Atlas-SNP
KTI12	112970	hgsc.bcm.edu	37	1	52498370	52498370	+	Silent	SNP	C	C	T	rs2809917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	42	68	1	0.477273	0.0147059	C|0.799;T|0.201	0.201	strong	KTI12,NS,carcinoma,0,1	KTI12	30	1	NM_138417	exon1	c.G1064A	p.X355X	TCTGGTCAGTGCA	.	scavenged	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	37	2	210685100	210685100	+	Silent	SNP	G	G	A	rs13432185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	66	145	1	0.511628	0.00689655	G|0.897;A|0.103	0.103	strong	UNC80_ENST00000439458,colon,carcinoma,0,2	UNC80	280	2	NM_182587	exon13	c.G2028A	p.A676A	CGTGGCGCTAAAC	.	scavenged	Atlas-SNP
KRTAP16-1	100505753	hgsc.bcm.edu	37	17	39465389	39465389	+	Silent	SNP	T	T	A	rs12451604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	52	73	0	0.509804	0	T|0.764;A|0.236	0.236	strong	.	KRTAP16-1	12	.	NM_001146182	exon1	c.A117T	p.T39T	CTGCCATGTCTGG	.	PASS	Atlas-SNP
TAS2R38	5726	hgsc.bcm.edu	37	7	141672604	141672604	+	Missense_Mutation	SNP	T	T	C	rs10246939	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	52	89	0	0.495238	0	T|0.495;C|0.505	0.505	strong	.	TAS2R38	51	.	NM_176817	exon1	c.A886G	p.I296V	TCAGGATGGCTGC	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021658	132021658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	3	191	0	0.0136364	0	.	.	none	ENSG00000188219,right_upper_lobe,carcinoma,-1,1	.	.	1	NM_001083538	exon15	c.G2630A	p.R877H	CCCTGCGCCTAGA	.	scavenged	Atlas-SNP
NIN	51199	hgsc.bcm.edu	37	14	51237126	51237126	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	2	143	0	0.0145985	0	.	.	none	NIN_ENST00000382041,colon,carcinoma,+1,3	NIN	475	3	NM_020921	exon12	c.C1414T	p.R472C	CAAGGCGGTCCCG	.	scavenged	Atlas-SNP
C9orf173	441476	hgsc.bcm.edu	37	9	140147152	140147152	+	Silent	SNP	C	C	G	rs28376526	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	23	67	0	0.418182	0	C|0.388;G|0.612	0.612	strong	.	C9orf173	19	.	NM_001004353	exon5	c.C531G	p.P177P	CCGGCCCGCCTTC	.	PASS	Atlas-SNP
SP100	6672	hgsc.bcm.edu	37	2	231327184	231327184	+	Silent	SNP	C	C	T	rs35985492	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	54	95	0	0.435484	0	C|0.992;T|0.008	0.008	strong	.	SP100	167	.	NM_001206702	exon10	c.C1008T	p.D336D	CACTGACGTTGAT	.	PASS	Atlas-SNP
HLA-G	3135	hgsc.bcm.edu	37	6	29796369	29796369	+	Silent	SNP	A	A	T	rs3873252	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	41	96	0	0.450549	0	A|0.942;T|0.058	0.058	strong	.	HLA-G	90	.	NM_002127	exon4	c.A393T	p.G131G	CGACGGACGCCTC	.	PASS	Atlas-SNP
MTRF1L	54516	hgsc.bcm.edu	37	6	153323594	153323594	+	Missense_Mutation	SNP	C	C	T	rs3818123	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	92	132	0	0.989247	0	C|0.314;T|0.686	0.686	strong	.	MTRF1L	21	.	NM_019041	exon1	c.G227A	p.R76Q	AGCTCCCGCTCCT	.	PASS	Atlas-SNP
PRSS35	167681	hgsc.bcm.edu	37	6	84234144	84234144	+	Silent	SNP	C	C	T	rs3812141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	51	0	0.5	0	C|0.813;T|0.187	0.187	strong	.	PRSS35	60	.	NM_153362	exon2	c.C984T	p.S328S	TGTGTCCGACGAA	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6578004	6578004	+	Silent	SNP	G	G	A	rs11600179	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	40	81	0	0.487805	0	G|0.842;A|0.158	0.158	strong	.	DNHD1	198	.	NM_144666	exon25	c.G7479A	p.T2493T	GCAGACGCTGCAG	.	PASS	Atlas-SNP
METTL5	29081	hgsc.bcm.edu	37	2	170678476	170678476	+	Silent	SNP	G	G	A	rs35417312	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	27	59	0	0.586957	0	G|0.965;A|0.035	0.035	strong	.	METTL5	24	.	NM_014168	exon2	c.C201T	p.I67I	AGTTCCGATGCTA	.	PASS	Atlas-SNP
COL5A2	1290	hgsc.bcm.edu	37	2	189923577	189923577	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	259	3	242	2	0.011583	0.00826446	.	.	none	COL5A2,rectum,carcinoma,+1,1	COL5A2	230	1	NM_000393	exon32	c.A2128G	p.R710G	TTACTCTAGGTCC	.	scavenged	Atlas-SNP
TAF10	6881	hgsc.bcm.edu	37	11	6632450	6632450	+	Silent	SNP	C	C	T	rs12451	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	90	133	0	0.5625	0	C|0.817;T|0.183	0.183	strong	.	TAF10	9	.	NM_006284	exon4	c.G537A	p.T179T	GGAGGCCGTGCCC	.	PASS	Atlas-SNP
HSPBP1	23640	hgsc.bcm.edu	37	19	55790902	55790902	+	Silent	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	3	17	0	0.1875	0	.	.	none	HSPBP1,NS,carcinoma,-1,1	HSPBP1	24	1	NM_012267	exon2	c.G75C	p.G25G	GCCGCCCCCTGAA	.	scavenged	Atlas-SNP
CYP2A7	1549	hgsc.bcm.edu	37	19	41383134	41383134	+	Silent	SNP	A	A	G	rs147847954	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	75	161	0	0.517241	0	A|0.978;G|0.022	0.022	strong	.	CYP2A7	71	.	NM_000764	exon7	c.T1122C	p.V374V	CTTTTTAACCCTG	.	PASS	Atlas-SNP
PHC1	1911	hgsc.bcm.edu	37	12	9086553	9086553	+	Silent	SNP	G	G	A	rs1805773	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	90	148	0	0.511364	0	G|0.834;A|0.166	0.166	strong	.	PHC1	67	.	NM_004426	exon9	c.G1986A	p.K662K	TGCCAAGGCATCT	.	PASS	Atlas-SNP
PTPN21	11099	hgsc.bcm.edu	37	14	88945591	88945591	+	Silent	SNP	A	A	G	rs879932	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	14	18	0	0.777778	0	A|0.604;G|0.396	0.396	strong	.	PTPN21	113	.	NM_007039	exon13	c.T2184C	p.P728P	TGCAGGAGGCGCC	.	PASS	Atlas-SNP
COPS7B	64708	hgsc.bcm.edu	37	2	232653358	232653358	+	Silent	SNP	C	C	T	rs11557625	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	47	71	0	0.479592	0	C|0.988;T|0.012	0.012	strong	.	COPS7B	14	.	NM_022730	exon2	c.C78T	p.A26A	CTCAGCCCTCACT	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746365	143746365	+	Silent	SNP	G	G	A	rs3802234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	87	0	0.506667	0	G|0.972;A|0.028	0.028	strong	.	.	.	.	NM_003724	exon2	c.C1113T	p.N371N	GACTGCGTTCCAG	.	PASS	Atlas-SNP
ASAP3	55616	hgsc.bcm.edu	37	1	23759743	23759743	+	Missense_Mutation	SNP	G	G	T	rs140136454	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	40	45	0	0.533333	0	G|0.995;T|0.005	0.005	strong	.	ASAP3	65	.	NM_017707	exon22	c.C2150A	p.A717D	GCCTGGGCCGGGA	.	PASS	Atlas-SNP
RCN2	5955	hgsc.bcm.edu	37	15	77241542	77241542	+	Silent	SNP	T	T	C	rs15939	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	21	41	0	0.552632	0	T|0.927;C|0.073	0.073	strong	.	RCN2	16	.	NM_001271837	exon8	c.T987C	p.Y329Y	TGACTATTTCTAT	.	PASS	Atlas-SNP
PXMP2	5827	hgsc.bcm.edu	37	12	133272470	133272470	+	Silent	SNP	G	G	T	rs74727297	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	47	85	0	0.494737	0	G|0.928;T|0.072	0.072	strong	.	PXMP2	15	.	NM_018663	exon3	c.G237T	p.G79G	CCTCAGGTTCTTC	.	PASS	Atlas-SNP
ZNF653	115950	hgsc.bcm.edu	37	19	11598288	11598288	+	Silent	SNP	G	G	C	rs145806085	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	23	53	0	0.534884	0	G|0.998;C|0.002	0.002	strong	.	ZNF653	48	.	NM_138783	exon4	c.C990G	p.L330L	GGCCGTGAGAGCG	.	PASS	Atlas-SNP
TXNDC2	84203	hgsc.bcm.edu	37	18	9887433	9887433	+	Silent	SNP	A	A	G	rs2240907	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	30	64	0	0.535714	0	A|0.791;G|0.209	0.209	strong	.	TXNDC2	168	.	NM_001098529	exon2	c.A957G	p.E319E	CCCAGAAGAAGCC	.	PASS	Atlas-SNP
ZIM3	114026	hgsc.bcm.edu	37	19	57647015	57647015	+	Silent	SNP	A	A	G	rs7251328	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	87	102	0	1	0	A|0.387;G|0.613	0.613	strong	.	ZIM3	107	.	NM_052882	exon5	c.T690C	p.N230N	GTAGGCATTTCCA	.	PASS	Atlas-SNP
TPRX1	284355	hgsc.bcm.edu	37	19	48305674	48305674	+	Silent	SNP	T	T	C	rs78381908	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	16	18	0	0.470588	0	T|0.885;C|0.115	0.115	strong	.	TPRX1	46	.	NM_198479	exon2	c.A594G	p.P198P	TGAGATTGGGCCT	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	700644	700644	+	Missense_Mutation	SNP	G	G	C	rs13337278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	31	68	0	0.455882	0	G|0.797;C|0.203	0.203	strong	.	WDR90	107	.	NM_145294	exon5	c.G494C	p.S165T	TCAAGAGCATCAG	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46656511	46656511	+	Silent	SNP	A	A	G	rs9627324	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	62	102	0	0.521008	0	A|0.733;G|0.267	0.267	strong	.	PKDREJ	195	.	NM_006071	exon1	c.T2709C	p.I903I	TGTAGAAATGGGA	.	PASS	Atlas-SNP
FAM151A	338094	hgsc.bcm.edu	37	1	55080475	55080475	+	Missense_Mutation	SNP	C	C	T	rs150113940	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	74	161	0	0.48366	0	C|0.998;T|0.002	0.002	strong	FAM151A,NS,carcinoma,0,1	FAM151A	58	1	NM_176782	exon4	c.G473A	p.R158Q	AGCTGCCGCAGGA	.	PASS	Atlas-SNP
NR0B1	190	hgsc.bcm.edu	37	X	30327367	30327367	+	Silent	SNP	G	G	A	rs6150	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	46	32	0	0.978723	0	G|0.887;A|0.113	0.113	strong	.	NR0B1	61	.	NM_000475	exon1	c.C114T	p.C38C	GCCCCAGCACTGA	.	PASS	Atlas-SNP
TF	7018	hgsc.bcm.edu	37	3	133475722	133475722	+	Silent	SNP	C	C	T	rs1799852	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	104	121	0	0.630303	0	C|0.895;T|0.105	0.105	strong	.	TF	116	.	NM_001063	exon7	c.C739T	p.L247L	CTTTGCCTGGACA	.	PASS	Atlas-SNP
SPAM1	6677	hgsc.bcm.edu	37	7	123594206	123594206	+	Silent	SNP	G	G	A	rs2285996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	38	84	0	0.567164	0	G|0.754;T|0.001	.	strong	.	SPAM1	195	.	NM_153189	exon3	c.G582A	p.K194K	TGAAAAGGCAGGG	.	PASS	Atlas-SNP
NDUFAF1	51103	hgsc.bcm.edu	37	15	41689166	41689166	+	Missense_Mutation	SNP	C	C	A	rs3204853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	77	163	0	0.562044	0	C|0.839;A|0.161	0.161	strong	.	NDUFAF1	39	.	NM_016013	exon2	c.G92T	p.R31L	GCAAAGCGAATAC	.	PASS	Atlas-SNP
PLEKHA3	65977	hgsc.bcm.edu	37	2	179358665	179358665	+	Silent	SNP	A	A	G	rs41461050	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	92	203	0	0.476684	0	A|1.000;|0.000	.	weak	PLEKHA3,NS,carcinoma,+1,1	PLEKHA3	25	1	NM_019091	exon4	c.A399G	p.T133T	TCATACAATACAG	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21232195	21232195	+	Silent	SNP	G	G	A	rs693	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	65	131	0	0.427632	0	G|0.665;N|0.000	.	strong	.	APOB	761	.	NM_000384	exon26	c.C7545T	p.T2515T	TTCTAGGGTCTCT	.	PASS	Atlas-SNP
SRMS	6725	hgsc.bcm.edu	37	20	62172281	62172281	+	Missense_Mutation	SNP	C	C	T	rs310655	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	24	48	0	0.421053	0	C|0.826;T|0.174	0.174	strong	.	SRMS	48	.	NM_080823	exon8	c.G1357A	p.A453T	CCTCCGCCGGGCA	.	PASS	Atlas-SNP
KIAA1522	57648	hgsc.bcm.edu	37	1	33231380	33231380	+	Missense_Mutation	SNP	T	T	G	rs6694085	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	18	56	1	0.409091	0.0178571	T|0.857;G|0.143	0.143	strong	KIAA1522_ENST00000373480,rectum,carcinoma,0,1	KIAA1522	68	1	NM_001198972	exon1	c.T10G	p.F4V	GTGGTGTTCGTTG	.	scavenged	Atlas-SNP
CRELD2	79174	hgsc.bcm.edu	37	22	50315952	50315952	+	Silent	SNP	C	C	T	rs7410276	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	19	48	0	0.575758	0	C|0.827;T|0.173	0.173	strong	.	CRELD2	57	.	NM_001135101	exon6	c.C600T	p.T200T	CAGGACCGGCCTC	.	PASS	Atlas-SNP
TAS2R8	50836	hgsc.bcm.edu	37	12	10959031	10959031	+	Silent	SNP	C	C	T	rs1548803	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	125	159	0	1	0	C|0.498;T|0.502	0.502	strong	.	TAS2R8	42	.	NM_023918	exon1	c.G549A	p.L183L	GAGAGTCAAGGGT	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177901658	177901658	+	Silent	SNP	C	C	T	rs7554597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	31	89	0	0.267241	0	C|0.785;T|0.215	0.215	strong	.	SEC16B	92	.	NM_033127	exon24	c.G2979A	p.A993A	AGCGCCCGCAGCT	.	PASS	Atlas-SNP
FAM78B	149297	hgsc.bcm.edu	37	1	166039512	166039512	+	Missense_Mutation	SNP	C	C	G	rs138713518	bycluster;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	285	51	177	0	0.178947	0	C|1.000;T|0.000	.	alt	FAM78B,NS,carcinoma,+1,1	FAM78B	51	1	NM_001017961	exon2	c.G752C	p.R251P	GGCCCCCGCTTGG	.	PASS	Atlas-SNP
C2orf74	339804	hgsc.bcm.edu	37	2	61389737	61389737	+	Missense_Mutation	SNP	T	T	G	rs1729674	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	118	110	1	0.991597	0.00909091	T|0.583;G|0.417	0.417	strong	.	C2orf74	22	.	NM_001143959	exon1	c.T109G	p.Y37D	TTTTTATATAAAT	.	PASS	Atlas-SNP
SNTB2	6645	hgsc.bcm.edu	37	16	69221510	69221510	+	Silent	SNP	C	C	G	rs10650	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	24	19	0	0.521739	0	C|0.815;G|0.185	0.185	strong	.	SNTB2	22	.	NM_006750	exon1	c.C441G	p.P147P	CTTCCCCGGGCTG	.	PASS	Atlas-SNP
LMBR1	64327	hgsc.bcm.edu	37	7	156518195	156518195	+	Silent	SNP	G	G	A	rs59912051	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	47	116	0	0.516484	0	G|0.897;A|0.103	0.103	strong	.	LMBR1	35	.	NM_022458	exon14	c.C1092T	p.V364V	GAAGCCGACAACA	.	PASS	Atlas-SNP
ISLR	3671	hgsc.bcm.edu	37	15	74467796	74467796	+	Silent	SNP	C	C	T	rs11854957	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	54	53	0	1	0	A|0.000;C|0.870;T|0.130	0.130	strong	.	ISLR	49	.	NM_201526	exon2	c.C597T	p.A199A	CACGGCCGTGTCC	.	PASS	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058425	19058425	+	Silent	SNP	G	G	A	rs62563591	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	57	185	0	0.398601	0	G|0.250;A|0.750	0.750	weak	.	HAUS6	66	.	NM_017645	exon16	c.C2340T	p.L780L	TTCCGGGAGAGTT	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957583	111957583	+	Missense_Mutation	SNP	A	A	G	rs1126656	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	43	121	0	0.387387	0	A|0.800;G|0.200	0.200	strong	.	OVGP1	177	.	NM_002557	exon11	c.T1540C	p.Y514H	ACTGATAACCCAC	.	PASS	Atlas-SNP
SEZ6L2	26470	hgsc.bcm.edu	37	16	29908433	29908433	+	Missense_Mutation	SNP	C	C	G	rs11649499	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	5	5	1	1	1	1	C|0.218;G|0.782	0.782	strong	SEZ6L2,NS,carcinoma,0,1	SEZ6L2	137	1	NM_001243332	exon3	c.G221C	p.R74P	GGGTCCCGATCAG	.	scavenged	Atlas-SNP
BACH2	60468	hgsc.bcm.edu	37	6	90642358	90642358	+	Silent	SNP	G	G	A	rs3798789	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	35	45	0	0.603448	0	G|0.877;A|0.123	0.123	strong	.	BACH2	224	.	NM_001170794	exon7	c.C2295T	p.N765N	GGGCACGTTTTCC	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99139140	99139140	+	Silent	SNP	G	G	A	rs41300217	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	25	29	0	0.595238	0	G|0.951;A|0.049	0.049	strong	RRP12,NS,carcinoma,0,1	RRP12	97	1	NM_015179	exon15	c.C1708T	p.L570L	CAGGCAGCAGCCA	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746069	143746069	+	Silent	SNP	T	T	C	rs3735999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	32	19	0	1	0	T|0.479;C|0.521	0.521	strong	.	.	.	.	NM_003724	exon3	c.A1407G	p.P469P	AGCTTTTGGAGTC	.	PASS	Atlas-SNP
GOLGA3	2802	hgsc.bcm.edu	37	12	133384864	133384864	+	Missense_Mutation	SNP	G	G	A	rs3741486	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	77	136	0	0.461078	0	G|0.802;A|0.198	0.198	strong	.	GOLGA3	234	.	NM_001172557	exon5	c.C791T	p.P264L	GGAGCCGGGACAT	.	PASS	Atlas-SNP
OR2B2	81697	hgsc.bcm.edu	37	6	27879551	27879551	+	Missense_Mutation	SNP	C	C	G	rs9368537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	51	135	0	0.414634	0	C|0.966;G|0.034	0.034	strong	OR2B2,colon,carcinoma,0,1	OR2B2	54	1	NM_033057	exon1	c.G547C	p.A183P	GCAGAGCAGGGAC	.	PASS	Atlas-SNP
PRSS54	221191	hgsc.bcm.edu	37	16	58314598	58314598	+	Missense_Mutation	SNP	C	C	T	rs1052276	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	33	62	0	0.445946	0	C|0.905;T|0.095	0.095	strong	.	PRSS54	48	.	NM_001080492	exon7	c.G718A	p.V240I	TCAGGACTCCTCT	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	37	20	34090519	34090519	+	Missense_Mutation	SNP	G	G	A	rs3748433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	52	85	0	0.536082	0	G|0.880;N|0.000	.	strong	.	CEP250	141	.	NM_007186	exon30	c.G4322A	p.R1441Q	CTCTGCGGGGACA	.	PASS	Atlas-SNP
GRIK1	2897	hgsc.bcm.edu	37	21	30925928	30925928	+	Missense_Mutation	SNP	A	A	G	rs363504	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	37	61	0	0.45679	0	T|0.000;G|0.095	0.095	strong	.	GRIK1	293	.	NM_000830	exon17	c.T2705C	p.L902S	CGAATTAATTTAC	.	PASS	Atlas-SNP
CNGA2	1260	hgsc.bcm.edu	37	X	150908168	150908168	+	Missense_Mutation	SNP	G	G	T	rs144366408	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	44	39	0	1	0	G|0.994;T|0.006	0.006	strong	.	CNGA2	136	.	NM_005140	exon4	c.G338T	p.G113V	GGGATGGCAAAGG	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169267784	169267784	+	Silent	SNP	G	G	A	rs261623	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	68	106	0	0.985507	0	G|0.557;A|0.443	0.443	strong	.	DOCK2	389	.	NM_004946	exon27	c.G2727A	p.Q909Q	TATCCAGGAGATC	.	PASS	Atlas-SNP
ZP3	7784	hgsc.bcm.edu	37	7	76069902	76069902	+	Missense_Mutation	SNP	G	G	C	rs1804905	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	28	147	0	0.138614	0	G|0.500;C|0.500	0.500	weak	.	ZP3	32	.	NM_001110354	exon7	c.G1034C	p.R345T	GGTCCAGGTCTGC	.	PASS	Atlas-SNP
ADCK3	56997	hgsc.bcm.edu	37	1	227174210	227174210	+	Silent	SNP	T	T	C	rs3738725	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	19	44	0	0.542857	0	T|0.607;C|0.393	0.393	strong	.	ADCK3	77	.	NM_020247	exon15	c.T1716C	p.S572S	CGCCTCTGATGAG	.	PASS	Atlas-SNP
FMNL1	752	hgsc.bcm.edu	37	17	43316360	43316360	+	Silent	SNP	G	G	A	rs12940312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	210	88	142	0	0.419048	0	G|0.919;A|0.081	0.081	strong	.	FMNL1	78	.	NM_005892	exon11	c.G1008A	p.S336S	ACATTCGGTGGAG	.	PASS	Atlas-SNP
IFNLR1	163702	hgsc.bcm.edu	37	1	24496085	24496085	+	Silent	SNP	G	G	A	rs34654982	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	41	75	0	0.488095	0	G|0.897;A|0.103	0.103	strong	.	.	.	.	NM_170743	exon3	c.C189T	p.P63P	ACGGGTGGGAGAG	.	PASS	Atlas-SNP
ZFR2	23217	hgsc.bcm.edu	37	19	3831709	3831709	+	Missense_Mutation	SNP	C	C	T	rs2240234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	18	52	0	0.4	0	C|0.782;T|0.218	0.218	strong	.	ZFR2	63	.	NM_015174	exon4	c.G547A	p.V183M	AGGTCACGATGGA	.	PASS	Atlas-SNP
SLC6A5	9152	hgsc.bcm.edu	37	11	20673902	20673902	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	2	129	0	0.018018	0	.	.	none	SLC6A5,NS,carcinoma,+1,1	SLC6A5	151	1	NM_004211	exon15	c.G2138A	p.W713X	CTAACTGGTCCAT	.	scavenged	Atlas-SNP
ZNF714	148206	hgsc.bcm.edu	37	19	21300462	21300462	+	Missense_Mutation	SNP	A	A	G	rs2884554	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	26	38	0	0.962963	0	A|0.264;G|0.736	0.736	strong	.	ZNF714	121	.	NM_182515	exon5	c.A992G	p.K331R	AACATAAAAGAAT	.	PASS	Atlas-SNP
KDM3B	51780	hgsc.bcm.edu	37	5	137733891	137733891	+	Silent	SNP	A	A	G	rs17294563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	25	67	0	0.403226	0	A|0.883;G|0.117	0.117	strong	.	KDM3B	177	.	NM_016604	exon10	c.A2856G	p.V952V	AGGGGTACTCCGT	.	PASS	Atlas-SNP
PRG3	10394	hgsc.bcm.edu	37	11	57146225	57146225	+	Missense_Mutation	SNP	A	A	G	rs34108746	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	46	72	0	0.479167	0	A|0.947;G|0.053	0.053	strong	.	PRG3	35	.	NM_006093	exon4	c.T436C	p.Y146H	TGCGATAGTTGAA	.	PASS	Atlas-SNP
CCDC78	124093	hgsc.bcm.edu	37	16	775236	775236	+	Splice_Site	SNP	C	C	T	rs138669350	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	59	0	0.523077	0	C|0.998;T|0.002	0.002	strong	.	CCDC78	26	.	NM_001031737	exon6	c.492+1G>A	.	CACTCACGCCGCT	.	PASS	Atlas-SNP
FCAR	2204	hgsc.bcm.edu	37	19	55401170	55401170	+	Missense_Mutation	SNP	A	A	G	rs16986050	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	12	25	0	0.444444	0	A|0.795;G|0.205	0.205	strong	FCAR,NS,carcinoma,-2,1	FCAR	110	1	NM_002000	exon5	c.A805G	p.S269G	AGCTGGAGCCAAC	.	PASS	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1573890	1573890	+	Missense_Mutation	SNP	G	G	A	rs2235638	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	16	33	0	0.421053	0	G|0.941;A|0.059	0.059	strong	.	IFT140	128	.	NM_014714	exon25	c.C3209T	p.A1070V	CGGGCCGCCTCGA	.	PASS	Atlas-SNP
ASTL	431705	hgsc.bcm.edu	37	2	96789787	96789787	+	Silent	SNP	T	T	C	rs893173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	33	58	0	0.452055	0	T|0.657;C|0.343	0.343	strong	ASTL,NS,carcinoma,0,1	ASTL	59	1	NM_001002036	exon9	c.A1098G	p.L366L	GGAAGCTAGGGTC	.	PASS	Atlas-SNP
MRGPRF	116535	hgsc.bcm.edu	37	11	68773403	68773403	+	Silent	SNP	G	G	A	rs11544722	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	30	19	0	1	0	G|0.763;A|0.237	0.237	strong	.	MRGPRF	22	.	NM_001098515	exon3	c.C375T	p.C125C	GAACATGCAGAGC	.	PASS	Atlas-SNP
CD300A	11314	hgsc.bcm.edu	37	17	72469966	72469966	+	Missense_Mutation	SNP	G	G	A	rs78031008	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	88	178	0	0.460733	0	.	.	weak	.	CD300A	40	.	NM_007261	exon2	c.G332A	p.R111Q	GGCTCCGAGACTT	.	PASS	Atlas-SNP
POGLUT1	56983	hgsc.bcm.edu	37	3	119196166	119196166	+	Silent	SNP	T	T	C	rs3732420	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	69	125	0	0.375	0	T|0.860;C|0.140	0.140	strong	.	POGLUT1	32	.	NM_152305	exon4	c.T327C	p.S109S	GTGTAGTGGTGTT	.	PASS	Atlas-SNP
C10orf111	221060	hgsc.bcm.edu	37	10	15138615	15138615	+	Missense_Mutation	SNP	C	C	T	rs7896053	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	72	169	0	0.441718	0	C|0.740;T|0.260	0.260	strong	.	C10orf111	11	.	NM_153244	exon2	c.G209A	p.R70K	GGTAGCCTGAGTC	.	PASS	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	37	2	62065759	62065759	+	Silent	SNP	C	C	T	rs6545910	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	84	203	0	0.4375	0	C|0.876;T|0.124	0.124	strong	.	FAM161A	200	.	NM_001201543	exon4	c.G1665A	p.L555L	TTTCTGCAATTCT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280347	152280347	+	Missense_Mutation	SNP	C	C	T	rs77166567	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	61	160	1	0.376543	0.00625	.	.	weak	FLG,NS,carcinoma,0,1	FLG	900	1	NM_002016	exon3	c.G7015A	p.D2339N	AGCTGTCTGCTGA	.	scavenged	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56369593	56369593	+	Silent	SNP	T	T	C	rs421810	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	96	88	0	0.979592	0	T|0.545;C|0.454	0.454	strong	NLRP4_ENST00000301295,colon,carcinoma,+2,1	NLRP4	331	1	NM_134444	exon3	c.T834C	p.A278A	CATCGCTATCAAA	.	PASS	Atlas-SNP
CASP9	842	hgsc.bcm.edu	37	1	15850613	15850613	+	Missense_Mutation	SNP	G	G	A	rs1052571	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	28	31	0	1	0	G|0.387;A|0.613	0.613	strong	.	CASP9	40	.	NM_001229	exon1	c.C83T	p.A28V	AGCAGGGCGTCCC	.	PASS	Atlas-SNP
MRS2	57380	hgsc.bcm.edu	37	6	24415380	24415380	+	Silent	SNP	G	G	A	rs3761788	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	28	68	0	0.4375	0	G|0.954;A|0.046	0.046	strong	.	MRS2	31	.	NM_020662	exon6	c.G708A	p.Q236Q	ACTACAGAATGGC	.	PASS	Atlas-SNP
PTPN21	11099	hgsc.bcm.edu	37	14	88938652	88938652	+	Missense_Mutation	SNP	A	A	G	rs2274736	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	79	180	0	0.451429	0	G|0.389;N|0.000	0.389	strong	.	PTPN21	113	.	NM_007039	exon15	c.T2807C	p.V936A	ACTCTCACATCAT	.	PASS	Atlas-SNP
ZKSCAN5	23660	hgsc.bcm.edu	37	7	99129744	99129744	+	Missense_Mutation	SNP	G	G	C	rs150395462	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	21	54	0	0.466667	0	G|0.996;C|0.004	0.004	strong	.	ZKSCAN5	63	.	NM_145102	exon7	c.G2392C	p.E798Q	ACTGGTGAGAAAC	.	PASS	Atlas-SNP
PCDHA3	56145	hgsc.bcm.edu	37	5	140181614	140181614	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	2	71	1	0.0273973	0.0140845	.	.	none	PCDHA3_ENST00000522353,NS,carcinoma,-2,4	PCDHA3	396	4	NM_031497	exon1	c.G832A	p.A278T	GATATCGCGTATT	.	scavenged	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41054934	41054934	+	Silent	SNP	A	A	G	rs325874	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	41	67	0	0.5	0	A|0.778;G|0.222	0.222	strong	.	.	.	.	NM_173489	exon11	c.T1042C	p.L348L	CCCTCAACCTGGG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169519894	169519894	+	Silent	SNP	G	G	A	rs6015	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	35	64	0	0.388889	0	G|0.946;A|0.054	0.054	strong	.	F5	301	.	NM_000130	exon9	c.C1380T	p.N460N	AGAAGAGTTGACT	.	PASS	Atlas-SNP
ENTPD5	957	hgsc.bcm.edu	37	14	74444009	74444009	+	Silent	SNP	G	G	A	rs143835358	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	20	25	0	0.465116	0	G|0.998;A|0.002	0.002	strong	.	ENTPD5	26	.	NM_001249	exon7	c.C510T	p.S170S	TTCGTCGGATCCA	.	PASS	Atlas-SNP
OR2C3	81472	hgsc.bcm.edu	37	1	247694958	247694958	+	Silent	SNP	G	G	A	rs6702695	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	95	104	0	1	0	G|0.830;A|0.170	0.170	strong	.	OR2C3	92	.	NM_198074	exon2	c.C856T	p.L286L	GGTTCAGCGCAGG	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373334	5373334	+	Silent	SNP	A	A	G	rs5006882	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	76	149	0	0.457831	0	A|0.757;G|0.243	0.243	strong	OR51B6,NS,carcinoma,+2,1	OR51B6	53	1	NM_001004750	exon1	c.A597G	p.V199V	AGTTGTAGTTTTA	.	PASS	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	37	11	121367626	121367626	+	Silent	SNP	T	T	C	rs12364988	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	35	48	0	0.522388	0	T|0.511;C|0.489	0.489	strong	SORL1,NS,carcinoma,0,1	SORL1	218	1	NM_003105	exon6	c.T807C	p.H269H	ACGACATGAACCC	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39430314	39430314	+	Missense_Mutation	SNP	C	C	T	rs9548509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	43	50	0	1	0	C|0.256;T|0.744	0.744	strong	FREM2,NS,carcinoma,0,1	FREM2	385	1	NM_207361	exon12	c.C6977T	p.T2326I	AAGTTACCTTTGA	.	PASS	Atlas-SNP
WNT16	51384	hgsc.bcm.edu	37	7	120969825	120969825	+	Silent	SNP	C	C	A	rs17143291	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	9	14	0	0.6	0	C|0.988;A|0.012	0.012	strong	.	WNT16	97	.	NM_057168	exon2	c.C300A	p.T100T	CACTACCGCCCCG	.	PASS	Atlas-SNP
KRT71	112802	hgsc.bcm.edu	37	12	52946543	52946543	+	Missense_Mutation	SNP	C	C	T	rs665522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	39	104	0	0.402062	0	C|0.784;T|0.216	0.216	strong	.	KRT71	70	.	NM_033448	exon1	c.G319A	p.V107I	CATTGACGGTAAC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32605274	32605274	+	Silent	SNP	T	T	C	rs1130034	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	94	134	1	1	0.00746269	A|0.000;C|0.568;G|0.000;T|0.431	0.568	strong	.	HLA-DQA1	52	.	NM_002122	exon1	c.T39C	p.A13A	CCTCGCTCTGACC	.	PASS	Atlas-SNP
GTSE1	51512	hgsc.bcm.edu	37	22	46704676	46704676	+	Missense_Mutation	SNP	A	A	G	rs6008600	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	6	27	0	0.375	0	A|0.826;G|0.174	0.174	strong	.	GTSE1	100	.	NM_016426	exon4	c.A598G	p.T200A	CGCCTCACCCGGG	.	PASS	Atlas-SNP
CATSPER1	117144	hgsc.bcm.edu	37	11	65789004	65789004	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	31	36	0	0.430556	0	.	.	none	.	CATSPER1	101	.	NM_053054	exon4	c.C1654T	p.R552W	GGGCCCGCAGGCT	.	PASS	Atlas-SNP
C1D	10438	hgsc.bcm.edu	37	2	68270068	68270068	+	Missense_Mutation	SNP	A	A	G	rs11541327	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	51	168	0	0.351724	0	.	.	weak	C1D,NS,carcinoma,+1,1	C1D	11	1	NM_001190263	exon6	c.T379C	p.S127P	TTTTCGATTTTGG	.	PASS	Atlas-SNP
SPTLC3	55304	hgsc.bcm.edu	37	20	13053035	13053035	+	Silent	SNP	A	A	G	rs243888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	38	76	0	0.452381	0	A|0.332;G|0.668	0.668	strong	.	SPTLC3	78	.	NM_018327	exon3	c.A435G	p.S145S	GGTATCAGACGAC	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1051214	1051214	+	Silent	SNP	A	A	G	rs3752240	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	53	85	0	0.514563	0	A|0.653;G|0.347	0.347	strong	.	ABCA7	174	.	NM_019112	exon20	c.A2745G	p.V915V	CGCTGTAGTGGGC	.	PASS	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	37	22	21988524	21988524	+	Missense_Mutation	SNP	C	C	T	rs861854	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	36	56	0	0.545455	0	C|0.855;T|0.145	0.145	strong	CCDC116,NS,carcinoma,-1,1	CCDC116	56	1	NM_152612	exon3	c.C286T	p.R96C	ACTGAGCGCATGG	.	PASS	Atlas-SNP
AGT	183	hgsc.bcm.edu	37	1	230845977	230845977	+	Missense_Mutation	SNP	G	G	A	rs4762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	13	43	0	0.371429	0	G|0.900;A|0.100	0.100	strong	.	AGT	62	.	NM_000029	exon2	c.C620T	p.T207M	ACCACCGTGGACA	.	PASS	Atlas-SNP
PTPN12	5782	hgsc.bcm.edu	37	7	77256713	77256713	+	Missense_Mutation	SNP	A	A	G	rs3750050	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	44	100	0	0.473118	0	A|0.745;G|0.255	0.255	strong	.	PTPN12	83	.	NM_002835	exon13	c.A1717G	p.T573A	AGTCCTACAACAC	.	PASS	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	37	6	79679577	79679577	+	Silent	SNP	A	A	G	rs7742431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	43	84	0	0.394495	0	A|0.506;G|0.494	0.494	strong	.	PHIP	177	.	NM_017934	exon27	c.T3180C	p.D1060D	TTTTGCATCATCA	.	PASS	Atlas-SNP
RABGGTA	5875	hgsc.bcm.edu	37	14	24736961	24736961	+	Missense_Mutation	SNP	T	T	C	rs729421	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	146	131	0	0.993197	0	T|0.432;C|0.568	0.568	strong	.	RABGGTA	43	.	NM_004581	exon13	c.A1258G	p.T420A	GATACGTTGCCCG	.	PASS	Atlas-SNP
RHO	6010	hgsc.bcm.edu	37	3	129247936	129247936	+	Silent	SNP	C	C	T	rs79765751	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	23	64	0	0.353846	0	C|0.996;T|0.004	0.004	strong	.	RHO	57	.	NM_000539	exon1	c.C360T	p.G120G	CCTGGGCGGTATG	.	PASS	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91681888	91681888	+	Silent	SNP	G	G	A	rs34424078	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	13	39	0	0.433333	0	G|0.936;A|0.064	0.064	strong	.	C14orf159	57	.	NM_001102368	exon13	c.G1704A	p.P568P	CCTCCCGTCGGTC	.	PASS	Atlas-SNP
SLC26A8	116369	hgsc.bcm.edu	37	6	35980121	35980121	+	Missense_Mutation	SNP	C	C	T	rs743923	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	70	64	0	0.972222	0	C|0.714;T|0.286	0.286	strong	.	SLC26A8	95	.	NM_052961	exon3	c.G217A	p.V73M	TAAGCACGCATCG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9088722	9088722	+	Silent	SNP	G	G	A	rs17000948	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	60	120	0	0.472441	0	G|0.860;A|0.140	0.140	strong	.	MUC16	4315	.	NM_024690	exon1	c.C3093T	p.G1031G	CATAGAGCCTGGG	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136290672	136290672	+	Silent	SNP	G	G	A	rs28571612	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	41	61	0	0.539474	0	G|0.945;A|0.055	0.055	strong	.	ADAMTS13	113	.	NM_139026	exon4	c.G354A	p.P118P	GGACCCGTCCCTG	.	PASS	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	37	5	140711853	140711853	+	Silent	SNP	G	G	A	rs17097187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	58	89	0	0.487395	0	G|0.946;A|0.054	0.054	strong	.	PCDHGA1	397	.	NM_018912	exon1	c.G1602A	p.A534A	GATGGCGCGGGAC	.	PASS	Atlas-SNP
SMG6	23293	hgsc.bcm.edu	37	17	2203167	2203167	+	Missense_Mutation	SNP	T	T	G	rs216195	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	135	105	0	0.992647	0	T|0.655;G|0.345	0.345	strong	.	SMG6	97	.	NM_017575	exon2	c.A880C	p.K294Q	CTTGCTTCTTCAG	.	PASS	Atlas-SNP
ANKRD35	148741	hgsc.bcm.edu	37	1	145555699	145555699	+	Missense_Mutation	SNP	G	G	A	rs141350599	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	38	76	0	0.567164	0	G|0.998;A|0.002	0.002	strong	.	ANKRD35	96	.	NM_144698	exon2	c.G47A	p.R16K	TGGAGAGATGGAA	.	PASS	Atlas-SNP
MMRN2	79812	hgsc.bcm.edu	37	10	88696622	88696622	+	Missense_Mutation	SNP	C	C	G	rs34587013	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	55	111	0	0.443548	0	C|0.912;G|0.088	0.088	strong	.	MMRN2	49	.	NM_024756	exon7	c.G2728C	p.V910L	CAAAGACCGTTGC	.	PASS	Atlas-SNP
ZNF526	116115	hgsc.bcm.edu	37	19	42728836	42728836	+	Missense_Mutation	SNP	T	T	C	rs3810151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	33	61	0	0.402439	0	T|0.923;C|0.077	0.077	strong	.	ZNF526	51	.	NM_133444	exon3	c.T281C	p.V94A	AGAATGTTGGCCT	.	PASS	Atlas-SNP
SPG11	80208	hgsc.bcm.edu	37	15	44890486	44890486	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	68	123	0	0.447368	0	.	.	none	.	SPG11	207	.	NM_025137	exon23	c.C3978G	p.S1326R	CTGAATGCTGTTC	.	PASS	Atlas-SNP
NOSIP	51070	hgsc.bcm.edu	37	19	50059982	50059982	+	Silent	SNP	C	C	G	rs4594362	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	19	41	0	0.351852	0	C|0.940;G|0.060	0.060	strong	.	NOSIP	28	.	NM_015953	exon8	c.G549C	p.V183V	GCAGGTCACCGTG	.	PASS	Atlas-SNP
CTSS	1520	hgsc.bcm.edu	37	1	150727539	150727539	+	Missense_Mutation	SNP	G	G	A	rs2230061	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	53	118	0	0.317365	0	T|0.068;G|0.534;C|0.117;N|0.000;A|0.281	0.281	strong	CTSS,NS,carcinoma,0,1	CTSS	31	1	NM_004079	exon4	c.C337T	p.R113W	ATATCCGATTAGG	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84608900	84608900	+	Missense_Mutation	SNP	C	C	T	rs75742550	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	32	80	0	0.444444	0	C|0.993;T|0.007	0.007	strong	.	.	.	.	NM_001001670	exon4	c.C3515T	p.T1172I	CACTGACAAATGT	.	PASS	Atlas-SNP
SH3TC2	79628	hgsc.bcm.edu	37	5	148388512	148388512	+	Missense_Mutation	SNP	C	C	T	rs139192433	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	35	93	0	0.466667	0	C|0.998;T|0.002	0.002	strong	.	SH3TC2	178	.	NM_024577	exon15	c.G3380A	p.R1127Q	AAAATCCGGAGCT	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60897721	60897721	+	Missense_Mutation	SNP	C	C	T	rs3737137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	55	55	0	0.528846	0	C|0.858;T|0.142	0.142	strong	.	LAMA5	268	.	NM_005560	exon46	c.G6158A	p.R2053H	TGGCAGCGGTCAC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632820	32632820	+	Missense_Mutation	SNP	C	C	G	rs1130375	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	13	68	0	0.288889	0	G|0.228;C|0.772	0.228	strong	.	HLA-DQB1	15	.	NM_002123	exon2	c.G134C	p.G45A	CACATGCCCTTAA	.	PASS	Atlas-SNP
SPHK2	56848	hgsc.bcm.edu	37	19	49129486	49129486	+	Silent	SNP	G	G	A	rs61748787	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	5	7	0	0.357143	0	G|0.962;A|0.038	0.038	strong	.	SPHK2	62	.	NM_020126	exon3	c.G378A	p.G126G	GCGCGGGGCCCGG	.	PASS	Atlas-SNP
FCRL1	115350	hgsc.bcm.edu	37	1	157768000	157768000	+	Silent	SNP	G	G	C	rs3811024	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	59	101	0	0.359756	0	G|0.747;C|0.253	0.253	strong	.	FCRL1	164	.	NM_001159398	exon8	c.C1065G	p.T355T	GAGGTAGGTGAAC	.	PASS	Atlas-SNP
LRRC37A2	474170	hgsc.bcm.edu	37	17	44618187	44618187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	571	2	747	0	0.00350263	0	.	.	none	LRRC37A2,NS,carcinoma,-1,1	LRRC37A2	37	1	NM_001006607	exon7	c.C2993T	p.T998M	GAACAACGCTAGT	.	scavenged	Atlas-SNP
FBXO24	26261	hgsc.bcm.edu	37	7	100198386	100198386	+	Missense_Mutation	SNP	C	C	T	rs11768465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	52	96	0	0.477064	0	C|0.761;T|0.239	0.239	strong	.	FBXO24	125	.	NM_012172	exon10	c.C1721T	p.T574M	ACCGCACGGAGAA	.	PASS	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44072018	44072018	+	Silent	SNP	C	C	T	rs1065772	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	35	83	0	0.466667	0	C|0.732;T|0.268	0.268	strong	.	PTPRF	172	.	NM_002840	exon20	c.C3591T	p.T1197T	GGAGACCTTTACC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506760	195506760	+	Silent	SNP	T	T	A	rs62282473	byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	28	74	0	0.8	0	T|0.967;A|0.033	0.033	strong	.	MUC4	1505	.	NM_018406	exon2	c.A11691T	p.A3897A	TGTGGATGCTGAG	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124766128	124766128	+	Silent	SNP	A	A	G	rs4078313	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	46	120	0	0.455446	0	A|0.539;G|0.461	0.461	strong	.	ROBO4	130	.	NM_019055	exon4	c.T645C	p.H215H	CTCCCTATGTCCT	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201184275	201184275	+	Silent	SNP	C	C	T	rs2275673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	124	162	0	0.587678	0	C|0.683;T|0.317	0.317	strong	.	IGFN1	220	.	NM_001164586	exon14	c.C8988T	p.T2996T	CCTGACCGTCCAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281008	152281008	+	Silent	SNP	A	A	G	rs7512554	bycluster;by2hit2allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	427	176	248	1	0.412178	0.00403226	A|0.500;G|0.500	0.500	weak	.	FLG	900	.	NM_002016	exon3	c.T6354C	p.H2118H	ATCATAATGGGAT	.	PASS	Atlas-SNP
C3orf35	339883	hgsc.bcm.edu	37	3	37458758	37458758	+	Missense_Mutation	SNP	A	A	C	rs113724034	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	28	39	0	0.571429	0	A|0.976;C|0.024	0.024	strong	C3orf35,NS,carcinoma,0,1	C3orf35	21	1	NM_178342	exon5	c.A1C	p.M1L	ATCCACATGAAAA	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	41976529	41976529	+	Missense_Mutation	SNP	C	C	T	rs11809423	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	40	46	0	0.606061	0	C|0.909;T|0.091	0.091	strong	.	HIVEP3	235	.	NM_024503	exon9	c.G6814A	p.G2272R	AGTCCCCGCCCTC	.	PASS	Atlas-SNP
HPGD	3248	hgsc.bcm.edu	37	4	175443156	175443156	+	Silent	SNP	C	C	T	rs1050145	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	19	69	0	0.287879	0	C|0.628;T|0.372	0.372	strong	HPGD,NS,carcinoma,0,1	HPGD	19	1	NM_000860	exon2	c.G156A	p.Q52Q	TTCAAACTGCTCA	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143747097	143747097	+	Silent	SNP	C	C	T	rs34800931	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	23	48	0	0.511111	0	C|0.968;T|0.032	0.032	strong	.	.	.	.	NM_003724	exon2	c.G381A	p.E127E	GCAGGGCTCAGTG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152286367	152286367	+	Missense_Mutation	SNP	C	C	A	rs41267154	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	288	184	238	0	0.638889	0	C|0.793;A|0.207	0.207	strong	.	FLG	900	.	NM_002016	exon3	c.G995T	p.G332V	CTGGAGCCATCTC	.	PASS	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	37	7	135269655	135269655	+	Missense_Mutation	SNP	T	T	C	rs58392569	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	20	90	0	0.333333	0	T|0.960;C|0.040	0.040	strong	.	NUP205	198	.	NM_015135	exon8	c.T1118C	p.M373T	TCCTCATGGAATC	.	PASS	Atlas-SNP
PLIN3	10226	hgsc.bcm.edu	37	19	4859937	4859937	+	Missense_Mutation	SNP	T	T	C	rs8289	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	87	0	0.493827	0	T|0.343;C|0.657	0.657	strong	PLIN3,NS,carcinoma,0,1	PLIN3	36	1	NM_001164189	exon3	c.A166G	p.I56V	TCTTGATGTGCGG	.	PASS	Atlas-SNP
CNTNAP1	8506	hgsc.bcm.edu	37	17	40839829	40839829	+	Missense_Mutation	SNP	G	G	A	rs375309204		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	23	101	0	0.267442	0	.	.	weak	.	CNTNAP1	116	.	NM_003632	exon8	c.G1136A	p.R379H	TCCCACGCCGTGG	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	256470	256470	+	Missense_Mutation	SNP	G	G	A	rs3211483		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	2	90	0	0.0186916	0	G|1.000;|0.000	.	weak	SDHA,NS,adenocarcinoma,0,2	SDHA	80	2	NM_004168	exon15	c.G1930A	p.V644M	AGACCCGTGATCG	.	scavenged	Atlas-SNP
NUBP2	10101	hgsc.bcm.edu	37	16	1836796	1836796	+	Silent	SNP	C	C	A	rs2235648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	29	45	0	0.517857	0	C|0.448;A|0.552	0.552	strong	NUBP2,colon,carcinoma,0,2	NUBP2	25	2	NM_012225	exon3	c.C174A	p.I58I	CAGTATCCCCCGC	.	PASS	Atlas-SNP
NDNF	79625	hgsc.bcm.edu	37	4	121957559	121957559	+	Silent	SNP	G	G	A	rs34766411	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	316	158	303	0	0.5	0	G|0.789;A|0.211	0.211	strong	.	NDNF	72	.	NM_024574	exon4	c.C1567T	p.L523L	TCTGCAGGTTTTG	.	PASS	Atlas-SNP
SLFN14	342618	hgsc.bcm.edu	37	17	33880003	33880003	+	Silent	SNP	C	C	G	rs28498569	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	32	76	0	0.52459	0	C|0.765;G|0.235	0.235	strong	.	SLFN14	43	.	NM_001129820	exon3	c.G1650C	p.V550V	GGAGACCACCACC	.	PASS	Atlas-SNP
LITAF	9516	hgsc.bcm.edu	37	16	11647492	11647492	+	Missense_Mutation	SNP	T	T	C	rs4280262	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	31	32	0	0.418919	0	T|0.859;C|0.141	0.141	strong	.	LITAF	16	.	NM_001136473	exon3	c.A274G	p.I92V	TTTGGATAGGGCG	.	PASS	Atlas-SNP
POM121	9883	hgsc.bcm.edu	37	7	72413423	72413423	+	Missense_Mutation	SNP	C	C	T	rs75799836		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	242	52	293	0	0.214876	0	C|0.500;T|0.500	0.500	weak	POM121,rectum,carcinoma,0,1	POM121	131	1	NM_172020	exon11	c.C2096T	p.P699L	CATATCCGGGAGC	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	98943446	98943446	+	Silent	SNP	T	T	C	rs2290470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	21	52	0	0.403846	0	C|0.399;T|0.601	0.399	strong	.	MATN2	165	.	NM_002380	exon3	c.T408C	p.T136T	CATGACTGGGCTG	.	PASS	Atlas-SNP
OR2A2	442361	hgsc.bcm.edu	37	7	143807515	143807515	+	Missense_Mutation	SNP	T	T	G	rs2961149	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	31	108	0	0.449275	0	T|0.584;G|0.416	0.416	strong	.	OR2A2	48	.	NM_001005480	exon1	c.T840G	p.F280L	TGTCTTTAATCCA	.	PASS	Atlas-SNP
CRLF1	9244	hgsc.bcm.edu	37	19	18710496	18710496	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	69	105	0	0.511111	0	.	.	none	.	CRLF1	32	.	NM_004750	exon2	c.C276T	p.N92N	GGAGGCGTTGAGT	.	PASS	Atlas-SNP
VENTX	27287	hgsc.bcm.edu	37	10	135051562	135051562	+	Silent	SNP	A	A	G	rs2998143	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	47	0	1	0	A|0.248;G|0.752	0.752	strong	VENTX,NS,carcinoma,0,1	VENTX	24	1	NM_014468	exon1	c.A144G	p.P48P	TGGCCCAGGCCAG	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733209	52733209	+	Missense_Mutation	SNP	A	A	G	rs202074278		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	4	147	2	0.0261438	0.0136054	.	.	weak	PCMTD1,NS,carcinoma,0,2	PCMTD1	73	2	NM_052937	exon6	c.T776C	p.I259T	TCATTTATGAAAT	.	scavenged	Atlas-SNP
OR1D5	8386	hgsc.bcm.edu	37	17	2966173	2966173	+	Silent	SNP	G	G	C	rs61752193	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	427	129	312	0	0.302108	0	G|0.162;C|0.837	0.837	strong	.	OR1D5	33	.	NM_014566	exon1	c.C729G	p.S243S	CAAATGGGAGGCA	.	PASS	Atlas-SNP
RPS16	6217	hgsc.bcm.edu	37	19	39923952	39923952	+	Silent	SNP	G	G	A	rs17627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	66	116	0	0.503817	0	G|0.758;A|0.242	0.242	strong	.	RPS16	12	.	NM_001020	exon5	c.C402T	p.G134G	ACCAGGGCCTCCA	.	PASS	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115047305	115047305	+	Missense_Mutation	SNP	G	G	A	rs3752105	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	28	65	0	0.373333	0	G|0.728;A|0.272	0.272	strong	UPF3A,NS,carcinoma,0,1	UPF3A	47	1	NM_080687	exon1	c.G191A	p.R64K	AGAAGAGGACGGC	.	PASS	Atlas-SNP
SERPINA4	5267	hgsc.bcm.edu	37	14	95033356	95033356	+	Silent	SNP	C	C	T	rs5510	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	70	116	0	0.518519	0	C|0.718;T|0.282	0.282	strong	.	SERPINA4	81	.	NM_006215	exon3	c.C699T	p.F233F	AGACTTCTATGTT	.	PASS	Atlas-SNP
HSD17B12	51144	hgsc.bcm.edu	37	11	43876698	43876698	+	Missense_Mutation	SNP	C	C	T	rs11555762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	52	111	0	0.481481	0	C|0.665;T|0.335	0.335	strong	.	HSD17B12	25	.	NM_016142	exon11	c.C839T	p.S280L	AGGGCTCGATAAT	.	PASS	Atlas-SNP
B3GNT7	93010	hgsc.bcm.edu	37	2	232263127	232263127	+	Missense_Mutation	SNP	G	G	A	rs2290130	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	76	133	0	0.506667	0	G|0.763;A|0.237	0.237	strong	.	B3GNT7	38	.	NM_145236	exon2	c.G697A	p.V233I	CCCCACGTCCCCT	.	PASS	Atlas-SNP
ZFP28	140612	hgsc.bcm.edu	37	19	57058998	57058998	+	Missense_Mutation	SNP	C	C	G	rs34136271	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	44	90	0	0.5	0	C|0.859;G|0.141	0.141	strong	.	ZFP28	99	.	NM_020828	exon3	c.C422G	p.S141W	TGGCATCGCTGGG	.	PASS	Atlas-SNP
SESTD1	91404	hgsc.bcm.edu	37	2	179986553	179986553	+	Silent	SNP	T	T	C	rs56336305	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	32	62	0	0.426667	0	T|0.982;C|0.018	0.018	strong	.	SESTD1	66	.	NM_178123	exon13	c.A1386G	p.K462K	ATTTTCTTTATTT	.	PASS	Atlas-SNP
LRRC37A2	474170	hgsc.bcm.edu	37	17	44630768	44630768	+	Missense_Mutation	SNP	A	A	G	rs76911105	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	606	7	1504	14	0.0115512	0.00930851	.	.	alt	LRRC37A2,NS,carcinoma,0,2	LRRC37A2	37	2	NM_001006607	exon11	c.A4812G	p.I1604M	ACAGATATGTTGT	.	scavenged	Atlas-SNP
TTI2	80185	hgsc.bcm.edu	37	8	33369944	33369944	+	Missense_Mutation	SNP	T	T	C	rs2304748	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	40	71	0	0.425532	0	C|0.548;N|0.000	0.548	strong	C8orf41,NS,carcinoma,-1,1	.	.	1	NM_001265581	exon2	c.A188G	p.E63G	TCAAATTCTGTGG	.	PASS	Atlas-SNP
SIRT1	23411	hgsc.bcm.edu	37	10	69644820	69644820	+	Missense_Mutation	SNP	C	C	A	rs182199697	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	27	32	0	0.627907	0	C|0.989;A|0.011	0.011	strong	.	SIRT1	38	.	NM_012238	exon1	c.C341A	p.P114Q	GGGAGCCACCGCT	.	PASS	Atlas-SNP
OXA1L	5018	hgsc.bcm.edu	37	14	23235808	23235808	+	Silent	SNP	G	G	A	rs1957374	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	63	74	0	0.984375	0	G|0.629;A|0.371	0.371	strong	.	OXA1L	49	.	NM_005015	exon1	c.G78A	p.L26L	TGATCTGCGGCTA	.	PASS	Atlas-SNP
TYW3	127253	hgsc.bcm.edu	37	1	75214441	75214441	+	Missense_Mutation	SNP	A	A	G	rs1133891	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	82	220	0	0.388626	0	A|0.763;G|0.237	0.237	strong	.	TYW3	36	.	NM_138467	exon4	c.A361G	p.M121V	CATTCCATGGCAA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152279841	152279841	+	Missense_Mutation	SNP	G	G	C	rs3126074	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	246	172	143	0	0.699187	0	G|0.693;C|0.307	0.307	strong	.	FLG	900	.	NM_002016	exon3	c.C7521G	p.H2507Q	TCCTGAGTGCCCA	.	PASS	Atlas-SNP
CD6	923	hgsc.bcm.edu	37	11	60776209	60776209	+	Missense_Mutation	SNP	C	C	T	rs11230563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	111	44	0	0.991071	0	C|0.622;T|0.378	0.378	strong	.	CD6	122	.	NM_006725	exon4	c.C673T	p.R225W	ATCCACCGGGACC	.	PASS	Atlas-SNP
SRCIN1	80725	hgsc.bcm.edu	37	17	36704829	36704829	+	Silent	SNP	G	G	A	rs56321748	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	33	52	0	0.515625	0	G|0.883;A|0.117	0.117	strong	.	SRCIN1	66	.	NM_025248	exon17	c.C3234T	p.D1078D	ATCCTCGTCCTTG	.	PASS	Atlas-SNP
ATP2C2	9914	hgsc.bcm.edu	37	16	84476200	84476200	+	Missense_Mutation	SNP	A	A	T	rs247897	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	30	79	0	0.46875	0	A|0.597;T|0.403	0.403	strong	.	ATP2C2	75	.	NM_014861	exon15	c.A1396T	p.M466L	CTGGCGATGAAGG	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52351413	52351413	+	Silent	SNP	G	G	A	rs1062535	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	51	88	0	0.520408	0	G|0.627;A|0.373	0.373	strong	.	ITGA2	211	.	NM_002203	exon8	c.G825A	p.T275T	TGCTACGAAAGTA	.	PASS	Atlas-SNP
BMS1	9790	hgsc.bcm.edu	37	10	43292647	43292647	+	Missense_Mutation	SNP	A	A	G	rs787795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	46	79	0	0.522727	0	A|0.810;C|0.002	.	strong	.	BMS1	132	.	NM_014753	exon10	c.A1955G	p.K652R	ATTACAAGGAAGA	.	PASS	Atlas-SNP
ANO8	57719	hgsc.bcm.edu	37	19	17435851	17435851	+	Silent	SNP	G	G	T	rs755124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	49	89	0	0.544444	0	G|0.933;T|0.067	0.067	strong	.	ANO8	67	.	NM_020959	exon17	c.C3006A	p.A1002A	GGCTCCGGCCCCT	.	PASS	Atlas-SNP
MAPT	4137	hgsc.bcm.edu	37	17	44067382	44067382	+	Missense_Mutation	SNP	T	T	C	rs2258689	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	37	63	0	0.544118	0	A|0.134;C|0.198	0.198	strong	MAPT_ENST00000344290,NS,adenoma,-2,3	MAPT	135	3	NM_001123066	exon8	c.T1321C	p.Y441H	CCTAAATACGTCT	.	PASS	Atlas-SNP
DSG1	1828	hgsc.bcm.edu	37	18	28898294	28898294	+	Missense_Mutation	SNP	A	A	G	rs1426310	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	27	50	0	0.317647	0	A|0.579;G|0.421	0.421	strong	.	DSG1	176	.	NM_001942	exon1	c.A31G	p.M11V	GTTGCAATGCTGT	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629891	32629891	+	Missense_Mutation	SNP	C	C	T	rs1063323	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	44	107	0	1	0	C|0.587;T|0.413	0.413	strong	HLA-DQB1,colon,carcinoma,+1,1	HLA-DQB1	15	1	NM_002123	exon3	c.G514A	p.A172T	CGCCGGCTGTCTC	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140052271	140052271	+	Silent	SNP	A	A	G	rs2563333	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	6	2	0	0.666667	0	A|0.513;G|0.487	0.487	strong	.	DND1	15	.	NM_194249	exon3	c.T363C	p.H121H	CAGCGGATGGTTG	.	PASS	Atlas-SNP
TTC27	55622	hgsc.bcm.edu	37	2	32961858	32961858	+	Missense_Mutation	SNP	A	A	G	rs2273660	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	59	85	0	0.522124	0	A|0.866;G|0.134	0.134	strong	.	TTC27	71	.	NM_017735	exon12	c.A1427G	p.Y476C	TTTGTTATGAAAG	.	PASS	Atlas-SNP
TOPBP1	11073	hgsc.bcm.edu	37	3	133356790	133356790	+	Missense_Mutation	SNP	G	G	A	rs17301766	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	37	105	0	0.276119	0	G|0.890;A|0.110	0.110	strong	.	TOPBP1	218	.	NM_007027	exon14	c.C2450T	p.S817L	TGTAACGAGGGCT	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110534512	110534512	+	Silent	SNP	G	G	A	rs1563578	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	25	75	0	0.403226	0	G|0.740;A|0.260	0.260	strong	PKHD1L1,NS,carcinoma,+1,1	PKHD1L1	522	1	NM_177531	exon74	c.G12129A	p.S4043S	CATTTCGTCCATG	.	PASS	Atlas-SNP
ZNF773	374928	hgsc.bcm.edu	37	19	58017754	58017754	+	Silent	SNP	A	A	G	rs61737910	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	36	75	0	0.514286	0	A|0.834;G|0.166	0.166	strong	.	ZNF773	62	.	NM_198542	exon4	c.A291G	p.A97A	TGAGGCAGCTGCT	.	PASS	Atlas-SNP
FIG4	9896	hgsc.bcm.edu	37	6	110146303	110146303	+	Silent	SNP	G	G	A	rs1127771	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	28	61	0	0.482759	0	G|0.652;A|0.348	0.348	strong	.	FIG4	77	.	NM_014845	exon23	c.G2559A	p.S853S	CATCTCGGCTTTC	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100087345	100087345	+	Silent	SNP	A	A	G	rs3747496	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	79	0	0.523077	0	A|0.437;G|0.563	0.563	strong	KIAA1529,NS,carcinoma,0,1	.	.	1	NM_020893	exon14	c.A1548G	p.S516S	GAGTTCACACCTC	.	PASS	Atlas-SNP
RAD52	5893	hgsc.bcm.edu	37	12	1039288	1039288	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	2	209	1	0.0122699	0.00478469	.	.	none	RAD52,NS,carcinoma,0,1	RAD52	27	1	NM_134424	exon4	c.G209A	p.R70Q	ATTACCCGATGAC	.	scavenged	Atlas-SNP
TRIM48	79097	hgsc.bcm.edu	37	11	55032500	55032500	+	Missense_Mutation	SNP	C	C	T	rs141034048	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	283	16	570	0	0.0565371	0	C|0.997;T|0.003	0.003	strong	TRIM48_ENST00000417545,extremity,malignant_melanoma,0,2	TRIM48	149	2	NM_024114	exon2	c.C169T	p.L57F	TTCTACCTCAACT	.	scavenged	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	37	4	47570876	47570876	+	Missense_Mutation	SNP	G	G	A	rs17462252	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	56	115	0	0.513761	0	G|0.961;A|0.039	0.039	strong	.	ATP10D	168	.	NM_020453	exon16	c.G2876A	p.S959N	TGATGAGCACAAT	.	PASS	Atlas-SNP
OR52K1	390036	hgsc.bcm.edu	37	11	4510587	4510587	+	Missense_Mutation	SNP	C	C	T	rs331510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	80	192	0	0.465116	0	C|0.809;T|0.191	0.191	strong	OR52K1,NS,carcinoma,-1,1	OR52K1	70	1	NM_001005171	exon1	c.C457T	p.R153W	GTGGCCCGGGCTG	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6585007	6585007	+	Missense_Mutation	SNP	G	G	A	rs11040923	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	30	55	0	0.612245	0	G|0.573;A|0.427	0.427	strong	.	DNHD1	198	.	NM_144666	exon31	c.G9937A	p.D3313N	ATGGACGATGCAG	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91522548	91522548	+	Missense_Mutation	SNP	A	A	G	rs34354493	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	28	54	0	0.608696	0	A|0.845;G|0.155	0.155	strong	.	KIF20B	191	.	NM_016195	exon29	c.A4825G	p.K1609E	ACAGTTAAGATTC	.	PASS	Atlas-SNP
VMO1	284013	hgsc.bcm.edu	37	17	4689572	4689572	+	Missense_Mutation	SNP	T	T	C	rs4790706	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	43	0	1	0	T|0.502;C|0.498	0.498	strong	.	VMO1	19	.	NM_182566	exon1	c.A76G	p.T26A	CATCTGTCTGTGC	.	PASS	Atlas-SNP
ATP2B2	491	hgsc.bcm.edu	37	3	10413715	10413715	+	Silent	SNP	G	G	A	rs2289274	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	258	143	188	0	0.554264	0	G|0.752;A|0.248	0.248	strong	ATP2B2_ENST00000360273,right_lower_lobe,carcinoma,-1,3	ATP2B2	304	3	NM_001001331	exon12	c.C1437T	p.N479N	TACCAGGTTGTTG	.	PASS	Atlas-SNP
SASH1	23328	hgsc.bcm.edu	37	6	148841011	148841011	+	Silent	SNP	C	C	T	rs13196292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	4	18	0	0.444444	0	C|0.926;T|0.074	0.074	strong	SASH1,NS,carcinoma,0,2	SASH1	123	2	NM_015278	exon10	c.C1191T	p.L397L	GGGTCTCGGGTCC	.	scavenged	Atlas-SNP
ELL	8178	hgsc.bcm.edu	37	19	18583657	18583657	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	12	22	0	0.428571	0	.	.	none	.	ELL	52	.	NM_006532	exon2	c.A171G	p.Q57Q	GCTTCCTTGAAAT	.	PASS	Atlas-SNP
VPS8	23355	hgsc.bcm.edu	37	3	184550501	184550501	+	Missense_Mutation	SNP	A	A	G	rs9830734	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	226	128	159	0	0.566372	0	A|0.480;G|0.520	0.520	strong	.	VPS8	109	.	NM_001009921	exon4	c.A247G	p.I83V	TCTTTTATTCTTG	.	PASS	Atlas-SNP
TCTEX1D1	200132	hgsc.bcm.edu	37	1	67236097	67236097	+	Missense_Mutation	SNP	A	A	T	rs1060575	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	31	62	0	0.476923	0	A|0.878;N|0.000	.	strong	.	TCTEX1D1	27	.	NM_152665	exon3	c.A147T	p.E49D	TATGGAAGAACCC	.	PASS	Atlas-SNP
FAM71B	153745	hgsc.bcm.edu	37	5	156589585	156589585	+	Missense_Mutation	SNP	A	A	G	rs31208	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	73	197	0	0.424419	0	A|0.858;G|0.142	0.142	strong	.	FAM71B	145	.	NM_130899	exon2	c.T1691C	p.M564T	TCCACCATCTTAG	.	PASS	Atlas-SNP
TRAF3IP1	26146	hgsc.bcm.edu	37	2	239237974	239237974	+	Silent	SNP	T	T	C	rs17854985	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	14	27	0	0.466667	0	T|0.883;C|0.117	0.117	strong	.	TRAF3IP1	58	.	NM_015650	exon5	c.T906C	p.P302P	CAAACCTGAGAAA	.	PASS	Atlas-SNP
NFASC	23114	hgsc.bcm.edu	37	1	204966428	204966428	+	Missense_Mutation	SNP	C	C	G	rs2802808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	118	163	0	0.631016	0	C|0.678;G|0.322	0.322	strong	NFASC_ENST00000339876,caecum,carcinoma,0,2	NFASC	396	2	NM_001005388	exon25	c.C2913G	p.I971M	CACCATCGCCACC	.	PASS	Atlas-SNP
PEX6	5190	hgsc.bcm.edu	37	6	42933526	42933526	+	Silent	SNP	C	C	T	rs2274515	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	16	60	0	0.421053	0	C|0.937;T|0.063	0.063	strong	.	PEX6	44	.	NM_000287	exon13	c.G2364A	p.V788V	GGCAAACACTGAA	.	PASS	Atlas-SNP
PRR12	57479	hgsc.bcm.edu	37	19	50097784	50097784	+	Silent	SNP	T	T	C	rs10414643	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	43	57	0	0.558442	0	T|0.712;C|0.288	0.288	strong	PRR12_ENST00000418929,NS,carcinoma,0,1	PRR12	157	1	NM_020719	exon3	c.T273C	p.L91L	GAACCTTATCTCG	.	PASS	Atlas-SNP
AKAP17A	8227	hgsc.bcm.edu	37	X	1719897	1719897	+	Missense_Mutation	SNP	C	C	G	rs28661622	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	12	12	21	0	1	0	C|0.459;G|0.541	0.541	strong	.	AKAP17A	46	.	NM_005088	exon5	c.C1498G	p.P500A	GAGAGCCCGGCCC	.	PASS	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18777268	18777268	+	Missense_Mutation	SNP	C	C	T	rs117786774	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	23	41	0	0.418182	0	C|0.982;T|0.018	0.018	strong	.	ADAMTSL1	306	.	NM_001040272	exon19	c.C3041T	p.A1014V	GCCTGGCCGCCAA	.	PASS	Atlas-SNP
TCHH	7062	hgsc.bcm.edu	37	1	152083325	152083325	+	Missense_Mutation	SNP	A	A	T	rs11803731	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	62	72	0	0.652632	0	A|0.890;T|0.110	0.110	strong	.	TCHH	275	.	NM_007113	exon3	c.T2368A	p.L790M	CCCGCAATGGGGG	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158612236	158612236	+	Missense_Mutation	SNP	A	A	G	rs863931	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	385	149	262	0	0.387013	0	A|0.379;G|0.621	0.621	strong	.	SPTA1	720	.	NM_003126	exon33	c.T4702C	p.C1568R	CGCTACACTCAAT	.	PASS	Atlas-SNP
PPARGC1B	133522	hgsc.bcm.edu	37	5	149212510	149212510	+	Missense_Mutation	SNP	C	C	A	rs11959820	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	54	115	2	0.519231	0.0173913	C|0.912;A|0.087	0.087	strong	PPARGC1B,NS,carcinoma,0,1	PPARGC1B	74	1	NM_133263	exon5	c.C874A	p.R292S	CTCATACGCTACA	.	scavenged	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204588140	204588140	+	Silent	SNP	G	G	A	rs3747630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	32	97	0	0.301887	0	G|0.800;A|0.200	0.200	strong	.	LRRN2	81	.	NM_006338	exon3	c.C981T	p.H327H	GCGGGGGTGGATG	.	PASS	Atlas-SNP
AP1G2	8906	hgsc.bcm.edu	37	14	24033027	24033027	+	Missense_Mutation	SNP	G	G	A	rs12897422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	32	74	0	0.463768	0	G|0.919;A|0.081	0.081	strong	.	AP1G2	75	.	NM_003917	exon12	c.C1130T	p.S377F	ACATTGGAGCTAT	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74203789	74203789	+	Missense_Mutation	SNP	G	G	A	rs17782124	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	48	70	0	0.516129	0	G|0.856;A|0.144	0.144	strong	.	.	.	.	NM_194278	exon3	c.C1661T	p.P554L	TGTTCAGGACCCT	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169512093	169512093	+	Silent	SNP	A	A	G	rs6017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	87	134	0	0.583893	0	A|0.760;G|0.240	0.240	strong	.	F5	301	.	NM_000130	exon13	c.T2235C	p.N745N	TTCCTGATTCAAT	.	PASS	Atlas-SNP
ZNF518B	85460	hgsc.bcm.edu	37	4	10447640	10447640	+	Missense_Mutation	SNP	A	A	G	rs10016702	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	43	71	0	0.488636	0	A|0.793;G|0.207	0.207	strong	ZNF518B,NS,carcinoma,0,1	ZNF518B	116	1	NM_053042	exon3	c.T313C	p.S105P	CACTGGAATTATT	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34924243	34924243	+	Silent	SNP	T	T	C	rs16990760	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	200	86	229	1	0.43	0.00436681	T|0.786;C|0.214	0.214	strong	SON_ENST00000300278,NS,adenoma,0,2	SON	343	2	NM_032195	exon3	c.T2706C	p.D902D	CCAAGATTCTGCT	.	scavenged	Atlas-SNP
OR51G2	81282	hgsc.bcm.edu	37	11	4936608	4936608	+	Missense_Mutation	SNP	C	C	G	rs12419598	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	29	68	0	0.47541	0	C|0.921;G|0.079	0.079	strong	.	OR51G2	70	.	NM_001005238	exon1	c.G286C	p.E96Q	TAATTTCTCGTGC	.	PASS	Atlas-SNP
ARHGEF11	9826	hgsc.bcm.edu	37	1	156941607	156941607	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	33	42	0	0.515625	0	.	.	none	.	ARHGEF11	168	.	NM_198236	exon8	c.G584A	p.R195H	CAGATACGCTAGG	.	PASS	Atlas-SNP
C2orf70	339778	hgsc.bcm.edu	37	2	26799031	26799031	+	Silent	SNP	G	G	A	rs2272464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	23	57	0	0.442308	0	G|0.672;A|0.328	0.328	strong	.	C2orf70	26	.	NM_001105519	exon2	c.G336A	p.T112T	GCTTACGAATTTC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124355003	124355003	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	40	63	0	0.43956	0	.	.	none	.	DNAH10	888	.	NM_207437	exon43	c.C7256T	p.A2419V	TTCATGCCCCCGA	.	PASS	Atlas-SNP
ZNF879	345462	hgsc.bcm.edu	37	5	178455114	178455114	+	Missense_Mutation	SNP	A	A	G	rs146216019	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	46	95	0	0.630137	0	A|0.996;G|0.004	0.004	strong	.	ZNF879	41	.	NM_001136116	exon4	c.A242G	p.Q81R	TTCCCCAAGGCGC	.	PASS	Atlas-SNP
WDR52	55779	hgsc.bcm.edu	37	3	113135374	113135374	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	290	4	195	1	0.0137931	0.00512821	.	.	none	WDR52,NS,carcinoma,-1,1	WDR52	151	1	NM_001164496	exon6	c.G671A	p.R224Q	TCACCTCGAAGGA	.	scavenged	Atlas-SNP
MSTN	2660	hgsc.bcm.edu	37	2	190925077	190925077	+	Missense_Mutation	SNP	T	T	C	rs1805086	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	67	126	0	0.540323	0	T|0.932;C|0.068	0.068	strong	.	MSTN	46	.	NM_005259	exon2	c.A458G	p.K153R	TGGGCCTTTACTA	.	PASS	Atlas-SNP
KIAA1731	85459	hgsc.bcm.edu	37	11	93454524	93454524	+	Silent	SNP	T	T	C	rs17651231	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	87	176	0	0.450777	0	T|0.957;C|0.043	0.043	strong	.	KIAA1731	173	.	NM_033395	exon19	c.T5796C	p.Y1932Y	AAGTTATGCTGTG	.	PASS	Atlas-SNP
SLC5A1	6523	hgsc.bcm.edu	37	22	32506143	32506143	+	Silent	SNP	C	C	T	rs33954397	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	224	120	236	0	0.535714	0	C|0.952;T|0.048	0.048	strong	.	SLC5A1	80	.	NM_000343	exon15	c.C1938T	p.N646N	GTTGAACGTCAAT	.	PASS	Atlas-SNP
OR4B1	119765	hgsc.bcm.edu	37	11	48239182	48239182	+	Missense_Mutation	SNP	C	C	A	rs7130086	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	36	59	0	0.48	0	A|0.186;C|0.806;T|0.008	0.186	strong	.	OR4B1	52	.	NM_001005470	exon1	c.C821A	p.T274K	TCTACACGGTCAT	.	PASS	Atlas-SNP
CDRT1	374286	hgsc.bcm.edu	37	17	15498089	15498089	+	Missense_Mutation	SNP	C	C	T	rs201107040	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	58	135	0	0.513274	0	C|0.999;T|0.001	0.001	weak	ENSG00000251537,colon,carcinoma,-1,4	CDRT1	83	4	NM_006382	exon10	c.G1820A	p.R607H	AGGCAGCGCTCGT	.	PASS	Atlas-SNP
SERPINA3	12	hgsc.bcm.edu	37	14	95080803	95080803	+	Missense_Mutation	SNP	G	G	A	rs4934	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	7	23	0	0.5	0	G|0.587;A|0.413	0.413	strong	.	SERPINA3	78	.	NM_001085	exon2	c.G25A	p.A9T	CTCCTGGCTCTGG	.	PASS	Atlas-SNP
HECW2	57520	hgsc.bcm.edu	37	2	197208397	197208397	+	Silent	SNP	C	C	T	rs61741962	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	24	72	0	0.352941	0	C|0.984;T|0.016	0.016	strong	.	HECW2	239	.	NM_020760	exon3	c.G384A	p.G128G	ATAGGGCCCAGGC	.	PASS	Atlas-SNP
FTCD	10841	hgsc.bcm.edu	37	21	47571845	47571845	+	Silent	SNP	C	C	T	rs61729391	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	24	29	0	0.40678	0	C|0.926;T|0.074	0.074	strong	FTCD,caecum,carcinoma,0,1	FTCD	59	1	NM_206965	exon4	c.G417A	p.P139P	GATGGCCGGCAGG	.	PASS	Atlas-SNP
LUZP2	338645	hgsc.bcm.edu	37	11	25098938	25098938	+	Missense_Mutation	SNP	G	G	C	rs7930185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	72	69	0	0.972973	0	G|0.600;C|0.400	0.400	strong	.	LUZP2	90	.	NM_001009909	exon11	c.G922C	p.E308Q	GAAACCGAGCCTA	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59810563	59810563	+	Silent	SNP	A	A	G	rs34227891	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	142	188	0	0.97931	0	A|0.789;G|0.211	0.211	strong	PIGN,NS,carcinoma,0,1	PIGN	62	1	NM_176787	exon11	c.T939C	p.N313N	CTTCCAATTCTCC	.	PASS	Atlas-SNP
TTC37	9652	hgsc.bcm.edu	37	5	94826655	94826655	+	Missense_Mutation	SNP	C	C	A	rs2303650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	268	116	309	0	0.432836	0	C|0.776;A|0.224	0.224	strong	.	TTC37	128	.	NM_014639	exon37	c.G3888T	p.R1296S	ATCTATCCTCTTT	.	PASS	Atlas-SNP
FCGR3B	2215	hgsc.bcm.edu	37	1	161599571	161599571	+	Missense_Mutation	SNP	T	T	C	rs2290834	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	53	284	0	0.519608	0	.	.	weak	FCGR3B,NS,carcinoma,+2,1	FCGR3B	35	1	NM_001244753	exon3	c.A424G	p.I142V	CACCGATATGGAC	.	scavenged	Atlas-SNP
LRRC17	10234	hgsc.bcm.edu	37	7	102574920	102574920	+	Missense_Mutation	SNP	G	G	C	rs1057066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	80	0	1	0	G|0.848;C|0.152	0.152	strong	.	LRRC17	45	.	NM_005824	exon2	c.G560C	p.G187A	ATTTGGGGAACTA	.	PASS	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	37	6	169622490	169622490	+	Silent	SNP	G	G	A	rs9505895	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	45	90	0	0.5625	0	G|0.783;A|0.217	0.217	strong	THBS2,NS,carcinoma,0,1	THBS2	230	1	NM_003247	exon20	c.C3075T	p.A1025A	GAAGCCGGCATAG	.	PASS	Atlas-SNP
FBXW12	285231	hgsc.bcm.edu	37	3	48422235	48422235	+	Missense_Mutation	SNP	T	T	A	rs6784322	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	90	131	0	0.588235	0	T|0.600;A|0.400	0.400	strong	.	FBXW12	44	.	NM_207102	exon8	c.T818A	p.V273D	GCAGTGTTCCTCT	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19969106	19969106	+	Missense_Mutation	SNP	A	A	G	rs2240717	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	23	23	0	1	0	T|0.008;G|0.350	0.350	strong	.	ARVCF	54	.	NM_001670	exon5	c.T524C	p.V175A	GTGGCCACTGGGC	.	PASS	Atlas-SNP
STARD13	90627	hgsc.bcm.edu	37	13	33704154	33704154	+	Silent	SNP	C	C	T	rs596742	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	14	49	0	0.424242	0	C|0.894;T|0.106	0.106	strong	.	STARD13	100	.	NM_178006	exon5	c.G660A	p.P220P	CATGACCGGGTTG	.	PASS	Atlas-SNP
GJA4	2701	hgsc.bcm.edu	37	1	35260769	35260769	+	Missense_Mutation	SNP	C	C	T	rs1764391	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	17	34	0	0.459459	0	C|0.634;T|0.366	0.366	strong	.	GJA4	25	.	NM_002060	exon2	c.C955T	p.P319S	CAAAAACCCCCAA	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085006	17085006	+	Missense_Mutation	SNP	C	C	T	rs201784242	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	240	26	240	0	0.108333	0	C|0.987;T|0.013	0.013	strong	.	.	.	.	NM_001271733	exon11	c.G1469A	p.G490E	TGGCCCCCAGCCA	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	37	22	32756407	32756407	+	Missense_Mutation	SNP	A	A	G	rs61747109	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	75	178	1	0.513699	0.00561798	A|0.959;G|0.041	0.041	strong	RFPL3_ENST00000249007,NS,carcinoma,0,2	RFPL3	91	2	NM_001098535	exon2	c.A542G	p.Y181C	GCCACTACTGGGA	.	scavenged	Atlas-SNP
MED9	55090	hgsc.bcm.edu	37	17	17394611	17394611	+	Silent	SNP	G	G	A	rs1242489	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	18	26	0	0.346154	0	G|0.779;A|0.221	0.221	strong	.	MED9	11	.	NM_018019	exon2	c.G243A	p.P81P	CAGCCCGGAGGTC	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373242	5373242	+	Missense_Mutation	SNP	T	T	G	rs5006885	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	68	155	0	0.417178	0	T|0.751;G|0.249	0.249	strong	.	OR51B6	53	.	NM_001004750	exon1	c.T505G	p.S169A	TGTCGATCCCATG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230440	23230440	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	29	97	0	0.337209	0	.	.	none	.	IGLL5	26	.	NM_001256296	exon1	c.100+1G>A	.	GGGCAGGTAAGGG	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	37	17	80863857	80863857	+	Missense_Mutation	SNP	T	T	C	rs2292971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	97	101	1	1	0.00990099	T|0.550;C|0.450	0.450	strong	.	TBCD	94	.	NM_005993	exon20	c.T1850C	p.M617T	TTCACATGAGGCA	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18064730	18064730	+	Silent	SNP	C	C	T	rs8077577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	49	34	0	1	0	C|0.806;T|0.194	0.194	strong	.	MYO15A	268	.	NM_016239	exon56	c.C9486T	p.D3162D	CCAAGACGTGAGC	.	PASS	Atlas-SNP
ANLN	54443	hgsc.bcm.edu	37	7	36445855	36445855	+	Silent	SNP	A	A	C	rs61737563	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	41	87	0	0.280822	0	A|0.929;C|0.071	0.071	strong	.	ANLN	101	.	NM_018685	exon4	c.A553C	p.R185R	CCTCCCAGACCTC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29769647	29769647	+	Silent	SNP	G	G	A	rs10763720	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	21	43	0	0.567568	0	G|0.917;A|0.083	0.083	strong	.	SVIL	226	.	NM_021738	exon29	c.C5196T	p.V1732V	ACGGCCGACGTTC	.	PASS	Atlas-SNP
PGM3	5238	hgsc.bcm.edu	37	6	83880167	83880167	+	Missense_Mutation	SNP	C	C	T	rs473267	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	87	158	0	0.537037	0	C|0.638;N|0.000	.	strong	.	PGM3	39	.	NM_001199917	exon13	c.G1480A	p.D494N	CAGCATCGGTAGT	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24416133	24416133	+	Silent	SNP	C	C	T	rs4276859	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	32	94	0	0.405063	0	C|0.855;T|0.145	0.145	strong	MYOM3,caecum,carcinoma,0,1	MYOM3	131	1	NM_152372	exon14	c.G1509A	p.P503P	GGTTGGCGGTGAG	.	PASS	Atlas-SNP
C8orf34	116328	hgsc.bcm.edu	37	8	69434195	69434195	+	Silent	SNP	T	T	C	rs2289831	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	24	75	0	0.387097	0	T|0.788;C|0.212	0.212	strong	.	C8orf34	170	.	NM_052958	exon6	c.T927C	p.S309S	CTCTAGTCCTGCA	.	PASS	Atlas-SNP
MEPE	56955	hgsc.bcm.edu	37	4	88767008	88767008	+	Missense_Mutation	SNP	G	G	A	rs17013285	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	33	41	0	0.970588	0	G|0.854;A|0.146	0.146	strong	.	MEPE	86	.	NM_020203	exon4	c.G988A	p.V330I	GATGCTGTTGATG	.	PASS	Atlas-SNP
LAMC3	10319	hgsc.bcm.edu	37	9	133963008	133963008	+	Missense_Mutation	SNP	G	G	A	rs4740412	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	24	55	0	0.40678	0	G|0.817;A|0.183	0.183	strong	LAMC3,NS,carcinoma,-1,1	LAMC3	167	1	NM_006059	exon26	c.G4376A	p.R1459Q	CTGAGCGGGTACG	.	PASS	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	37	11	121498410	121498410	+	Missense_Mutation	SNP	G	G	A	rs146742626		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	40	70	0	0.444444	0	G|1.000;A|0.000	0.000	weak	.	SORL1	218	.	NM_003105	exon47	c.G6511A	p.A2171T	TTCACCGCCTTCG	.	PASS	Atlas-SNP
APOBEC3B	9582	hgsc.bcm.edu	37	22	39381826	39381826	+	Missense_Mutation	SNP	A	A	G	rs2076109	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	140	73	0	1	0	A|0.388;G|0.612	0.612	strong	.	APOBEC3B	32	.	NM_004900	exon3	c.A184G	p.K62E	TATTTCAAGCCTC	.	PASS	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72350412	72350412	+	Missense_Mutation	SNP	G	G	A	rs2271535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	8	16	0	0.571429	0	G|0.631;A|0.369	0.369	strong	KIF19,NS,carcinoma,0,1	KIF19	102	1	NM_153209	exon18	c.G2420A	p.R807H	CAGAGCGCAGCAG	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	37	22	45750920	45750920	+	Silent	SNP	A	A	G	rs61748560	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	85	180	0	0.5	0	A|0.989;G|0.011	0.011	strong	.	SMC1B	215	.	NM_148674	exon20	c.T3037C	p.L1013L	TCAGTAAGATATC	.	PASS	Atlas-SNP
BCL2L13	23786	hgsc.bcm.edu	37	22	18165995	18165995	+	Missense_Mutation	SNP	T	T	G	rs2587070	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	87	206	0	0.453125	0	C|0.000;G|0.131;T|0.869	0.131	strong	.	BCL2L13	27	.	NM_001270726	exon2	c.T209G	p.I70R	TAGATATAGCTTC	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141336264	141336264	+	Missense_Mutation	SNP	G	G	T	rs164075	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	40	125	0	0.408163	0	G|0.313;T|0.686	0.686	strong	.	PCDH12	133	.	NM_016580	exon1	c.C1153A	p.H385N	CATTGTGTCCTGA	.	PASS	Atlas-SNP
DSE	29940	hgsc.bcm.edu	37	6	116720514	116720514	+	Missense_Mutation	SNP	C	C	T	rs35548455	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	40	56	0	0.571429	0	C|0.955;T|0.045	0.045	strong	.	DSE	98	.	NM_001080976	exon2	c.C101T	p.P34L	TGATTCCCTTCAC	.	PASS	Atlas-SNP
ITIH4	3700	hgsc.bcm.edu	37	3	52860936	52860936	+	Silent	SNP	C	C	T	rs2276817	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	58	81	0	0.597938	0	C|0.753;T|0.247	0.247	strong	.	ITIH4	74	.	NM_001166449	exon4	c.G390A	p.V130V	GACCGACACCTGG	.	PASS	Atlas-SNP
STON1	11037	hgsc.bcm.edu	37	2	48809629	48809629	+	Silent	SNP	G	G	T	rs17397707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	48	112	0	0.428571	0	G|0.941;T|0.059	0.059	strong	.	STON1	100	.	NM_001198595	exon3	c.G1857T	p.V619V	CACTGTGGGGTCA	.	PASS	Atlas-SNP
MIPEP	4285	hgsc.bcm.edu	37	13	24443512	24443512	+	Missense_Mutation	SNP	T	T	G	rs149856612	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	37	83	0	0.672727	0	T|1.000;G|0.000	0.000	strong	.	MIPEP	53	.	NM_005932	exon7	c.A862C	p.S288R	CTCTGCTGCTGAG	.	PASS	Atlas-SNP
C9orf57	138240	hgsc.bcm.edu	37	9	74671719	74671719	+	Silent	SNP	T	T	C	rs200607840	bycluster;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	8	24	0	0.380952	0	.	.	alt	.	C9orf57	16	.	NM_001128618	exon3	c.A204G	p.K68K	CTCTTCTTTCCAG	.	PASS	Atlas-SNP
PDGFRL	5157	hgsc.bcm.edu	37	8	17500223	17500223	+	Silent	SNP	T	T	C	rs4705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	25	65	0	0.362319	0	T|0.548;C|0.452	0.452	strong	.	PDGFRL	27	.	NM_006207	exon7	c.T1041C	p.F347F	AGACTTTGAGACG	.	PASS	Atlas-SNP
SLC39A4	55630	hgsc.bcm.edu	37	8	145639726	145639726	+	Missense_Mutation	SNP	T	T	C	rs2272662	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	259	113	257	0	0.436293	0	T|0.606;C|0.394	0.394	strong	SLC39A4,NS,carcinoma,0,1	SLC39A4	54	1	NM_130849	exon6	c.A1069G	p.T357A	AGTGGGTGACCCC	.	PASS	Atlas-SNP
GSX2	170825	hgsc.bcm.edu	37	4	54966919	54966919	+	Silent	SNP	T	T	C	rs1132998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	8	21	0	0.4	0	T|0.388;C|0.612	0.612	strong	GSX2,NS,carcinoma,0,2	GSX2	27	2	NM_133267	exon1	c.T408C	p.H136H	CCACCATCACCAT	.	PASS	Atlas-SNP
PCGF2	7703	hgsc.bcm.edu	37	17	36894839	36894839	+	Silent	SNP	G	G	A	rs1138349	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	10	27	0	0.4	0	G|0.545;A|0.455	0.455	strong	.	PCGF2	24	.	NM_007144	exon8	c.C435T	p.D145D	CTTCTCGTCCCGG	.	PASS	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55494740	55494740	+	Silent	SNP	T	T	C	rs10412915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	38	76	0	0.575758	0	T|0.710;C|0.290	0.290	strong	.	NLRP2	161	.	NM_017852	exon6	c.T1674C	p.F558F	CTCCTTTGGCCTC	.	PASS	Atlas-SNP
PPP2R3B	28227	hgsc.bcm.edu	37	X	299360	299360	+	Missense_Mutation	SNP	G	G	A	rs1133520	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	57	47	0	0.982759	0	G|0.755;A|0.245	0.245	strong	.	PPP2R3B	43	.	NM_013239	exon12	c.C1556T	p.A519V	TCTCCCGCAGTCT	.	PASS	Atlas-SNP
TSC22D4	81628	hgsc.bcm.edu	37	7	100064719	100064719	+	Silent	SNP	A	A	G	rs7806537	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	131	114	0	1	0	A|0.644;G|0.356	0.356	strong	TSC22D4,NS,carcinoma,0,1	TSC22D4	28	1	NM_030935	exon5	c.T1051C	p.L351L	CCGCCAATTCCCG	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155256177	155256177	+	Silent	SNP	A	A	G	rs6858157	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	89	110	0	1	0	A|0.668;G|0.332	0.332	strong	DCHS2_ENST00000339452,NS,carcinoma,0,3	DCHS2	594	3	NM_001142552	exon4	c.T2556C	p.G852G	GAGCCCACCACCG	.	PASS	Atlas-SNP
WDR86	349136	hgsc.bcm.edu	37	7	151097323	151097323	+	Silent	SNP	A	A	G	rs11767693	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	46	49	0	1	0	A|0.267;G|0.733	0.733	strong	.	WDR86	35	.	NM_198285	exon2	c.T168C	p.H56H	GCTTTCATGTCCT	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183212026	183212026	+	Silent	SNP	C	C	T	rs2256061	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	110	114	0	1	0	C|0.818;T|0.182	0.182	strong	KLHL6,colon,carcinoma,-1,2	KLHL6	100	2	NM_130446	exon5	c.G1191A	p.S397S	GTTGATCGAAGAA	.	PASS	Atlas-SNP
GATA3	2625	hgsc.bcm.edu	37	10	8100647	8100647	+	Silent	SNP	C	C	T	rs2229359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	23	38	0	0.522727	0	C|0.956;T|0.044	0.044	strong	.	GATA3	182	.	NM_002051	exon3	c.C621T	p.A207A	GACCGCCCTGGGT	.	PASS	Atlas-SNP
MRGPRX1	259249	hgsc.bcm.edu	37	11	18955744	18955744	+	Silent	SNP	C	C	T	rs11599929	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	31	53	0	0.364706	0	C|0.741;T|0.259	0.259	strong	MRGPRX1,NS,carcinoma,0,1	MRGPRX1	84	1	NM_147199	exon1	c.G588A	p.L196L	CAGGACCAGGCTG	.	PASS	Atlas-SNP
G6PC2	57818	hgsc.bcm.edu	37	2	169764546	169764546	+	Missense_Mutation	SNP	C	C	G	rs2232328	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	34	53	0	0.607143	0	C|0.776;G|0.224	0.224	strong	G6PC2,NS,carcinoma,0,1	G6PC2	44	1	NM_021176	exon5	c.C1025G	p.S342C	CCTACTCTGTTCA	.	PASS	Atlas-SNP
LSMD1	84316	hgsc.bcm.edu	37	17	7760397	7760397	+	Silent	SNP	G	G	A	rs4724	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	41	89	0	0.455556	0	G|0.831;A|0.169	0.169	strong	LSMD1,NS,carcinoma,0,2	LSMD1	8	2	NM_032356	exon1	c.C345T	p.F115F	GCAGAGGAAGCAG	.	PASS	Atlas-SNP
YPEL5	51646	hgsc.bcm.edu	37	2	30381505	30381505	+	Silent	SNP	T	T	C	rs1137288	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	96	114	0	0.989691	0	T|0.549;C|0.451	0.451	strong	.	YPEL5	16	.	NM_001127400	exon4	c.T162C	p.S54S	GTACAGTGAAGTT	.	PASS	Atlas-SNP
ZNF229	7772	hgsc.bcm.edu	37	19	44932704	44932704	+	Missense_Mutation	SNP	T	T	C	rs375182987	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	88	135	0	0.508671	0	.	.	weak	.	ZNF229	123	.	NM_014518	exon6	c.A2252G	p.Q751R	GAGCTCTGACTAT	.	PASS	Atlas-SNP
GRHL1	29841	hgsc.bcm.edu	37	2	10101468	10101468	+	Missense_Mutation	SNP	A	A	G	rs16867256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	74	0	0.511628	0	A|0.801;G|0.199	0.199	strong	.	GRHL1	95	.	NM_198182	exon4	c.A572G	p.N191S	ATCTCAATACTGA	.	PASS	Atlas-SNP
CEP55	55165	hgsc.bcm.edu	37	10	95278683	95278683	+	Missense_Mutation	SNP	G	G	A	rs75139274	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	225	101	195	0	0.448889	0	G|0.931;A|0.069	0.069	strong	.	CEP55	35	.	NM_018131	exon7	c.G1043A	p.R348K	AAACAAGGGTAGC	.	PASS	Atlas-SNP
DIDO1	11083	hgsc.bcm.edu	37	20	61528271	61528271	+	Missense_Mutation	SNP	C	C	T	rs1883847	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	123	123	1	0.991935	0.00813008	C|0.752;T|0.248	0.248	strong	DIDO1,NS,carcinoma,0,1	DIDO1	321	1	NM_080797	exon7	c.G1666A	p.A556T	CCACCGCGGAGCC	.	PASS	Atlas-SNP
MCF2L	23263	hgsc.bcm.edu	37	13	113733009	113733009	+	Silent	SNP	C	C	T	rs35155188	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	28	72	0	0.411765	0	C|0.916;T|0.084	0.084	strong	.	MCF2L	182	.	NM_001112732	exon15	c.C1764T	p.R588R	GGGCCGCGGCTCA	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126520068	126520068	+	Silent	SNP	T	T	C	rs9785285	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	36	80	0	0.395604	0	T|0.658;C|0.342	0.342	strong	.	DENND1A	112	.	NM_024820	exon5	c.A216G	p.T72T	CACGAATGTGAAG	.	PASS	Atlas-SNP
PKDCC	91461	hgsc.bcm.edu	37	2	42275819	42275819	+	Silent	SNP	T	T	C	rs11897440	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	15	46	0	0.416667	0	T|0.448;C|0.552	0.552	strong	.	PKDCC	21	.	NM_138370	exon1	c.T480C	p.G160G	CGGCGGTGCCGCG	.	PASS	Atlas-SNP
SIK1	150094	hgsc.bcm.edu	37	21	44846016	44846016	+	Missense_Mutation	SNP	C	C	T	rs3746951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	41	61	0	0.577465	0	C|0.827;T|0.173	0.173	strong	.	SIK1	65	.	NM_173354	exon2	c.G43A	p.G15S	CCTGACCCTGGCC	.	PASS	Atlas-SNP
PARD3	56288	hgsc.bcm.edu	37	10	34408636	34408636	+	Silent	SNP	T	T	C	rs11009651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	11	33	0	0.423077	0	T|0.750;C|0.250	0.250	strong	PARD3,NS,carcinoma,0,1	PARD3	131	1	NM_019619	exon24	c.A3582G	p.R1194R	CGAGTGTCGCCCG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515194	195515194	+	Missense_Mutation	SNP	G	G	C	rs201370057	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	10	48	4	0.10989	0.0833333	G|0.939;C|0.061	0.061	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C3257G	p.T1086S	GGGGTGGTGTCAC	.	scavenged	Atlas-SNP
CATSPER1	117144	hgsc.bcm.edu	37	11	65790527	65790527	+	Silent	SNP	G	G	T	rs2845570	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	21	51	0	0.466667	0	G|0.549;T|0.451	0.451	strong	.	CATSPER1	101	.	NM_053054	exon2	c.C1222A	p.R408R	GGAGCCGGCCGGC	.	PASS	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	37	2	215876371	215876371	+	Silent	SNP	T	T	C	rs10198064	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	94	205	0	0.449761	0	T|0.734;C|0.266	0.266	strong	ABCA12,NS,carcinoma,-1,1	ABCA12	368	1	NM_173076	exon17	c.A2124G	p.A708A	GTACATTGCCTGT	.	PASS	Atlas-SNP
ADCY10	55811	hgsc.bcm.edu	37	1	167825485	167825485	+	Missense_Mutation	SNP	T	T	C	rs2071921	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	320	157	253	0	0.490625	0	C|0.470;N|0.000	0.470	strong	.	ADCY10	175	.	NM_018417	exon17	c.A2089G	p.I697V	CACCAATGACAAT	.	PASS	Atlas-SNP
CRISP3	10321	hgsc.bcm.edu	37	6	49696473	49696473	+	Silent	SNP	G	G	T	rs488132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	56	61	0	1	0	G|0.848;T|0.152	0.152	strong	.	CRISP3	67	.	NM_001190986	exon8	c.C777A	p.A259A	GCAGGAGGCCTTG	.	PASS	Atlas-SNP
CIC	23152	hgsc.bcm.edu	37	19	42799049	42799049	+	Silent	SNP	C	C	T	rs1052023	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	14	21	0	0.538462	0	C|0.756;T|0.244	0.244	strong	.	CIC	249	.	NM_015125	exon20	c.C4533T	p.I1511I	GAAGATCCGTGAG	.	PASS	Atlas-SNP
NFKB1	4790	hgsc.bcm.edu	37	4	103518700	103518700	+	Missense_Mutation	SNP	A	A	G	rs4648072	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	48	72	0	1	0	A|0.984;G|0.016	0.016	strong	.	NFKB1	78	.	NM_003998	exon15	c.A1519G	p.M507V	AAGGCTATGCAGC	.	PASS	Atlas-SNP
TOPBP1	11073	hgsc.bcm.edu	37	3	133371471	133371471	+	Missense_Mutation	SNP	G	G	A	rs55633281	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	51	72	1	0.586207	0.0138889	G|0.947;A|0.053	0.053	strong	TOPBP1_ENST00000260810,colon,carcinoma,0,4	TOPBP1	218	4	NM_007027	exon8	c.C925T	p.R309C	GAGTACGACCTAC	.	scavenged	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	37	5	180046344	180046344	+	Missense_Mutation	SNP	G	G	C	rs448012	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	47	1	1	0.0212766	G|0.426;C|0.574	0.574	strong	FLT4_ENST00000261937,NS,carcinoma,0,2	FLT4	356	2	NM_182925	exon19	c.C2670G	p.H890Q	CGCGCGGTGCTCG	.	scavenged	Atlas-SNP
GTPBP10	85865	hgsc.bcm.edu	37	7	89982132	89982132	+	Silent	SNP	T	T	C	rs6972561	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	14	41	0	0.538462	0	T|0.731;C|0.269	0.269	strong	.	GTPBP10	31	.	NM_001042717	exon2	c.T36C	p.Y12Y	TAAGTATGGAAAT	.	PASS	Atlas-SNP
ADAMTS17	170691	hgsc.bcm.edu	37	15	100821576	100821576	+	Missense_Mutation	SNP	G	G	A	rs7496668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	22	41	0	0.611111	0	G|0.589;A|0.411	0.411	strong	ADAMTS17,NS,carcinoma,0,1	ADAMTS17	127	1	NM_139057	exon4	c.C647T	p.S216L	TCCCGCGAAGGCC	.	PASS	Atlas-SNP
CCDC169-SOHLH2	100526761	hgsc.bcm.edu	37	13	36744800	36744800	+	Silent	SNP	G	G	A	rs2296967	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	79	146	1	0.537415	0.00684932	G|0.916;A|0.084	0.084	strong	SOHLH2,NS,carcinoma,0,1	.	.	1	NM_001198910	exon15	c.C1356T	p.Y452Y	TGCATCGTAGGAA	.	scavenged	Atlas-SNP
ITGAE	3682	hgsc.bcm.edu	37	17	3664361	3664361	+	Missense_Mutation	SNP	T	T	C	rs140947594	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	13	26	0	0.5	0	T|0.996;C|0.004	0.004	strong	.	ITGAE	96	.	NM_002208	exon6	c.A544G	p.K182E	CCTCCTTCTCCAG	.	PASS	Atlas-SNP
PRKCB	5579	hgsc.bcm.edu	37	16	24046861	24046861	+	Silent	SNP	T	T	C	rs116345778	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	47	94	0	0.38843	0	T|0.993;C|0.007	0.007	strong	.	PRKCB	383	.	NM_212535	exon5	c.T522C	p.I174I	CCTCATTGTCCTC	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170147502	170147502	+	Missense_Mutation	SNP	C	C	G	rs34693334	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	67	148	0	0.471831	0	C|0.944;G|0.056	0.056	strong	.	LRP2	751	.	NM_004525	exon8	c.G775C	p.G259R	GAGGACCGCTTTC	.	PASS	Atlas-SNP
MLL5	55904	hgsc.bcm.edu	37	7	104747899	104747899	+	Missense_Mutation	SNP	G	G	T	rs117986340	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	23	35	0	0.534884	0	G|0.969;T|0.031	0.031	strong	.	MLL5	173	.	NM_018682	exon21	c.G2995T	p.G999C	ACTATTGGTTATA	.	PASS	Atlas-SNP
TMEM135	65084	hgsc.bcm.edu	37	11	87032287	87032287	+	Missense_Mutation	SNP	G	G	C	rs11235097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	26	38	0	0.481481	0	G|0.958;C|0.042	0.042	strong	.	TMEM135	40	.	NM_022918	exon15	c.G1289C	p.G430A	GTACTGGTGCATC	.	PASS	Atlas-SNP
R3HDML	140902	hgsc.bcm.edu	37	20	42966025	42966025	+	Silent	SNP	T	T	C	rs1884612	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	77	97	0	1	0	T|0.730;C|0.270	0.270	strong	.	R3HDML	33	.	NM_178491	exon1	c.T228C	p.S76S	GGCCAGTGTGTAC	.	PASS	Atlas-SNP
TRIM38	10475	hgsc.bcm.edu	37	6	25967068	25967068	+	Silent	SNP	C	C	T	rs2009610	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	54	89	0	0.509434	0	C|0.856;T|0.144	0.144	strong	.	TRIM38	50	.	NM_006355	exon3	c.C318T	p.D106D	CGAAGACGAGGGG	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22846601	22846601	+	Splice_Site	SNP	G	G	T	rs71355985	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	12	48	0	0.461538	0	G|0.955;T|0.045	0.045	strong	.	ZNF492	129	.	NM_020855	exon4	c.131-1G>T	.	CTTTCAGTTGTAT	.	PASS	Atlas-SNP
TOPORS	10210	hgsc.bcm.edu	37	9	32543801	32543801	+	Missense_Mutation	SNP	G	G	A	rs41272913	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	27	63	0	0.473684	0	G|0.999;A|0.001	0.001	strong	.	TOPORS	127	.	NM_005802	exon3	c.C722T	p.T241M	TCTGCCGTAGTTG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281039	152281039	+	Missense_Mutation	SNP	G	G	A	rs7522925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	430	167	237	0	0.388372	0	G|0.716;A|0.284	0.284	strong	.	FLG	900	.	NM_002016	exon3	c.C6323T	p.A2108V	CTGGGCGCAGACT	.	PASS	Atlas-SNP
C1orf100	200159	hgsc.bcm.edu	37	1	244552296	244552296	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	227	3	191	0	0.0132159	0	.	.	none	C1orf100,brain,glioma,+1,1	C1orf100	30	1	NM_001276349	exon4	c.G196A	p.A66T	TCGACCGCTTAAT	.	scavenged	Atlas-SNP
THUMPD3	25917	hgsc.bcm.edu	37	3	9426224	9426224	+	Missense_Mutation	SNP	G	G	A	rs1129174	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	55	113	0	0.361842	0	G|0.880;A|0.120	0.120	strong	THUMPD3,caecum,carcinoma,0,1	THUMPD3	46	1	NM_001114092	exon10	c.G1376A	p.R459Q	GAATGCGACACGT	.	PASS	Atlas-SNP
CTNNA3	29119	hgsc.bcm.edu	37	10	69281701	69281701	+	Missense_Mutation	SNP	A	A	T	rs61749223	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	70	131	0	0.542636	0	A|0.981;T|0.019	0.019	strong	.	CTNNA3	401	.	NM_013266	exon5	c.T478A	p.S160T	TGAGAGACTCAAA	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186276411	186276411	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	3	58	1	0.038961	0.0172414	.	.	none	PRG4,NS,malignant_melanoma,0,1	PRG4	259	1	NM_005807	exon7	c.G1560A	p.K520K	TCCCAAGGAGCCT	.	scavenged	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43805739	43805739	+	Silent	SNP	C	C	T	rs61754256	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	38	87	0	0.550725	0	C|0.866;T|0.134	0.134	strong	.	THADA	131	.	NM_001083953	exon9	c.G729A	p.L243L	CTGTAACAGATCA	.	PASS	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45124465	45124465	+	Missense_Mutation	SNP	A	A	T	rs3735495	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	34	80	0	0.255639	0	A|0.707;T|0.293	0.293	strong	.	NACAD	44	.	NM_001146334	exon2	c.T1314A	p.D438E	AGTCCCATCCTGA	.	PASS	Atlas-SNP
MIS18BP1	55320	hgsc.bcm.edu	37	14	45700409	45700409	+	Missense_Mutation	SNP	C	C	T	rs61741592	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	218	108	241	0	0.495413	0	C|0.929;T|0.071	0.071	strong	MIS18BP1,NS,carcinoma,0,1	MIS18BP1	92	1	NM_018353	exon8	c.G1529A	p.R510Q	TTTTCTCGTGCAT	.	PASS	Atlas-SNP
KIAA0895L	653319	hgsc.bcm.edu	37	16	67210741	67210741	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	2	139	0	0.0169492	0	.	.	none	KIAA0895L,NS,carcinoma,0,1	KIAA0895L	32	1	NM_001040715	exon7	c.G1389A	p.A463A	CAGCTCCGCCTCA	.	scavenged	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23631801	23631801	+	Silent	SNP	T	T	C	rs2227939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	53	117	0	0.473214	0	T|0.659;C|0.341	0.341	strong	.	BCR	74	.	NM_021574	exon13	c.T2700C	p.N900N	CATCAATAAGGAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9014551	9014551	+	Silent	SNP	T	T	C	rs12459127	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	91	190	0	1	0	T|0.673;C|0.327	0.327	strong	.	MUC16	4315	.	NM_024690	exon31	c.A38424G	p.R12808R	ACTGTTTCTGTCC	.	PASS	Atlas-SNP
OR5P2	120065	hgsc.bcm.edu	37	11	7818471	7818471	+	Missense_Mutation	SNP	C	C	T	rs1482804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	17	40	0	0.548387	0	C|0.918;T|0.082	0.082	strong	.	OR5P2	68	.	NM_153444	exon1	c.G19A	p.G7R	GATTCCCGTCCTT	.	PASS	Atlas-SNP
NBEA	26960	hgsc.bcm.edu	37	13	35756572	35756572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	2	157	0	0.0137931	0	.	.	none	NBEA,NS,carcinoma,-1,1	NBEA	340	1	NM_015678	exon29	c.C4738T	p.R1580C	AAGTATCGTGACA	.	scavenged	Atlas-SNP
PARD3B	117583	hgsc.bcm.edu	37	2	205990353	205990353	+	Silent	SNP	C	C	T	rs2276676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	43	99	0	0.443299	0	T|0.294;C|0.706	0.294	strong	.	PARD3B	314	.	NM_205863	exon10	c.C1326T	p.T442T	TGTCACCGGACGA	.	PASS	Atlas-SNP
SLC36A3	285641	hgsc.bcm.edu	37	5	150666843	150666843	+	Silent	SNP	A	A	G	rs6579846	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	77	132	0	0.534722	0	A|0.800;C|0.190;G|0.010	0.010	strong	SLC36A3,NS,carcinoma,0,1	SLC36A3	54	1	NM_001145017	exon7	c.T795C	p.L265L	GCTCCCAAGGGTG	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124856618	124856618	+	Silent	SNP	A	A	G	rs7961196	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	31	47	1	0.553571	0.0212766	A|0.698;G|0.302	0.302	strong	NCOR2_ENST00000405201,NS,carcinoma,0,2	NCOR2	475	2	NM_006312	exon22	c.T2757C	p.A919A	GCAGGTAGCACTG	.	scavenged	Atlas-SNP
OR8S1	341568	hgsc.bcm.edu	37	12	48919796	48919796	+	Missense_Mutation	SNP	C	C	T	rs12425460	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	51	136	0	0.428571	0	C|0.456;T|0.544	0.544	strong	.	OR8S1	47	.	NM_001005203	exon1	c.C382T	p.R128C	ATCTGCCGCCCAC	.	PASS	Atlas-SNP
OSBPL1A	114876	hgsc.bcm.edu	37	18	21891975	21891975	+	Silent	SNP	A	A	G	rs2337961	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	78	95	0	0.65	0	A|0.731;G|0.269	0.269	strong	OSBPL1A,colon,carcinoma,0,1	OSBPL1A	94	1	NM_080597	exon13	c.T1065C	p.S355S	TGCAGCAGAAACC	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305800	39305800	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	4	27	0	0.1	0	.	.	none	KRTAP4-5,NS,carcinoma,0,4	KRTAP4-5	34	4	NM_033188	exon1	c.A220T	p.S74C	AGCAGCTGGATTC	.	scavenged	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151945225	151945225	+	Missense_Mutation	SNP	T	T	C	rs77957001	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	269	17	229	1	0.063197	0.00436681	T|0.700;C|0.300	0.300	strong	MLL3_ENST00000355193,extremity,malignant_melanoma,0,2	MLL3	1564	2	NM_170606	exon14	c.A2294G	p.E765G	TCTGTCTCAGATG	.	scavenged	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102265847	102265847	+	Missense_Mutation	SNP	A	A	C	rs2295774	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	41	87	0	0.450549	0	A|0.836;C|0.164	0.164	strong	SEC31B,colon,carcinoma,0,1	SEC31B	84	1	NM_015490	exon9	c.T994G	p.S332A	TCACAGAGTACAA	.	PASS	Atlas-SNP
ERICH1	157697	hgsc.bcm.edu	37	8	623593	623593	+	Silent	SNP	G	G	A	rs55783038	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	73	71	0	0.986486	0	G|0.717;A|0.283	0.283	strong	.	ERICH1	50	.	NM_207332	exon4	c.C759T	p.A253A	CTCACTGGCGTCC	.	PASS	Atlas-SNP
TCFL5	10732	hgsc.bcm.edu	37	20	61488785	61488785	+	Silent	SNP	T	T	C	rs2294996	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	39	109	0	0.458824	0	A|0.005;C|0.255	0.255	strong	.	TCFL5	43	.	NM_006602	exon4	c.A1200G	p.Q400Q	CCTACGTTGAGAC	.	PASS	Atlas-SNP
PRDM15	63977	hgsc.bcm.edu	37	21	43236176	43236176	+	Silent	SNP	G	G	A	rs4075967	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	67	106	0	0.503759	0	G|0.802;A|0.198	0.198	strong	.	PRDM15	110	.	NM_022115	exon26	c.C3375T	p.H1125H	CAGCGCGTGCTTG	.	PASS	Atlas-SNP
OR52N1	79473	hgsc.bcm.edu	37	11	5809477	5809477	+	Silent	SNP	A	A	G	rs10838637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	121	117	0	0.991803	0	A|0.672;G|0.328	0.328	strong	OR52N1,colon,carcinoma,-1,1	OR52N1	70	1	NM_001001913	exon1	c.T570C	p.S190S	ACCACAAGATATC	.	PASS	Atlas-SNP
HIVEP2	3097	hgsc.bcm.edu	37	6	143092754	143092754	+	Missense_Mutation	SNP	G	G	A	rs34875559	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	20	62	0	0.357143	0	G|0.982;A|0.018	0.018	strong	.	HIVEP2	225	.	NM_006734	exon5	c.C3122T	p.A1041V	ACTTCCGCTGGGT	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	37	9	32480251	32480251	+	Missense_Mutation	SNP	A	A	T	rs17217280	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	59	105	0	0.487603	0	A|0.906;T|0.094	0.094	strong	.	DDX58	82	.	NM_014314	exon12	c.T1740A	p.D580E	AATCTCATCGAAT	.	PASS	Atlas-SNP
ZBTB32	27033	hgsc.bcm.edu	37	19	36207510	36207510	+	Silent	SNP	G	G	A	rs1052491	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	32	35	0	0.64	0	G|0.910;A|0.090	0.090	strong	.	ZBTB32	33	.	NM_014383	exon6	c.G1320A	p.L440L	CAGCCTGGCCTCC	.	PASS	Atlas-SNP
SERPINI2	5276	hgsc.bcm.edu	37	3	167170788	167170788	+	Silent	SNP	G	G	A	rs61750373	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	75	184	0	0.367647	0	G|0.996;A|0.004	0.004	strong	.	SERPINI2	85	.	NM_001012303	exon7	c.C930T	p.D310D	CAAAACGTCTTTG	.	PASS	Atlas-SNP
P2RX2	22953	hgsc.bcm.edu	37	12	133196596	133196596	+	Silent	SNP	T	T	C	rs7964634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	28	45	0	0.538462	0	T|0.323;C|0.677	0.677	strong	P2RX2,NS,carcinoma,0,1	P2RX2	49	1	NM_170683	exon5	c.T468C	p.T156T	GAGGACTGGGCGC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609105	32609105	+	Missense_Mutation	SNP	G	G	A	rs1129740	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	62	163	0	1	0	G|0.446;A|0.554	0.554	strong	.	HLA-DQA1	52	.	NM_002122	exon2	c.G101A	p.C34Y	CCTCTTGTGGTGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9056982	9056982	+	Missense_Mutation	SNP	G	G	A	rs11670318	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	37	118	0	0.440476	0	G|0.740;A|0.260	0.260	strong	.	MUC16	4315	.	NM_024690	exon3	c.C30464T	p.T10155I	AATCCTGTGGTCT	.	PASS	Atlas-SNP
CST5	1473	hgsc.bcm.edu	37	20	23860178	23860178	+	Missense_Mutation	SNP	A	A	G	rs1799841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	42	85	0	0.512195	0	A|0.455;G|0.545	0.545	strong	CST5,NS,carcinoma,0,1	CST5	24	1	NM_001900	exon1	c.T136C	p.C46R	GGGCACACTGCAC	.	PASS	Atlas-SNP
C6orf118	168090	hgsc.bcm.edu	37	6	165713961	165713961	+	Missense_Mutation	SNP	A	A	C	rs510579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	13	51	0	0.393939	0	A|0.515;C|0.485	0.485	strong	.	C6orf118	116	.	NM_144980	exon3	c.T768G	p.I256M	CGTGCAAATTTTC	.	PASS	Atlas-SNP
EVI5L	115704	hgsc.bcm.edu	37	19	7916620	7916620	+	Silent	SNP	A	A	G	rs580790	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	89	72	0	1	0	A|0.216;G|0.784	0.784	strong	.	EVI5L	43	.	NM_001159944	exon7	c.A951G	p.A317A	CCAGGCAGAGCTG	.	PASS	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	37	5	140256729	140256729	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	8	11	0	0.380952	0	.	.	none	.	PCDHA12	196	.	NM_018903	exon1	c.G1672A	p.E558K	CTGGACGAGAACG	.	PASS	Atlas-SNP
S100A5	6276	hgsc.bcm.edu	37	1	153509890	153509890	+	Missense_Mutation	SNP	T	T	C	rs3795393	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	95	104	2	0.608974	0.0192308	T|0.916;C|0.084	0.084	strong	S100A5,NS,carcinoma,-1,2	S100A5	10	2	NM_002962	exon4	c.A161G	p.D54G	ATCAAGTCATCGA	.	scavenged	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1616201	1616201	+	Missense_Mutation	SNP	C	C	T	rs11648609	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	43	57	0	0.457447	0	C|0.946;T|0.054	0.054	strong	.	IFT140	128	.	NM_014714	exon16	c.G1862A	p.R621Q	TCTCTCCGATCAA	.	PASS	Atlas-SNP
FSTL5	56884	hgsc.bcm.edu	37	4	162307312	162307312	+	Missense_Mutation	SNP	C	C	A	rs3749598	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	53	111	0	0.469027	0	C|0.914;A|0.086	0.086	strong	.	FSTL5	207	.	NM_020116	exon16	c.G2131T	p.D711Y	TCACATCATTAAT	.	PASS	Atlas-SNP
PRDM10	56980	hgsc.bcm.edu	37	11	129794950	129794950	+	Missense_Mutation	SNP	T	T	C	rs2241571	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	130	124	0	0.992366	0	T|0.578;C|0.421	0.421	strong	.	PRDM10	120	.	NM_020228	exon13	c.A1717G	p.T573A	AGGATGTGCTGCT	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62597694	62597694	+	Silent	SNP	T	T	G	rs817329	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	295	142	283	1	0.481356	0.00353357	T|0.446;G|0.554	0.554	strong	ZNF512B,NS,carcinoma,0,1	ZNF512B	72	1	NM_020713	exon5	c.A834C	p.V278V	CTTTGTTACCGTA	.	PASS	Atlas-SNP
POR	5447	hgsc.bcm.edu	37	7	75609677	75609677	+	Silent	SNP	A	A	G	rs1135612	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	41	62	0	0.585714	0	A|0.715;G|0.284;T|0.000	0.284	strong	POR,NS,carcinoma,0,1	POR	46	1	NM_000941	exon5	c.A387G	p.P129P	CCTGCCAGAGATC	.	PASS	Atlas-SNP
OSGEP	55644	hgsc.bcm.edu	37	14	20920250	20920250	+	Silent	SNP	T	T	C	rs2275007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	60	101	0	0.571429	0	T|0.408;C|0.592	0.592	strong	.	OSGEP	31	.	NM_017807	exon3	c.A294G	p.Q98Q	CCACAGTTGGGCC	.	PASS	Atlas-SNP
ZUFSP	221302	hgsc.bcm.edu	37	6	116973182	116973182	+	Missense_Mutation	SNP	T	T	C	rs4946188	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	31	58	0	0.645833	0	T|0.640;C|0.360	0.360	strong	ZUFSP,NS,carcinoma,0,1	ZUFSP	46	1	NM_145062	exon6	c.A1135G	p.N379D	AATCGTTGTAAGC	.	PASS	Atlas-SNP
DCTN1	1639	hgsc.bcm.edu	37	2	74596527	74596527	+	Missense_Mutation	SNP	C	C	T	rs17721059	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	88	131	0	0.488889	0	C|0.985;T|0.015	0.015	strong	.	DCTN1	110	.	NM_004082	exon14	c.G1484A	p.R495Q	CGAACCCGCGCGC	.	PASS	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21318826	21318826	+	Missense_Mutation	SNP	G	G	A	rs142399667	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	26	160	0	0.135417	0	G|0.993;A|0.007	0.007	strong	KCNJ12,NS,carcinoma,0,1	.	.	1	NM_001194958	exon3	c.G172A	p.A58T	GAGTTCGCCAACA	.	PASS	Atlas-SNP
PCDHGC3	5098	hgsc.bcm.edu	37	5	140856349	140856349	+	Silent	SNP	A	A	G	rs115808055	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	16	40	0	0.695652	0	A|0.990;G|0.010	0.010	strong	.	PCDHGC3	173	.	NM_032402	exon1	c.A666G	p.P222P	GACCCCAGCTCTC	.	PASS	Atlas-SNP
GRXCR2	643226	hgsc.bcm.edu	37	5	145246085	145246085	+	Missense_Mutation	SNP	T	T	G	rs2569006	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	86	103	1	1	0.00970874	T|0.304;G|0.696	0.696	strong	.	GRXCR2	32	.	NM_001080516	exon2	c.A543C	p.L181F	TTGGGGTAATGTG	.	PASS	Atlas-SNP
ARHGAP44	9912	hgsc.bcm.edu	37	17	12852459	12852459	+	Silent	SNP	A	A	G	rs2072254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	9	16	0	0.529412	0	A|0.902;G|0.098	0.098	strong	.	ARHGAP44	55	.	NM_014859	exon11	c.A864G	p.G288G	GTAGGGACTCTTC	.	PASS	Atlas-SNP
NELFB	25920	hgsc.bcm.edu	37	9	140167022	140167022	+	Silent	SNP	G	G	A	rs3204123	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	77	124	0	0.55	0	A|0.666;C|0.000;G|0.333;T|0.000	0.666	strong	COBRA1,NS,carcinoma,0,2	.	.	2	NM_015456	exon12	c.G1551A	p.P517P	GGCCCCGTCTAAG	.	PASS	Atlas-SNP
L3MBTL4	91133	hgsc.bcm.edu	37	18	5956238	5956238	+	Missense_Mutation	SNP	C	C	T	rs3737353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	87	120	0	0.617021	0	C|0.627;T|0.373	0.373	strong	L3MBTL4,colon,carcinoma,0,1	L3MBTL4	87	1	NM_173464	exon20	c.G1853A	p.G618D	TCTTGGCCTGAGG	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96638651	96638651	+	Missense_Mutation	SNP	C	C	T	rs12863903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	50	50	0	0.961538	0	C|0.894;T|0.106	0.106	strong	.	UGGT2	127	.	NM_020121	exon9	c.G967A	p.A323T	CTGGAGCGGACAT	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	37	4	154387597	154387597	+	Silent	SNP	G	G	C	rs71620317	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	10	8	0	1	0	G|0.548;C|0.452	0.452	strong	.	KIAA0922	214	.	NM_001131007	exon1	c.G48C	p.A16A	CACCGCGGCGGCC	.	PASS	Atlas-SNP
RRP1	8568	hgsc.bcm.edu	37	21	45209559	45209559	+	Silent	SNP	C	C	T	rs78489660	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	53	90	0	0.420635	0	C|0.949;T|0.051	0.051	strong	.	RRP1	23	.	NM_003683	exon1	c.C49T	p.L17L	CAGCGCCTGGCGG	.	PASS	Atlas-SNP
NMS	129521	hgsc.bcm.edu	37	2	101096960	101096960	+	Silent	SNP	C	C	T	rs1519654	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	78	141	1	0.45614	0.0070922	C|0.321;T|0.679	0.679	strong	NMS,colon,carcinoma,0,3	NMS	26	3	NM_001011717	exon7	c.C339T	p.G113G	GCAGGGCTCGGGG	.	scavenged	Atlas-SNP
PEX12	5193	hgsc.bcm.edu	37	17	33902881	33902881	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	3	184	2	0.02	0.0108696	.	.	none	PEX12,NS,carcinoma,+1,1	PEX12	36	1	NM_000286	exon3	c.A1000G	p.R334G	GACTCCTCACATA	.	scavenged	Atlas-SNP
ZNF418	147686	hgsc.bcm.edu	37	19	58437767	58437767	+	Missense_Mutation	SNP	C	C	A	rs199612939	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	8	87	0	0.150943	0	C|0.989;A|0.011	0.011	strong	.	ZNF418	76	.	NM_133460	exon4	c.G1782T	p.R594S	ACATTCCCTGCAT	.	PASS	Atlas-SNP
UBOX5	22888	hgsc.bcm.edu	37	20	3090884	3090884	+	Missense_Mutation	SNP	C	C	A	rs34606078	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	37	71	0	0.4625	0	C|0.990;A|0.010	0.010	strong	.	UBOX5	47	.	NM_001267584	exon5	c.G1489T	p.G497C	GTACACCGGCTCC	.	PASS	Atlas-SNP
TCTN3	26123	hgsc.bcm.edu	37	10	97447373	97447373	+	Silent	SNP	A	A	T	rs10786229	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	28	62	0	0.474576	0	A|0.624;T|0.376	0.376	strong	.	TCTN3	66	.	NM_015631	exon4	c.T603A	p.T201T	TGATTGAGTTTGG	.	PASS	Atlas-SNP
NRP2	8828	hgsc.bcm.edu	37	2	206590686	206590686	+	Silent	SNP	T	T	C	rs2228639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	79	156	0	0.487654	0	T|0.932;C|0.068	0.068	strong	.	NRP2	179	.	NM_201279	exon6	c.T870C	p.N290N	TGCTAATGAACAG	.	PASS	Atlas-SNP
CTTN	2017	hgsc.bcm.edu	37	11	70253475	70253475	+	Silent	SNP	C	C	T	rs2298397	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	26	73	0	0.361111	0	C|0.847;T|0.153	0.153	strong	.	CTTN	162	.	NM_001184740	exon3	c.C72T	p.T24T	GGAGACCGACCCT	.	PASS	Atlas-SNP
OR13H1	347468	hgsc.bcm.edu	37	X	130678467	130678467	+	Silent	SNP	A	A	G	rs499030	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	91	114	0	1	0	A|0.297;G|0.703	0.703	strong	.	OR13H1	41	.	NM_001004486	exon1	c.A420G	p.V140V	CCCAGTATGTGTC	.	PASS	Atlas-SNP
DCC	1630	hgsc.bcm.edu	37	18	50432602	50432602	+	Missense_Mutation	SNP	C	C	G	rs2229080	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	46	87	0	0.484211	0	C|0.604;G|0.396	0.396	strong	.	DCC	360	.	NM_005215	exon3	c.C601G	p.R201G	ATCAGCCGACTCC	.	PASS	Atlas-SNP
LRIT2	340745	hgsc.bcm.edu	37	10	85984723	85984723	+	Silent	SNP	G	G	A	rs11200928	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	30	56	0	0.491803	0	G|0.807;A|0.193	0.193	strong	.	LRIT2	81	.	NM_001017924	exon2	c.C258T	p.L86L	AAAATTGAGCCAG	.	PASS	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	37	2	239059610	239059610	+	Silent	SNP	C	C	T	rs61736173	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	59	139	0	0.440298	0	C|0.961;T|0.039	0.039	strong	.	KLHL30	79	.	NM_198582	exon8	c.C1641T	p.G547G	CCACGGCGCCCTG	.	PASS	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5862780	5862780	+	Silent	SNP	T	T	C	rs4362172	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	73	160	0	0.51773	0	T|0.607;C|0.393	0.393	strong	.	OR52E6	70	.	NM_001005167	exon1	c.A348G	p.V116V	CACCAATACGATG	.	PASS	Atlas-SNP
PTPLA	9200	hgsc.bcm.edu	37	10	17659131	17659131	+	Missense_Mutation	SNP	C	C	A	rs11254692	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	9	0	0	1	.	C|0.038;A|0.962	0.962	strong	.	PTPLA	34	.	NM_014241	exon1	c.G208T	p.V70F	CCAAGACCCCCAG	.	PASS	Atlas-SNP
UGT2B17	7367	hgsc.bcm.edu	37	4	69416556	69416556	+	Silent	SNP	T	T	C	rs76661554		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	229	73	71	0	0.318777	0	T|0.250;C|0.750	0.750	weak	.	UGT2B17	34	.	NM_001077	exon5	c.A1152G	p.A384A	GTAGATTGCCTCA	.	PASS	Atlas-SNP
USP43	124739	hgsc.bcm.edu	37	17	9586165	9586165	+	Silent	SNP	C	C	T	rs12453943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	32	86	0	0.477612	0	C|0.627;T|0.373	0.373	strong	.	USP43	65	.	NM_001267576	exon7	c.C1131T	p.S377S	GGCCTCCCCACGC	.	PASS	Atlas-SNP
CNTN3	5067	hgsc.bcm.edu	37	3	74349062	74349062	+	Missense_Mutation	SNP	T	T	C	rs626578	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	22	39	0	0.458333	0	T|0.910;C|0.090	0.090	strong	CNTN3,NS,carcinoma,0,1	CNTN3	174	1	NM_020872	exon16	c.A2123G	p.N708S	CCTCCATTGACTT	.	PASS	Atlas-SNP
ZNF385A	25946	hgsc.bcm.edu	37	12	54767812	54767812	+	Silent	SNP	G	G	A	rs2887875	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	61	0	1	0	G|0.827;C|0.000;A|0.173	0.173	strong	.	ZNF385A	45	.	NM_001130967	exon4	c.C366T	p.D122D	AGCTGGGTCTCCA	.	PASS	Atlas-SNP
OGG1	4968	hgsc.bcm.edu	37	3	9798773	9798773	+	Missense_Mutation	SNP	C	C	G	rs1052134	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	57	65	0	0.606383	0	C|1.000;|0.000	.	weak	.	OGG1	57	.	NM_016820	exon7	c.C994G	p.P332A	GCCAATCCCGCCA	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38949904	38949904	+	Silent	SNP	C	C	T	rs3745847	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	158	149	1	0.993711	0.00671141	C|0.386;T|0.614	0.614	strong	.	RYR1	708	.	NM_001042723	exon19	c.C2286T	p.P762P	CTGCCCCGTGCAG	.	PASS	Atlas-SNP
GJB4	127534	hgsc.bcm.edu	37	1	35226963	35226963	+	Silent	SNP	C	C	T	rs142720849	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	63	139	0	0.504	0	C|0.996;T|0.004	0.004	strong	GJB4,NS,carcinoma,0,1	GJB4	51	1	NM_153212	exon2	c.C108T	p.Y36Y	GGTGTACGTGGTG	.	PASS	Atlas-SNP
TAF1C	9013	hgsc.bcm.edu	37	16	84213114	84213114	+	Silent	SNP	C	C	T	rs2230130	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	22	32	0	0.956522	0	C|0.709;T|0.291	0.291	strong	.	TAF1C	60	.	NM_005679	exon14	c.G2043A	p.V681V	GCGGAGCACACCC	.	PASS	Atlas-SNP
TAS2R42	353164	hgsc.bcm.edu	37	12	11339020	11339020	+	Missense_Mutation	SNP	T	T	A	rs35969491	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	72	86	0	1	0	T|0.472;A|0.528	0.528	strong	.	TAS2R42	30	.	NM_181429	exon1	c.A524T	p.Y175F	TTATCATAGAGAG	.	PASS	Atlas-SNP
OSBPL3	26031	hgsc.bcm.edu	37	7	24905795	24905795	+	Missense_Mutation	SNP	C	C	T	rs201132926	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	39	98	0	0.288889	0	.	.	weak	.	OSBPL3	100	.	NM_145321	exon6	c.G443A	p.R148H	TTCTGACGATACA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076278	9076278	+	Missense_Mutation	SNP	G	G	A	rs953551	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	74	179	0	0.480519	0	G|0.739;A|0.261	0.261	strong	MUC16_ENST00000397910,colon,carcinoma,0,2	MUC16	4315	2	NM_024690	exon3	c.C11168T	p.T3723M	AGGGGCGTATTTG	.	PASS	Atlas-SNP
GABRR1	2569	hgsc.bcm.edu	37	6	89913209	89913209	+	Splice_Site	SNP	C	C	T	rs4590242	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	82	106	0	0.97619	0	C|0.295;T|0.705	0.705	strong	.	GABRR1	63	.	.	.	.	.	GCCTACCATGAAC	.	PASS	Atlas-SNP
PRNP	5621	hgsc.bcm.edu	37	20	4680251	4680251	+	Missense_Mutation	SNP	A	A	G	rs1799990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	45	92	0	0.445545	0	A|0.700;G|0.300	0.300	strong	PRNP,face,carcinoma,0,4	PRNP	31	4	NM_000311	exon2	c.A385G	p.M129V	GGCTACATGCTGG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152279019	152279019	+	Silent	SNP	G	G	A	rs57670307	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	693	161	508	0	0.232323	0	G|0.939;A|0.061	0.061	strong	FLG,NS,carcinoma,0,1	FLG	900	1	NM_002016	exon3	c.C8343T	p.D2781D	CTGACCGTCTTGG	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5436263	5436263	+	Missense_Mutation	SNP	C	C	T	rs2301582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	34	90	0	0.409639	0	C|0.738;T|0.262	0.262	strong	.	NLRP1	358	.	NM_001033053	exon11	c.G3187A	p.V1063M	AAGGCACGCACAA	.	PASS	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231865144	231865144	+	Missense_Mutation	SNP	G	G	C	rs12105962	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	177	183	0	0.994382	0	G|0.771;C|0.229	0.229	strong	.	SPATA3	52	.	NM_139073	exon2	c.G365C	p.C122S	CCGCTTGCTGGCG	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115933980	115933980	+	Missense_Mutation	SNP	C	C	A	rs1128116	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	41	88	0	0.493976	0	C|0.940;A|0.060	0.060	strong	.	FKBP15	128	.	NM_015258	exon24	c.G2539T	p.A847S	GGAGGGCTAAACA	.	PASS	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	37	12	29649191	29649191	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	7	35	0	0.189189	0	.	.	none	.	OVCH1	195	.	NM_183378	exon3	c.G204A	p.E68E	GTGGTGCTCATCT	.	PASS	Atlas-SNP
CYTH4	27128	hgsc.bcm.edu	37	22	37699377	37699377	+	Silent	SNP	T	T	C	rs2239822	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	91	114	0	1	0	C|0.686;N|0.000	0.686	strong	.	CYTH4	51	.	NM_013385	exon8	c.T630C	p.F210F	GCCTTTTGAGCGC	.	PASS	Atlas-SNP
BRAF	673	hgsc.bcm.edu	37	7	140453155	140453155	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	20	74	0	0.28169	0	.	.	none	BRAF,rectum,carcinoma,0,77	BRAF	36346	77	NM_004333	exon15	c.G1780A	p.D594N	CAAAATCACCTAT	.	PASS	Atlas-SNP
UBR3	130507	hgsc.bcm.edu	37	2	170780657	170780657	+	Silent	SNP	C	C	T	rs61744354	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	52	129	0	0.468468	0	C|0.960;T|0.040	0.040	strong	.	UBR3	182	.	NM_172070	exon13	c.C1996T	p.L666L	ATGAAACTAATGA	.	PASS	Atlas-SNP
IGDCC4	57722	hgsc.bcm.edu	37	15	65676617	65676617	+	Silent	SNP	T	T	C	rs2292933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	30	59	1	0.447761	0.0169492	T|0.516;C|0.484	0.484	strong	IGDCC4,caecum,carcinoma,-1,1	IGDCC4	95	1	NM_020962	exon20	c.A3483G	p.P1161P	AGCCTCTGGAGGC	.	scavenged	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629935	32629935	+	Missense_Mutation	SNP	C	C	G	rs1063322	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	27	130	0	1	0	C|0.500;G|0.500	0.500	weak	.	HLA-DQB1	15	.	NM_002123	exon3	c.G470C	p.G157A	ATCTGGCCTGGAT	.	PASS	Atlas-SNP
THAP4	51078	hgsc.bcm.edu	37	2	242573211	242573211	+	Missense_Mutation	SNP	T	T	C	rs7424328	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	33	69	0	0.452055	0	T|0.492;C|0.508	0.508	strong	.	THAP4	27	.	NM_015963	exon2	c.A361G	p.S121G	CTCTGCTGGTGGC	.	PASS	Atlas-SNP
C10orf67	256815	hgsc.bcm.edu	37	10	23633566	23633566	+	Silent	SNP	C	C	A	rs2036917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	87	0	0.511628	0	C|0.343;A|0.657	0.657	strong	C10orf67,NS,carcinoma,0,1	C10orf67	21	1	NM_153714	exon1	c.G141T	p.R47R	GCAGACCCGCAGC	.	PASS	Atlas-SNP
PTPRG	5793	hgsc.bcm.edu	37	3	61975387	61975387	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	61	76	0	0.564815	0	.	.	none	PTPRG,NS,carcinoma,0,1	PTPRG	153	1	NM_002841	exon3	c.G279A	p.A93A	GTATGCGCGTGTT	.	PASS	Atlas-SNP
OR4S2	219431	hgsc.bcm.edu	37	11	55418659	55418659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	283	3	128	0	0.0106007	0	.	.	none	OR4S2,face,carcinoma,-1,1	OR4S2	89	1	NM_001004059	exon1	c.G280A	p.G94R	TATGTGGGGTGCA	.	scavenged	Atlas-SNP
ADAMTS16	170690	hgsc.bcm.edu	37	5	5200281	5200281	+	Silent	SNP	C	C	T	rs6555335	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	67	83	0	0.971014	0	C|0.270;T|0.730	0.730	strong	.	ADAMTS16	543	.	NM_139056	exon9	c.C1350T	p.C450C	CATGTGCAAAAAG	.	PASS	Atlas-SNP
ST3GAL4	6484	hgsc.bcm.edu	37	11	126278203	126278203	+	Silent	SNP	T	T	C	rs2298475	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	57	115	1	0.558824	0.00869565	T|0.925;C|0.075	0.075	strong	ST3GAL4,NS,carcinoma,0,1	ST3GAL4	25	1	NM_001254757	exon8	c.T439C	p.L147L	CCCAGATTGAACA	.	scavenged	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111679872	111679872	+	Silent	SNP	G	G	A	rs12340246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	45	101	0	0.48913	0	G|0.952;A|0.048	0.048	strong	IKBKAP,NS,carcinoma,0,1	IKBKAP	122	1	NM_003640	exon9	c.C819T	p.L273L	ATGAAGGAGTCCA	.	PASS	Atlas-SNP
CHST13	166012	hgsc.bcm.edu	37	3	126261345	126261345	+	Missense_Mutation	SNP	G	G	A	rs1056522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	74	89	0	0.582677	0	G|0.655;A|0.345	0.345	strong	.	CHST13	21	.	NM_152889	exon3	c.G950A	p.R317Q	ACCAGCGGCGCCT	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88791458	88791458	+	Missense_Mutation	SNP	G	G	A	rs11645197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	47	97	0	0.474747	0	G|0.827;A|0.173	0.173	strong	.	PIEZO1	79	.	NM_001142864	exon30	c.C4193T	p.P1398L	CTCCGTGGCGGGG	.	PASS	Atlas-SNP
TRIM77	390231	hgsc.bcm.edu	37	11	89443808	89443808	+	Silent	SNP	A	A	C	rs11018745	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	19	43	0	0.372549	0	A|0.705;C|0.295	0.295	strong	.	.	.	.	NM_001146162	exon1	c.A342C	p.L114L	TTTTCTATGCTCT	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136561557	136561557	+	Silent	SNP	G	G	A	rs2304371	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	71	150	0	0.452229	0	G|0.327;A|0.673	0.673	strong	.	LCT	309	.	NM_002299	exon11	c.C4606T	p.L1536L	CATTCAGCGTGAT	.	PASS	Atlas-SNP
SPOCK3	50859	hgsc.bcm.edu	37	4	167656073	167656073	+	Silent	SNP	C	C	T	rs1057377	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	239	131	252	0	0.548117	0	C|0.843;T|0.157	0.157	strong	.	SPOCK3	90	.	NM_016950	exon12	c.G1310A	p.X437X	ATCAATCAAATGT	.	PASS	Atlas-SNP
GRXCR1	389207	hgsc.bcm.edu	37	4	42895308	42895308	+	Missense_Mutation	SNP	G	G	A	rs78136490	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	46	90	0	0.46	0	G|0.906;A|0.094	0.094	strong	.	GRXCR1	78	.	NM_001080476	exon1	c.G25A	p.E9K	AAGCCAGAAAGTG	.	PASS	Atlas-SNP
GTPBP5	26164	hgsc.bcm.edu	37	20	60768615	60768615	+	Missense_Mutation	SNP	G	G	A	rs6062133	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	45	89	0	0.517241	0	A|0.128;C|0.000;G|0.872	0.128	strong	.	GTPBP5	43	.	NM_015666	exon2	c.G139A	p.G47S	TCGGTCGGCCGTG	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10467636	10467636	+	Silent	SNP	T	T	C	rs4840500		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	17	107	0	0.193182	0	.	.	weak	.	RP1L1	453	.	NM_178857	exon4	c.A3972G	p.E1324E	TTTAGTTTCCTCT	.	PASS	Atlas-SNP
FNBP1	23048	hgsc.bcm.edu	37	9	132662786	132662786	+	Missense_Mutation	SNP	C	C	T	rs1023000	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	33	55	0	0.532258	0	C|0.386;T|0.614	0.614	strong	FNBP1_ENST00000372416,NS,carcinoma,0,2	FNBP1	51	2	NM_015033	exon14	c.G1469A	p.S490N	TGCTCGCTGCGTG	.	PASS	Atlas-SNP
WDR72	256764	hgsc.bcm.edu	37	15	53907948	53907948	+	Missense_Mutation	SNP	G	G	A	rs17730281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	86	101	0	1	0	G|0.773;A|0.227	0.227	strong	.	WDR72	177	.	NM_182758	exon15	c.C2455T	p.L819F	TATTGAGGTGCTT	.	PASS	Atlas-SNP
SUMF1	285362	hgsc.bcm.edu	37	3	4508742	4508742	+	Missense_Mutation	SNP	C	C	T	rs2819590	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	33	24	0	0.767442	0	C|0.867;T|0.133	0.133	strong	.	SUMF1	23	.	NM_001164675	exon1	c.G188A	p.S63N	GCCGAACTGCCAT	.	PASS	Atlas-SNP
SNX31	169166	hgsc.bcm.edu	37	8	101586133	101586133	+	Missense_Mutation	SNP	T	T	C	rs2022923	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	35	91	0	0.37234	0	T|0.551;C|0.449	0.449	strong	SNX31,NS,carcinoma,0,1	SNX31	66	1	NM_152628	exon14	c.A1283G	p.D428G	CAGTCATCTTTAG	.	PASS	Atlas-SNP
TK1	7083	hgsc.bcm.edu	37	17	76178748	76178748	+	Silent	SNP	T	T	C	rs1143697	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	21	19	3	1	0.157895	T|0.400;G|0.007	.	strong	TK1_ENST00000301634,NS,carcinoma,0,1	TK1	23	1	NM_003258	exon4	c.A225G	p.A75A	GGGCAGTGCCTCC	.	scavenged	Atlas-SNP
EMID1	129080	hgsc.bcm.edu	37	22	29630337	29630337	+	Missense_Mutation	SNP	G	G	A	rs3950176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	26	62	0	0.490566	0	G|0.849;A|0.151	0.151	strong	.	EMID1	33	.	NM_133455	exon12	c.G1073A	p.R358Q	GGCAGCGGGTAAG	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17766900	17766900	+	Missense_Mutation	SNP	C	C	T	rs34752754	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	43	81	0	0.494253	0	C|0.720;T|0.280	0.280	strong	.	UNC13A	299	.	NM_001080421	exon10	c.G1075A	p.A359T	GCTGGGCATAGCT	.	PASS	Atlas-SNP
TTC23	64927	hgsc.bcm.edu	37	15	99762041	99762041	+	Missense_Mutation	SNP	C	C	T	rs78534478	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	39	70	0	0.481481	0	C|0.970;T|0.030	0.030	strong	TTC23,colon,carcinoma,-1,1	TTC23	33	1	NM_001040657	exon4	c.G209A	p.R70H	ACGCAACGCACAA	.	PASS	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55481398	55481398	+	Silent	SNP	G	G	A	rs269912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	41	81	0	0.539474	0	G|0.872;A|0.128	0.128	strong	.	NLRP2	161	.	NM_001174082	exon2	c.G15A	p.A5A	TTCGGCGCAGATG	.	PASS	Atlas-SNP
CREBRF	153222	hgsc.bcm.edu	37	5	172550204	172550204	+	Silent	SNP	C	C	T	rs1129146	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	75	145	0	0.524476	0	C|0.868;T|0.132	0.132	strong	.	.	.	.	NM_153607	exon8	c.C1803T	p.L601L	TACTCTCGGTAAG	.	PASS	Atlas-SNP
HERC4	26091	hgsc.bcm.edu	37	10	69773841	69773841	+	Silent	SNP	G	G	A	rs866255	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	97	140	0	0.989796	0	G|0.595;A|0.405	0.405	strong	.	HERC4	78	.	NM_022079	exon9	c.C1011T	p.S337S	AAAGGGGCTTTTC	.	PASS	Atlas-SNP
GDF5	8200	hgsc.bcm.edu	37	20	34022387	34022387	+	Missense_Mutation	SNP	A	A	C	rs224331	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	55	51	0	1	0	A|0.641;C|0.359	0.359	strong	GDF5OS_ENST00000374375,NS,carcinoma,0,3	GDF5	66	3	NM_000557	exon2	c.T826G	p.S276A	GCAAGGAGGCCGG	.	PASS	Atlas-SNP
TMEM245	23731	hgsc.bcm.edu	37	9	111868885	111868885	+	Silent	SNP	G	G	A	rs2271878	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	69	110	0	0.621622	0	G|0.789;A|0.211	0.211	strong	.	.	.	.	NM_032012	exon3	c.C702T	p.S234S	AGCCAGGGATGCT	.	PASS	Atlas-SNP
CLNK	116449	hgsc.bcm.edu	37	4	10502936	10502936	+	Missense_Mutation	SNP	G	G	A	rs190441710	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	50	110	0	0.49505	0	G|0.998;A|0.002	0.002	strong	.	CLNK	85	.	NM_052964	exon18	c.C1084T	p.R362C	GGAAGCGTATTTT	.	PASS	Atlas-SNP
GPM6A	2823	hgsc.bcm.edu	37	4	176573028	176573028	+	Silent	SNP	T	T	C	rs72702639	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	39	64	0	0.534247	0	T|0.986;C|0.014	0.014	strong	.	GPM6A	70	.	NM_201591	exon4	c.A498G	p.T166T	CACTAATGTGGTG	.	PASS	Atlas-SNP
ALS2CL	259173	hgsc.bcm.edu	37	3	46729757	46729757	+	Missense_Mutation	SNP	C	C	G	rs7642448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	126	70	0	0.992126	0	C|0.587;G|0.413	0.413	strong	.	ALS2CL	78	.	NM_001190707	exon3	c.G133C	p.E45Q	GGCACTCTCTGCC	.	PASS	Atlas-SNP
MRPL39	54148	hgsc.bcm.edu	37	21	26969703	26969703	+	Silent	SNP	T	T	C	rs1135618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	107	131	0	1	0	T|0.220;C|0.780	0.780	strong	.	MRPL39	61	.	NM_017446	exon6	c.A612G	p.K204K	AGCATCTTTTGTG	.	PASS	Atlas-SNP
PIR	8544	hgsc.bcm.edu	37	X	15415583	15415583	+	Silent	SNP	C	C	T	rs8094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	122	128	0	1	0	0|0.003;T|0.470	0.470	strong	.	PIR	22	.	NM_001018109	exon8	c.G681A	p.Q227Q	CTCCACCTGGACA	.	PASS	Atlas-SNP
IFIT2	3433	hgsc.bcm.edu	37	10	91066460	91066460	+	Silent	SNP	T	T	A	rs954439	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	34	89	0	0.492754	0	T|0.339;A|0.661	0.661	strong	.	IFIT2	39	.	NM_001547	exon2	c.T747A	p.V249V	AGATGTTCTTCGC	.	PASS	Atlas-SNP
ZNF212	7988	hgsc.bcm.edu	37	7	148936878	148936878	+	Missense_Mutation	SNP	G	G	T	rs11548535	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	19	21	0	0.59375	0	G|0.935;T|0.065	0.065	strong	.	ZNF212	28	.	NM_012256	exon1	c.G9T	p.E3D	GGCGGAGTCGGCG	.	PASS	Atlas-SNP
LAMA4	3910	hgsc.bcm.edu	37	6	112457383	112457383	+	Missense_Mutation	SNP	G	G	C	rs1050349	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	29	67	0	0.491525	0	G|0.773;C|0.227	0.227	strong	.	LAMA4	227	.	NM_001105206	exon25	c.C3356G	p.P1119R	TGCACAGGGCCAC	.	PASS	Atlas-SNP
OR2L5	81466	hgsc.bcm.edu	37	1	248185951	248185951	+	Silent	SNP	A	A	G	rs12753585	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	61	191	0	0.406667	0	A|0.981;G|0.019	0.019	strong	.	.	.	.	NM_001258284	exon1	c.A702G	p.K234K	GAGGAAAAAGGCC	.	PASS	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	37	2	227872995	227872995	+	Silent	SNP	T	T	C	rs2228555	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	73	144	0	0.474026	0	T|0.294;G|0.193	.	strong	.	COL4A4	215	.	NM_000092	exon47	c.A4548G	p.V1516V	GCTAAATACGGGA	.	PASS	Atlas-SNP
LRG1	116844	hgsc.bcm.edu	37	19	4538599	4538599	+	Missense_Mutation	SNP	G	G	A	rs966384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	33	12	0	1	0	G|0.705;A|0.295	0.295	strong	.	LRG1	25	.	NM_052972	exon2	c.C397T	p.P133S	GGCCCGGGGGCAG	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	984533	984533	+	Silent	SNP	T	T	C	rs2301810	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	34	37	0	0.971429	0	T|0.552;C|0.448	0.448	strong	.	WDR18	20	.	NM_024100	exon1	c.T180C	p.N60N	CAAGAATTACATC	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32188603	32188603	+	Silent	SNP	C	C	T	rs520803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	47	119	0	0.5	0	T|0.292;C|0.708	0.292	strong	NOTCH4,left_upper_lobe,carcinoma,-1,1	NOTCH4	201	1	NM_004557	exon5	c.G852A	p.Q284Q	CTGACACTGGTGG	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130872871	130872871	+	Silent	SNP	C	C	T	rs199770435	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	361	29	260	0	0.0803324	0	C|0.998;T|0.002	0.002	weak	POTEF,NS,carcinoma,0,5	POTEF	140	5	NM_001099771	exon4	c.G552A	p.G184G	TGAATTCCCATTG	.	scavenged	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	37	4	84361121	84361121	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	349	5	370	0	0.0143266	0	.	.	none	HELQ,NS,carcinoma,-1,1	HELQ	95	1	NM_133636	exon8	c.T1703C	p.V568A	AATGCTACCAAGT	.	scavenged	Atlas-SNP
OTUB2	78990	hgsc.bcm.edu	37	14	94510964	94510964	+	Silent	SNP	T	T	C	rs2273226	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	31	38	0	0.584906	0	T|0.488;C|0.512	0.512	strong	.	OTUB2	10	.	NM_023112	exon5	c.T336C	p.D112D	GAAGGATGGCTCA	.	PASS	Atlas-SNP
NMD3	51068	hgsc.bcm.edu	37	3	160956548	160956548	+	Silent	SNP	A	A	G	rs11539155	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	305	110	226	0	0.360656	0	A|0.972;G|0.028	0.028	strong	.	NMD3	49	.	NM_015938	exon9	c.A687G	p.Q229Q	CTCTCAAGATATC	.	PASS	Atlas-SNP
SDHAF1	644096	hgsc.bcm.edu	37	19	36486509	36486509	+	Silent	SNP	C	C	G	rs76336581	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	12	16	0	0.571429	0	C|0.958;G|0.042	0.042	strong	.	.	.	.	NM_001042631	exon1	c.C333G	p.R111R	GACCCGCCCCGAC	.	PASS	Atlas-SNP
OR10G3	26533	hgsc.bcm.edu	37	14	22038525	22038525	+	Silent	SNP	G	G	T	rs11626693	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	99	0	1	0	G|0.656;T|0.344	0.344	strong	.	OR10G3	40	.	NM_001005465	exon1	c.C351A	p.T117T	CATTAGGGTGTAG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230312	23230312	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	43	111	0	0.344	0	.	.	none	IGLL5,NS,lymphoid_neoplasm,-2,1	IGLL5	26	1	NM_001178126	exon1	c.C79T	p.L27L	CCCCTGCTGCTGC	.	PASS	Atlas-SNP
SLC25A5	292	hgsc.bcm.edu	37	X	118603844	118603844	+	Missense_Mutation	SNP	T	T	G	rs371749	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	63	87	0	0.828947	0	T|0.185;G|0.815	0.815	strong	.	SLC25A5	33	.	NM_001152	exon2	c.T332G	p.L111R	TTTGGCTCTACTT	.	PASS	Atlas-SNP
KRI1	65095	hgsc.bcm.edu	37	19	10676681	10676681	+	Missense_Mutation	SNP	T	T	C	rs3218222	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	8	4	0	1	0	T|0.386;C|0.614	0.614	strong	.	KRI1	65	.	NM_023008	exon1	c.A13G	p.T5A	TGGCGGTTCTGTG	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39137154	39137154	+	Missense_Mutation	SNP	C	C	G	rs721958	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	29	81	0	0.527273	0	C|0.656;G|0.344	0.344	strong	.	KRT40	27	.	NM_182497	exon7	c.G858C	p.E286D	ATTCAGCTCTTCT	.	PASS	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	37	16	84209816	84209816	+	Missense_Mutation	SNP	T	T	C	rs2288022	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	90	61	0	1	0	A|0.000;C|0.285;T|0.715	0.285	strong	.	DNAAF1	81	.	NM_178452	exon11	c.T1976C	p.L659P	GCCAGCTACTGAT	.	PASS	Atlas-SNP
CECR1	51816	hgsc.bcm.edu	37	22	17669306	17669306	+	Missense_Mutation	SNP	T	T	C	rs2231495	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	25	47	0	0.438596	0	T|0.627;C|0.373	0.373	strong	.	CECR1	77	.	NM_017424	exon6	c.A1004G	p.H335R	TAGTCATGCAAGG	.	PASS	Atlas-SNP
CUL2	8453	hgsc.bcm.edu	37	10	35321414	35321414	+	Silent	SNP	C	C	T	rs16935840	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	19	34	0	0.452381	0	C|0.867;T|0.133	0.133	strong	.	CUL2	63	.	NM_001198778	exon12	c.G1176A	p.T392T	AACTGACGTAAGG	.	PASS	Atlas-SNP
C15orf52	388115	hgsc.bcm.edu	37	15	40627845	40627845	+	Silent	SNP	G	G	A	rs55641696	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	23	53	0	0.442308	0	G|0.836;A|0.164	0.164	strong	.	C15orf52	47	.	NM_207380	exon11	c.C1119T	p.S373S	CATCCCGCTCTGC	.	PASS	Atlas-SNP
TAB2	23118	hgsc.bcm.edu	37	6	149730846	149730846	+	Silent	SNP	G	G	A	rs652921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	55	97	0	0.572917	0	G|0.850;A|0.150	0.150	strong	.	TAB2	55	.	NM_015093	exon9	c.G2073A	p.R691R	GCCAAGGCATTTC	.	PASS	Atlas-SNP
WDR63	126820	hgsc.bcm.edu	37	1	85594392	85594392	+	Silent	SNP	T	T	C	rs2305930	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	53	113	0	0.576087	0	T|0.947;C|0.053	0.053	strong	.	WDR63	91	.	NM_145172	exon21	c.T2319C	p.S773S	TTCAGCTAAACAG	.	PASS	Atlas-SNP
GDI2	2665	hgsc.bcm.edu	37	10	5808086	5808086	+	Silent	SNP	G	G	A	rs1129614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	101	187	0	0.558011	0	G|0.842;A|0.158	0.158	strong	.	GDI2	26	.	NM_001494	exon11	c.C1221T	p.T407T	ATGAGTGGTGGCA	.	PASS	Atlas-SNP
TMEM189	387521	hgsc.bcm.edu	37	20	48746189	48746189	+	Silent	SNP	C	C	T	rs6122878	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	51	65	0	0.927273	0	C|0.712;T|0.288	0.288	strong	.	TMEM189	15	.	NM_199129	exon4	c.G372A	p.P124P	AGCTGTCGGGTCA	.	PASS	Atlas-SNP
EEF2	1938	hgsc.bcm.edu	37	19	3983184	3983184	+	Silent	SNP	A	A	G	rs2230560	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	54	102	0	0.509434	0	T|0.000;G|0.239;C|0.000;A|0.760	0.239	strong	EEF2,NS,carcinoma,0,2	EEF2	57	2	NM_001961	exon3	c.T324C	p.H108H	GTCGACATGCCCG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549428	32549428	+	Silent	SNP	G	G	T	rs113663708	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	251	20	231	0	0.0796813	0	G|0.989;T|0.011	0.011	strong	.	HLA-DRB1	41	.	NM_002124	exon3	c.C558A	p.T186T	CACCAGGGTCTGG	.	PASS	Atlas-SNP
PPEF2	5470	hgsc.bcm.edu	37	4	76811175	76811175	+	Missense_Mutation	SNP	G	G	T	rs28436183	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	81	157	0	0.509434	0	G|0.859;T|0.141	0.141	strong	.	PPEF2	108	.	NM_006239	exon5	c.C352A	p.R118S	AGAGGCGTGGCCC	.	PASS	Atlas-SNP
FLYWCH1	84256	hgsc.bcm.edu	37	16	2983483	2983483	+	Silent	SNP	C	C	G	rs2074362	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	45	59	0	0.5625	0	C|0.704;G|0.296	0.296	strong	.	FLYWCH1	27	.	NM_020912	exon5	c.C1146G	p.L382L	GACTCTCACCAGG	.	PASS	Atlas-SNP
IL33	90865	hgsc.bcm.edu	37	9	6254467	6254467	+	Missense_Mutation	SNP	G	G	A	rs148943384		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	4	73	0	0.0449438	0	G|1.000;A|0.000	0.000	weak	.	IL33	27	.	NM_033439	exon7	c.G526A	p.G176S	GGTGACGGTGTTG	.	PASS	Atlas-SNP
FGD6	55785	hgsc.bcm.edu	37	12	95502303	95502303	+	Silent	SNP	G	G	A	rs11107896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	71	113	0	0.581967	0	G|0.906;A|0.094	0.094	strong	.	FGD6	127	.	NM_018351	exon10	c.C3168T	p.H1056H	ATTGGCGTGGTTG	.	PASS	Atlas-SNP
OLFM2	93145	hgsc.bcm.edu	37	19	9968434	9968434	+	Missense_Mutation	SNP	C	C	T	rs2303100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	66	55	0	0.970588	0	C|0.622;T|0.378	0.378	strong	.	OLFM2	42	.	NM_058164	exon3	c.G317A	p.R106Q	CGGAGCCGCGCAT	.	PASS	Atlas-SNP
HDAC10	83933	hgsc.bcm.edu	37	22	50686371	50686371	+	Missense_Mutation	SNP	C	C	T	rs34402301	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	50	124	0	0.555556	0	C|0.961;T|0.039	0.039	strong	.	HDAC10	29	.	NM_032019	exon13	c.G1285A	p.V429I	GGATGACGTCAGG	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	34137131	34137131	+	Silent	SNP	G	G	A	rs118177681	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	56	112	0	0.54902	0	G|0.993;A|0.007	0.007	strong	.	RYR3	760	.	NM_001036	exon93	c.G13365A	p.E4455E	TGACGAGGAAGAG	.	PASS	Atlas-SNP
C21orf33	8209	hgsc.bcm.edu	37	21	45553596	45553596	+	Missense_Mutation	SNP	T	T	C	rs968714	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	60	140	1	0.365854	0.00714286	T|0.378;C|0.622	0.622	strong	C21orf33,NS,carcinoma,0,1	C21orf33	23	1	NM_198155	exon1	c.T17C	p.V6A	TGAGGGTCCTGGT	.	scavenged	Atlas-SNP
FGD2	221472	hgsc.bcm.edu	37	6	36988364	36988364	+	Silent	SNP	C	C	T	rs831504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	29	66	0	0.483333	0	C|0.467;T|0.533	0.533	strong	.	FGD2	65	.	NM_173558	exon10	c.C1170T	p.S390S	GGTGTCCGGGAAG	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56771251	56771251	+	Missense_Mutation	SNP	A	A	C	rs3772219	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	69	97	0	0.543307	0	C|0.390;N|0.000	0.390	strong	.	ARHGEF3	128	.	NM_001128615	exon11	c.T1099G	p.L367V	AACACAAGACTCG	.	PASS	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	37	8	27886903	27886903	+	Silent	SNP	C	C	T	rs9314357	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	38	85	0	0.426966	0	C|0.663;T|0.337	0.337	strong	.	.	.	.	NM_001010906	exon17	c.G2034A	p.T678T	TTTGCCCGTGATC	.	PASS	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38039128	38039128	+	Silent	SNP	A	A	G	rs74516928	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	15	31	0	0.535714	0	A|0.907;G|0.093	0.093	strong	SH3BP1,NS,carcinoma,0,1	SH3BP1	41	1	NM_018957	exon6	c.A420G	p.K140K	CCTCAAACACAAG	.	PASS	Atlas-SNP
ASAH1	427	hgsc.bcm.edu	37	8	17942204	17942204	+	Missense_Mutation	SNP	C	C	T	rs13263632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	17	40	0	0.485714	0	C|0.924;T|0.076	0.076	strong	.	ASAH1	71	.	NM_001127505	exon1	c.G107A	p.S36N	GCAAAGCTGCCAA	.	PASS	Atlas-SNP
FOLH1B	219595	hgsc.bcm.edu	37	11	89413781	89413781	+	Missense_Mutation	SNP	C	C	G	rs10830339	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	56	237	0	0.333333	0	C|0.717;G|0.283	0.283	strong	.	FOLH1B	93	.	NM_153696	exon8	c.C453G	p.N151K	AGGAAACTACACT	.	PASS	Atlas-SNP
NDNF	79625	hgsc.bcm.edu	37	4	121958691	121958691	+	Silent	SNP	T	T	C	rs3733559	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	53	103	0	0.56383	0	T|0.796;C|0.204	0.204	strong	NDNF,colon,carcinoma,-2,1	NDNF	72	1	NM_024574	exon4	c.A435G	p.L145L	CTGATATAAACCG	.	PASS	Atlas-SNP
TRIO	7204	hgsc.bcm.edu	37	5	14397238	14397238	+	Silent	SNP	T	T	C	rs30774	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	53	90	0	0.490741	0	T|0.590;C|0.410	0.410	strong	TRIO,NS,carcinoma,0,1	TRIO	305	1	NM_007118	exon29	c.T4398C	p.D1466D	CAATGATGCCATG	.	PASS	Atlas-SNP
FBXO7	25793	hgsc.bcm.edu	37	22	32871383	32871383	+	Missense_Mutation	SNP	T	T	G	rs8137714	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	29	68	1	0.446154	0.0147059	A|0.000;C|0.000;G|0.179;T|0.820	0.179	strong	FBXO7_ENST00000382058,NS,carcinoma,0,1	FBXO7	131	1	NM_001033024	exon1	c.T35G	p.L12R	CCCTCCTCGGTGA	.	scavenged	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	37	2	71654175	71654175	+	Missense_Mutation	SNP	G	G	A	rs1804020	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	52	113	1	0.481481	0.00884956	G|0.710;A|0.290	0.290	strong	ZNF638,tonsil,carcinoma,0,1	ZNF638	179	1	NM_014497	exon24	c.G5176A	p.V1726M	TCTCAGGTGCCCG	.	scavenged	Atlas-SNP
NUP155	9631	hgsc.bcm.edu	37	5	37294473	37294473	+	Silent	SNP	T	T	C	rs1045908	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	146	155	0	1	0	T|0.750;C|0.250	0.250	strong	NUP155,NS,carcinoma,0,1	NUP155	116	1	NM_153485	exon33	c.A3888G	p.L1296L	TCTAGGTAATGGT	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72992269	72992269	+	Silent	SNP	G	G	A	rs11075951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	149	145	0	1	0	A|0.058;C|0.000;G|0.941	0.058	strong	.	ZFHX3	404	.	NM_006885	exon2	c.C1776T	p.D592D	ACTTTCGTCAGCG	.	PASS	Atlas-SNP
SURF6	6838	hgsc.bcm.edu	37	9	136199466	136199466	+	Missense_Mutation	SNP	G	G	A	rs886089	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	17	37	0	0.472222	0	A|0.255;C|0.000;G|0.745	0.255	strong	SURF6,rectum,carcinoma,0,1	SURF6	32	1	NM_006753	exon4	c.C524T	p.T175M	GCCTCCGTGGCCT	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102108263	102108263	+	Missense_Mutation	SNP	A	A	G	rs35310665	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	29	70	0	0.391892	0	A|0.958;G|0.042	0.042	strong	.	LRWD1	41	.	NM_152892	exon5	c.A671G	p.K224R	CCCACAAGCCCAG	.	PASS	Atlas-SNP
MROH9	80133	hgsc.bcm.edu	37	1	170959088	170959088	+	Silent	SNP	C	C	T	rs28634500	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	109	150	0	0.608939	0	C|0.791;T|0.209	0.209	strong	.	.	.	.	NM_025063	exon11	c.C972T	p.C324C	GACATGCACTTCA	.	PASS	Atlas-SNP
PML	5371	hgsc.bcm.edu	37	15	74328141	74328141	+	Missense_Mutation	SNP	G	G	T	rs743581	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	47	72	0	0.979167	0	A|0.000;G|0.653;T|0.347	0.347	strong	.	PML	169	.	NM_033239	exon8	c.G2339T	p.G780V	GAGCAGGTGTTCC	.	PASS	Atlas-SNP
GABRA6	2559	hgsc.bcm.edu	37	5	161128627	161128627	+	Missense_Mutation	SNP	C	C	T	rs34907804	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	67	139	0	0.452703	0	C|0.915;T|0.085	0.085	strong	GABRA6,lower_third,carcinoma,-2,1	GABRA6	139	1	NM_000811	exon9	c.C1210T	p.P404S	GTCACACCCCCAC	.	PASS	Atlas-SNP
CPXM2	119587	hgsc.bcm.edu	37	10	125521590	125521590	+	Silent	SNP	G	G	A	rs10794567	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	26	66	0	0.45614	0	G|0.303;A|0.697	0.697	strong	.	CPXM2	120	.	NM_198148	exon11	c.C1575T	p.Y525Y	GTAGGGGTACGCC	.	PASS	Atlas-SNP
SDC2	6383	hgsc.bcm.edu	37	8	97614661	97614661	+	Missense_Mutation	SNP	T	T	A	rs1042381	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	32	113	0	0.323232	0	T|0.760;A|0.240	0.240	strong	SDC2,NS,carcinoma,0,1	SDC2	33	1	NM_002998	exon3	c.T211A	p.S71T	ACAACATCTCGAC	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220348751	220348751	+	Missense_Mutation	SNP	C	C	T	rs10755037	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	31	53	0	0.584906	0	A|0.000;C|0.753;G|0.000;T|0.247	0.247	strong	SPEG,NS,carcinoma,0,2	SPEG	272	2	NM_005876	exon30	c.C6566T	p.P2189L	GTACCCCTAAGTC	.	PASS	Atlas-SNP
MFSD6L	162387	hgsc.bcm.edu	37	17	8701116	8701116	+	Silent	SNP	G	G	A	rs2242374	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	19	65	0	0.422222	0	G|0.836;A|0.164	0.164	strong	.	MFSD6L	46	.	NM_152599	exon1	c.C1323T	p.L441L	CCCAGCGAGGCAG	.	PASS	Atlas-SNP
OR56A5	390084	hgsc.bcm.edu	37	11	5989223	5989223	+	Nonsense_Mutation	SNP	G	G	A	rs61730422	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	40	97	0	0.470588	0	G|0.951;A|0.049	0.049	strong	.	.	.	.	NM_001146033	exon1	c.C502T	p.R168X	TGAGTCGAGAAGA	.	PASS	Atlas-SNP
FAM171A2	284069	hgsc.bcm.edu	37	17	42437000	42437000	+	Missense_Mutation	SNP	G	G	A	rs71371993	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	17	28	0	0.62963	0	G|0.915;A|0.085	0.085	strong	.	FAM171A2	13	.	NM_198475	exon3	c.C386T	p.P129L	GTGGCCGGCCGCT	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29416481	29416481	+	Missense_Mutation	SNP	T	T	C	rs1881420	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	290	146	273	0	0.503448	0	T|0.684;G|0.005	.	strong	ALK,NS,carcinoma,0,1	ALK	533	1	NM_004304	exon29	c.A4472G	p.K1491R	TGGACCTTGTGCA	.	PASS	Atlas-SNP
FAM22A	728118	hgsc.bcm.edu	37	10	88992641	88992641	+	Missense_Mutation	SNP	G	G	A	rs71252699	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	241	210	35	1	0.871369	0.0285714	G|0.250;A|0.750	0.750	strong	FAM22D,colon,carcinoma,-2,2	FAM22A	20	2	NM_001099338	exon5	c.G1633A	p.G545S	GAAGAGGGCGAAG	.	scavenged	Atlas-SNP
LRFN3	79414	hgsc.bcm.edu	37	19	36430798	36430798	+	Silent	SNP	A	A	G	rs1057265	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	11	21	0	0.44	0	A|0.872;G|0.128	0.128	strong	LRFN3,NS,carcinoma,0,1	LRFN3	43	1	NM_024509	exon2	c.A471G	p.T157T	CGAGACACTGGAG	.	PASS	Atlas-SNP
RANBP17	64901	hgsc.bcm.edu	37	5	170626735	170626735	+	Silent	SNP	A	A	G	rs35724654	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	18	53	0	0.439024	0	A|0.890;G|0.110	0.110	strong	.	RANBP17	108	.	NM_022897	exon19	c.A2100G	p.V700V	AACAGTATTACAA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	717523	717523	+	Silent	SNP	G	G	T	rs3752493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	57	48	0	1	0	G|0.369;T|0.631	0.631	strong	WDR90,colon,carcinoma,0,2	WDR90	107	2	NM_145294	exon41	c.G5181T	p.P1727P	TACACCGTCCGCC	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	41991315	41991315	+	Missense_Mutation	SNP	A	A	T	rs2178004	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	150	146	0	0.980392	0	A|0.216;T|0.784	0.784	strong	.	MGA	264	.	NM_001080541	exon5	c.A2146T	p.T716S	TTGAAGACTTTGC	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218686643	218686643	+	Missense_Mutation	SNP	T	T	A	rs112371945	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	68	95	0	0.539683	0	T|0.996;A|0.004	0.004	strong	.	TNS1	251	.	NM_022648	exon23	c.A3080T	p.E1027V	ACAGACTCCACAT	.	PASS	Atlas-SNP
OR2M2	391194	hgsc.bcm.edu	37	1	248343990	248343990	+	Missense_Mutation	SNP	T	T	C	rs4916104	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	147	251	1	0.97351	0.00398406	T|0.447;C|0.553	0.553	strong	OR2M2,NS,carcinoma,-1,1	OR2M2	149	1	NM_001004688	exon1	c.T703C	p.C235R	GGTCGTTGCAAAG	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	141461266	141461266	+	Silent	SNP	A	A	G	rs3735801	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	30	56	0	0.483871	0	A|0.446;G|0.554	0.554	strong	.	TRAPPC9	114	.	NM_031466	exon2	c.T501C	p.G167G	GAAGTCACCCCAC	.	PASS	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	37	4	186536235	186536235	+	Silent	SNP	G	G	A	rs373495088		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	71	129	0	0.5	0	.	.	weak	.	SORBS2	300	.	NM_001270771	exon19	c.C3018T	p.H1006H	TCTCCCGTGGTGT	.	PASS	Atlas-SNP
FAM47E-STBD1	0	hgsc.bcm.edu	37	4	77192868	77192868	+	Missense_Mutation	SNP	G	G	A	rs3733250	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	27	67	0	0.385714	0	G|0.650;A|0.350	0.350	strong	.	.	.	.	NM_001242939	exon5	c.G817A	p.E273K	CTGCAGGAGACAG	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113212454	113212454	+	Missense_Mutation	SNP	A	A	T	rs10817021	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	79	160	0	0.484663	0	A|0.904;T|0.096	0.096	strong	.	SVEP1	326	.	NM_153366	exon24	c.T3988A	p.L1330M	TGCACAAGAATCC	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832389	130832389	+	Missense_Mutation	SNP	G	G	T	rs28583670		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	11	97	0	0.0909091	0	.	.	weak	POTEF,NS,carcinoma,0,1	POTEF	140	1	NM_001099771	exon17	c.C2656A	p.P886T	AGTCAGGCAGTTC	.	scavenged	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	37	10	116064528	116064528	+	Missense_Mutation	SNP	G	G	A	rs73365341	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	14	36	0	0.583333	0	G|0.884;A|0.116	0.116	strong	.	AFAP1L2	90	.	NM_032550	exon11	c.C1234T	p.L412F	AGTAGAGGTGGTC	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52351377	52351377	+	Silent	SNP	T	T	C	rs1139484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	34	70	0	0.419753	0	C|0.107;G|0.000;T|0.893	0.107	strong	.	ITGA2	211	.	NM_002203	exon8	c.T789C	p.A263A	ATATGCTTATTCA	.	PASS	Atlas-SNP
SEC24B	10427	hgsc.bcm.edu	37	4	110384790	110384790	+	Silent	SNP	A	A	G	rs33911248	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	43	56	0	0.581081	0	A|0.915;G|0.085	0.085	strong	SEC24B_ENST00000265175,rectum,carcinoma,+1,2	SEC24B	186	2	NM_006323	exon2	c.A867G	p.P289P	CAACCCAACCATT	.	PASS	Atlas-SNP
HS3ST6	64711	hgsc.bcm.edu	37	16	1961866	1961866	+	Silent	SNP	G	G	A	rs61742747	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	42	54	0	0.7	0	G|0.953;A|0.047	0.047	strong	.	HS3ST6	26	.	NM_001009606	exon2	c.C661T	p.L221L	TGACCAGACGCTC	.	PASS	Atlas-SNP
HLA-DOA	3111	hgsc.bcm.edu	37	6	32975257	32975257	+	Silent	SNP	C	C	T	rs365066	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	42	66	0	0.525	0	C|0.605;T|0.395	0.395	strong	.	HLA-DOA	22	.	NM_002119	exon3	c.G444A	p.L148L	GTTGCGCAGCCAG	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220356520	220356520	+	Silent	SNP	G	G	T	rs12473286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	15	44	0	0.625	0	G|0.755;T|0.245	0.245	strong	.	SPEG	272	.	NM_005876	exon39	c.G9390T	p.P3130P	AGCTCCGGAGATG	.	PASS	Atlas-SNP
AKAP6	9472	hgsc.bcm.edu	37	14	33292914	33292914	+	Silent	SNP	A	A	C	rs2239648	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	30	49	0	0.5	0	A|0.767;C|0.233	0.233	strong	.	AKAP6	308	.	NM_004274	exon13	c.A5895C	p.P1965P	ATGTCCAAATCAC	.	PASS	Atlas-SNP
ACSL1	2180	hgsc.bcm.edu	37	4	185686032	185686032	+	Silent	SNP	C	C	T	rs2292898	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	70	98	0	0.5	0	C|0.220;T|0.780	0.780	strong	.	ACSL1	77	.	NM_001995	exon15	c.G1407A	p.L469L	CATGGTCAGGCAG	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24833407	24833407	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	3	48	0	0.0461538	0	.	.	none	KIAA1217,colon,carcinoma,+1,1	KIAA1217	235	1	NM_019590	exon19	c.T5208C	p.R1736R	TTCACGTAAGGTA	.	scavenged	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7435797	7435797	+	Silent	SNP	G	G	A	rs34136551	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	25	56	0	0.416667	0	G|0.963;A|0.037	0.037	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.C810T	p.D270D	GACCCCGTCCATG	.	PASS	Atlas-SNP
METTL21D	79609	hgsc.bcm.edu	37	14	50583083	50583083	+	Missense_Mutation	SNP	G	G	T	rs11157729	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	45	22	0	0.978261	0	G|0.812;T|0.188	0.188	strong	.	METTL21D	11	.	NM_024558	exon1	c.C188A	p.A63D	GCGTGGGCCCCGT	.	PASS	Atlas-SNP
MAP4	4134	hgsc.bcm.edu	37	3	47956424	47956424	+	Missense_Mutation	SNP	C	C	T	rs1137524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	65	82	0	0.670103	0	T|0.303;G|0.116;C|0.511;N|0.000;A|0.069	0.303	strong	.	MAP4	176	.	NM_001134364	exon8	c.G1882A	p.V628I	CTGTGACGGTTTC	.	PASS	Atlas-SNP
HDAC4	9759	hgsc.bcm.edu	37	2	240036848	240036848	+	Silent	SNP	C	C	T	rs114495208	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	60	89	0	0.48	0	C|0.996;T|0.004	0.004	strong	.	HDAC4	127	.	NM_006037	exon13	c.G1677A	p.K559K	CTCCTGCTTCACC	.	PASS	Atlas-SNP
ZNF683	257101	hgsc.bcm.edu	37	1	26688181	26688181	+	Silent	SNP	G	G	C	rs11583897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	23	60	0	0.396552	0	G|0.907;C|0.093	0.093	strong	.	ZNF683	51	.	NM_173574	exon6	c.C1476G	p.A492A	AGTCCCGGCACTG	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152185750	152185750	+	Silent	SNP	G	G	A	rs12729662	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	131	87	0	0.779762	0	G|0.723;A|0.277	0.277	strong	HRNR,colon,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.C8355T	p.Y2785Y	TTGGCCGTAGCTG	.	PASS	Atlas-SNP
MVK	4598	hgsc.bcm.edu	37	12	110013879	110013879	+	Missense_Mutation	SNP	G	G	A	rs7957619	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	38	61	0	0.457831	0	G|0.892;A|0.108	0.108	strong	.	MVK	42	.	NM_000431	exon3	c.G155A	p.S52N	ACCTCAGCTTACC	.	PASS	Atlas-SNP
ELF3	1999	hgsc.bcm.edu	37	1	201981218	201981218	+	Silent	SNP	C	C	G	rs11543979	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	75	107	2	0.559702	0.0186916	C|0.695;G|0.305	0.305	strong	ELF3,NS,carcinoma,0,1	ELF3	92	1	NM_001114309	exon3	c.C297G	p.G99G	GGATGGCGCCACC	.	scavenged	Atlas-SNP
SLC35E2	9906	hgsc.bcm.edu	37	1	1666167	1666167	+	Missense_Mutation	SNP	C	C	T	rs77734740		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	47	174	0	0.251337	0	C|0.500;T|0.500	0.500	weak	SLC35E2,NS,carcinoid-endocrine_tumour,0,1	SLC35E2	13	1	NM_182838	exon5	c.G694A	p.V232I	GGCGTACGCCGTG	.	scavenged	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207653395	207653395	+	Missense_Mutation	SNP	C	C	A	rs17617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	128	118	0	0.992248	0	C|0.103;A|0.897	0.897	strong	.	CR2	164	.	NM_001006658	exon18	c.C3185A	p.A1062E	ACAGAGCACGGTA	.	PASS	Atlas-SNP
ATAD3C	219293	hgsc.bcm.edu	37	1	1387764	1387764	+	Missense_Mutation	SNP	G	G	A	rs9793256	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	214	109	251	0	0.509346	0	G|0.744;A|0.256	0.256	strong	.	ATAD3C	23	.	NM_001039211	exon3	c.G172A	p.G58R	TTGTTTGGGGAAG	.	PASS	Atlas-SNP
SNRNP200	23020	hgsc.bcm.edu	37	2	96944553	96944553	+	Silent	SNP	G	G	A	rs772175	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	82	165	0	0.550336	0	G|0.733;A|0.267	0.267	strong	.	SNRNP200	195	.	NM_014014	exon37	c.C5317T	p.L1773L	CCTGCAGGTTGTA	.	PASS	Atlas-SNP
SNAP29	9342	hgsc.bcm.edu	37	22	21213416	21213416	+	Silent	SNP	A	A	G	rs1061064	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	80	70	0	1	0	A|0.600;G|0.400	0.400	strong	SNAP29,NS,carcinoma,0,1	SNAP29	22	1	NM_004782	exon1	c.A18G	p.K6K	CCCTAAAAGCTAC	.	PASS	Atlas-SNP
KDM5B	10765	hgsc.bcm.edu	37	1	202715288	202715288	+	Missense_Mutation	SNP	G	G	A	rs144876400	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	52	108	0	0.4	0	G|1.000;A|0.000	0.000	weak	.	KDM5B	166	.	NM_006618	exon15	c.C2180T	p.P727L	TTGTAAGGAGGAC	.	PASS	Atlas-SNP
CDCA2	157313	hgsc.bcm.edu	37	8	25364834	25364834	+	Missense_Mutation	SNP	A	A	T	rs3829009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	18	36	0	0.5625	0	A|0.802;T|0.198	0.198	strong	.	CDCA2	78	.	NM_152562	exon15	c.A2652T	p.R884S	GAGGAGAAATAGT	.	PASS	Atlas-SNP
ANKRD50	57182	hgsc.bcm.edu	37	4	125592065	125592065	+	Silent	SNP	C	C	A	rs10018651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	65	157	0	0.408805	0	C|0.743;A|0.257	0.257	strong	.	ANKRD50	136	.	NM_020337	exon4	c.G2367T	p.A789A	CATAGACGCTGCT	.	PASS	Atlas-SNP
VEZT	55591	hgsc.bcm.edu	37	12	95693943	95693943	+	Missense_Mutation	SNP	G	G	A	rs17344738	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	14	20	0	0.736842	0	G|0.947;A|0.053	0.053	strong	.	VEZT	106	.	NM_017599	exon12	c.G1834A	p.V612M	GAAGCCGTGTTGA	.	PASS	Atlas-SNP
PCDHB13	56123	hgsc.bcm.edu	37	5	140595831	140595831	+	Silent	SNP	G	G	T	rs145378952	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	49	67	0	0.515789	0	G|1.000;T|0.000	0.000	strong	.	PCDHB13	142	.	NM_018933	exon1	c.G2136T	p.R712R	GGTGCGGCTGTGT	.	PASS	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51173559	51173559	+	Silent	SNP	G	G	A	rs56627294		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	112	120	0	1	0	.	.	weak	SALL1,NS,carcinoma,0,1	SALL1	301	1	NM_002968	exon2	c.C2574T	p.L858L	CATCTCGAGGGGC	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50186415	50186415	+	Missense_Mutation	SNP	C	C	T	rs2292584	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	31	44	0	0.688889	0	C|0.598;T|0.402	0.402	strong	.	WDFY4	205	.	NM_020945	exon60	c.C9353T	p.P3118L	AGCCCCCGGCTCA	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242144308	242144308	+	Silent	SNP	G	G	A	rs139761441	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	37	64	0	0.521127	0	G|0.998;A|0.002	0.002	strong	.	ANO7	136	.	NM_001001891	exon10	c.G1080A	p.A360A	GCCAGCGGCAGTG	.	PASS	Atlas-SNP
UBE3D	90025	hgsc.bcm.edu	37	6	83667045	83667045	+	Missense_Mutation	SNP	C	C	T	rs7739323	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	37	89	0	0.41573	0	C|0.843;T|0.157	0.157	strong	.	.	.	.	NM_198920	exon9	c.G1135A	p.V379M	AATTCACACGGCG	.	PASS	Atlas-SNP
TAS1R3	83756	hgsc.bcm.edu	37	1	1268462	1268462	+	Silent	SNP	G	G	A	rs138915131	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	43	74	0	0.488636	0	G|0.994;A|0.006	0.006	strong	.	TAS1R3	39	.	NM_152228	exon4	c.G1437A	p.R479R	CCTCAGGACAGAG	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113209195	113209195	+	Missense_Mutation	SNP	T	T	G	rs1889323	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	19	34	0	0.558824	0	T|0.902;G|0.098	0.098	strong	.	SVEP1	326	.	NM_153366	exon25	c.A4246C	p.K1416Q	ACCTTTTGCCTGA	.	PASS	Atlas-SNP
CD200	4345	hgsc.bcm.edu	37	3	112066562	112066562	+	Silent	SNP	G	G	A	rs1050572	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	31	58	1	0.424658	0.0172414	G|0.836;A|0.164	0.164	strong	CD200,NS,carcinoma,0,1	CD200	33	1	NM_001004196	exon5	c.G654A	p.T218T	GACCACGTCTGTT	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152282917	152282917	+	Missense_Mutation	SNP	G	G	T	rs11204978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	227	145	208	1	0.638767	0.00480769	G|0.836;T|0.164	0.164	strong	.	FLG	900	.	NM_002016	exon3	c.C4445A	p.S1482Y	TCTTGGGATGCTG	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373562	5373562	+	Missense_Mutation	SNP	C	C	A	rs5024042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	73	164	0	0.450617	0	C|0.767;A|0.233	0.233	strong	.	OR51B6	53	.	NM_001004750	exon1	c.C825A	p.S275R	AATGAGCTACATC	.	PASS	Atlas-SNP
GALNT12	79695	hgsc.bcm.edu	37	9	101570336	101570336	+	Missense_Mutation	SNP	A	A	T	rs1137654	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	26	74	0	0.393939	0	A|0.957;T|0.043	0.043	strong	.	GALNT12	37	.	NM_024642	exon1	c.A356T	p.E119V	TGCCCGAGCGCTG	.	PASS	Atlas-SNP
HEATR4	399671	hgsc.bcm.edu	37	14	73969610	73969610	+	Silent	SNP	G	G	A	rs11626122	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	33	78	0	0.464789	0	G|0.841;A|0.159	0.159	strong	.	HEATR4	126	.	NM_203309	exon10	c.C2094T	p.H698H	TATGTCGTGCACC	.	PASS	Atlas-SNP
KRTAP16-1	100505753	hgsc.bcm.edu	37	17	39465094	39465094	+	Missense_Mutation	SNP	C	C	T	rs12453338	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	84	178	0	0.531646	0	C|0.771;T|0.229	0.229	strong	KRTAP16-1,NS,carcinoma,+2,1	KRTAP16-1	12	1	NM_001146182	exon1	c.G412A	p.V138I	CACAAACGGTGGC	.	PASS	Atlas-SNP
MASP1	5648	hgsc.bcm.edu	37	3	186953808	186953808	+	Silent	SNP	C	C	T	rs850312	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	59	56	0	0.648352	0	T|0.232;G|0.004	0.232	strong	MASP1_ENST00000296280,NS,carcinoma,0,1	MASP1	240	1	NM_139125	exon11	c.G1851A	p.L617L	ATACTGCAGGACA	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3425183	3425183	+	Silent	SNP	G	G	A	rs61735125	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	287	146	248	0	0.508711	0	G|0.940;A|0.060	0.060	strong	.	MEGF6	91	.	NM_001409	exon13	c.C1599T	p.C533C	CAGGAGGCAGGTC	.	PASS	Atlas-SNP
ZNF439	90594	hgsc.bcm.edu	37	19	11978828	11978828	+	Missense_Mutation	SNP	G	G	T	rs112352083	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	41	73	0	0.525641	0	G|0.972;T|0.028	0.028	strong	.	ZNF439	67	.	NM_152262	exon3	c.G944T	p.R315I	TTCGTAGACATGA	.	PASS	Atlas-SNP
TCTEX1D1	200132	hgsc.bcm.edu	37	1	67243024	67243024	+	Missense_Mutation	SNP	C	C	A	rs2133173	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	67	120	0	0.540323	0	C|0.762;N|0.000	.	strong	.	TCTEX1D1	27	.	NM_152665	exon5	c.C427A	p.L143I	AGCATACTTATTG	.	PASS	Atlas-SNP
CNN2	1265	hgsc.bcm.edu	37	19	1032689	1032689	+	Silent	SNP	G	G	T	rs1141534	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	14	32	0	0.482759	0	G|0.862;T|0.138	0.138	strong	.	CNN2	26	.	NM_201277	exon4	c.G384T	p.A128A	CCTGGCGGGGAAG	.	PASS	Atlas-SNP
APLF	200558	hgsc.bcm.edu	37	2	68729992	68729992	+	Missense_Mutation	SNP	A	A	G	rs11902811	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	72	136	0	0.431138	0	A|0.831;G|0.169	0.169	strong	.	APLF	69	.	NM_173545	exon3	c.A298G	p.I100V	TTCCGCATTCTCT	.	PASS	Atlas-SNP
OR52M1	119772	hgsc.bcm.edu	37	11	4567335	4567335	+	Missense_Mutation	SNP	C	C	G	rs2657167	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	27	79	0	0.442623	0	C|0.521;G|0.479	0.479	strong	OR52M1,NS,carcinoma,0,1	OR52M1	53	1	NM_001004137	exon1	c.C915G	p.S305R	AGAGAGCCTTCTC	.	PASS	Atlas-SNP
ASPHD2	57168	hgsc.bcm.edu	37	22	26830316	26830316	+	Silent	SNP	G	G	A	rs11705277	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	52	88	0	0.444444	0	G|0.880;A|0.120	0.120	strong	.	ASPHD2	42	.	NM_020437	exon2	c.G735A	p.R245R	CTGTAGGAAGTGC	.	PASS	Atlas-SNP
SOS2	6655	hgsc.bcm.edu	37	14	50585248	50585248	+	Silent	SNP	C	C	T	rs2227276	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	126	135	0	0.992126	0	T|0.202;C|0.798	0.202	strong	.	SOS2	195	.	NM_006939	exon23	c.G3813A	p.P1271P	TCGACGCGGTACC	.	PASS	Atlas-SNP
ANKRD16	54522	hgsc.bcm.edu	37	10	5926034	5926034	+	Silent	SNP	T	T	C	rs3750656	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	26	40	0	0.590909	0	T|0.961;C|0.039	0.039	strong	ANKRD16,NS,carcinoma,0,1	ANKRD16	32	1	NM_001009943	exon4	c.A585G	p.Q195Q	TTCATATTGGCAC	.	PASS	Atlas-SNP
GSDMB	55876	hgsc.bcm.edu	37	17	38062217	38062217	+	Missense_Mutation	SNP	C	C	T	rs2305479	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	111	126	0	0.965217	0	C|0.645;T|0.355	0.355	strong	GSDMB_ENST00000418519,colon,carcinoma,+1,3	GSDMB	87	3	NM_001165958	exon9	c.G910A	p.G304R	GCTCCCCGGAAAT	.	PASS	Atlas-SNP
WNT16	51384	hgsc.bcm.edu	37	7	120979089	120979089	+	Missense_Mutation	SNP	C	C	T	rs2707466	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	36	49	0	0.571429	0	C|0.462;T|0.538	0.538	strong	.	WNT16	97	.	NM_057168	exon4	c.C788T	p.T263I	ACAAAACAAAGAG	.	PASS	Atlas-SNP
OVCH2	341277	hgsc.bcm.edu	37	11	7717233	7717233	+	Missense_Mutation	SNP	G	G	A	rs62624491	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	52	114	0	0.477064	0	G|0.966;A|0.034	0.034	strong	.	OVCH2	47	.	NM_198185	exon11	c.C1166T	p.P389L	GATGAAGGGAGGC	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17108098	17108098	+	Silent	SNP	C	C	T	rs61745852	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	53	152	1	0.339744	0.00657895	C|0.838;T|0.162	0.162	strong	CPAMD8,colon,carcinoma,-2,1	CPAMD8	192	1	NM_015692	exon11	c.G1059A	p.A353A	GACGTCCGCTGGG	.	scavenged	Atlas-SNP
FBXO42	54455	hgsc.bcm.edu	37	1	16641797	16641797	+	Silent	SNP	C	C	T	rs61753288	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	246	110	219	0	0.447154	0	C|0.993;T|0.007	0.007	strong	.	FBXO42	53	.	NM_018994	exon2	c.G117A	p.E39E	AGTCTCCTCAGCC	.	PASS	Atlas-SNP
CYP8B1	1582	hgsc.bcm.edu	37	3	42916618	42916618	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	3	87	0	0.026087	0	.	.	none	CYP8B1,NS,carcinoma,0,1	CYP8B1	59	1	NM_004391	exon1	c.C691T	p.R231X	GGAGTCGGCCCAC	.	scavenged	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28412872	28412872	+	Silent	SNP	G	G	A	rs61756152	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	44	83	0	0.536585	0	G|0.885;A|0.115	0.115	strong	.	HERC2	501	.	NM_004667	exon68	c.C10515T	p.A3505A	GCTTGCGGCTCCC	.	PASS	Atlas-SNP
TAS2R4	50832	hgsc.bcm.edu	37	7	141478800	141478800	+	Missense_Mutation	SNP	G	G	A	rs2234002	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	70	165	0	0.451613	0	G|0.543;A|0.457	0.457	strong	.	TAS2R4	25	.	NM_016944	exon1	c.G512A	p.S171N	ATATCAGTGAGGG	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156873727	156873727	+	Silent	SNP	G	G	A	rs12407843	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	28	0	0.479167	0	G|0.842;A|0.158	0.158	strong	.	PEAR1	118	.	NM_001080471	exon2	c.G9A	p.P3P	GTCACCGCCTCTG	.	PASS	Atlas-SNP
SP110	3431	hgsc.bcm.edu	37	2	231077112	231077112	+	Missense_Mutation	SNP	G	G	A	rs28930679	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	69	177	0	0.463087	0	G|0.797;A|0.203	0.203	strong	.	SP110	105	.	NM_001185015	exon6	c.C635T	p.A212V	TCTTCCGCATTCA	.	PASS	Atlas-SNP
PRPF18	8559	hgsc.bcm.edu	37	10	13639490	13639490	+	Silent	SNP	C	C	T	rs2502213	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	22	40	0	0.511628	0	C|0.972;T|0.028	0.028	strong	.	PRPF18	32	.	NM_003675	exon2	c.C99T	p.L33L	TGAGCTCGCCAAA	.	PASS	Atlas-SNP
SIDT1	54847	hgsc.bcm.edu	37	3	113286405	113286405	+	Silent	SNP	C	C	T	rs2292511	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	68	105	0	0.591304	0	C|0.717;T|0.283	0.283	strong	SIDT1,NS,carcinoma,0,1	SIDT1	99	1	NM_017699	exon3	c.C363T	p.N121N	CTACAACTATCAA	.	PASS	Atlas-SNP
GUSB	2990	hgsc.bcm.edu	37	7	65429359	65429359	+	Silent	SNP	G	G	A	rs41406646		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	69	0	0.471698	0	G|1.000;|0.000	.	weak	.	GUSB	52	.	NM_000181	exon11	c.C1740T	p.Y580Y	AACCACGTATTTT	.	PASS	Atlas-SNP
OR2M2	391194	hgsc.bcm.edu	37	1	248343945	248343945	+	Missense_Mutation	SNP	C	C	G	rs4244171	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	169	271	1	1	0.00369004	C|0.400;G|0.600	0.600	strong	OR2M2,NS,adenoma,0,1	OR2M2	149	1	NM_001004688	exon1	c.C658G	p.R220G	TATGCTCGAGTTA	.	PASS	Atlas-SNP
CATSPER4	378807	hgsc.bcm.edu	37	1	26524520	26524520	+	Silent	SNP	G	G	A	rs61776651	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	72	113	0	0.541353	0	G|0.917;A|0.083	0.083	strong	.	CATSPER4	59	.	NM_198137	exon5	c.G630A	p.S210S	GCAGTCGGTGCCT	.	PASS	Atlas-SNP
NUP85	79902	hgsc.bcm.edu	37	17	73230856	73230856	+	Silent	SNP	C	C	T	rs9988	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	63	48	0	1	0	C|0.149;T|0.851	0.851	strong	.	NUP85	44	.	NM_024844	exon17	c.C1740T	p.D580D	GACAGACGCCTTG	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20872881	20872881	+	Missense_Mutation	SNP	G	G	T	rs1760898	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	38	109	0	0.481013	0	G|0.682;T|0.318	0.318	strong	.	TEP1	224	.	NM_007110	exon5	c.C921A	p.N307K	CAAGATGTTATTG	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911207	29911207	+	Missense_Mutation	SNP	G	G	A	rs1059520	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	58	140	0	0.426471	0	A|0.308;G|0.692	0.308	strong	.	HLA-A	89	.	NM_001242758	exon3	c.G506A	p.R169H	CCAAGCGCAAGTG	.	PASS	Atlas-SNP
DENND1B	163486	hgsc.bcm.edu	37	1	197482049	197482049	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	90	108	0	0.725806	0	.	.	none	.	DENND1B	108	.	NM_001195215	exon21	c.G1550T	p.G517V	AGAGCACCATCAA	.	PASS	Atlas-SNP
ABCG8	64241	hgsc.bcm.edu	37	2	44071743	44071743	+	Missense_Mutation	SNP	A	A	G	rs4148211	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	13	39	0	0.317073	0	A|0.626;G|0.374	0.374	strong	.	ABCG8	98	.	NM_022437	exon2	c.A161G	p.Y54C	TCAACTACCAGGT	.	PASS	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12854272	12854272	+	Missense_Mutation	SNP	T	T	C	rs71245740		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	231	48	210	0	0.207792	0	T|0.500;C|0.500	0.500	weak	.	PRAMEF1	78	.	NM_023013	exon3	c.T496C	p.Y166H	CTGAGATACCTCT	.	PASS	Atlas-SNP
ZNRF4	148066	hgsc.bcm.edu	37	19	5455800	5455800	+	Missense_Mutation	SNP	G	G	A	rs2240745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	24	29	0	0.6	0	G|0.920;A|0.080	0.080	strong	.	ZNRF4	59	.	NM_181710	exon1	c.G298A	p.V100I	GCAGTGGTACGGG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324602	31324602	+	Missense_Mutation	SNP	T	T	G	rs41562914	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	25	128	0	0.714286	0	T|0.638;G|0.265;C|0.001;A|0.096	0.265	strong	.	HLA-B	54	.	NM_005514	exon2	c.A206C	p.E69A	GGCTCCTCTCTCG	.	PASS	Atlas-SNP
FRY	10129	hgsc.bcm.edu	37	13	32811974	32811974	+	Missense_Mutation	SNP	C	C	T	rs73169136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	44	96	0	0.458333	0	C|0.990;T|0.010	0.010	strong	.	FRY	312	.	NM_023037	exon44	c.C6269T	p.A2090V	TCCAGGCACAGCT	.	PASS	Atlas-SNP
OR10X1	128367	hgsc.bcm.edu	37	1	158549264	158549264	+	Silent	SNP	G	G	A	rs863360	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	284	108	215	0	0.380282	0	G|0.489;A|0.511	0.511	strong	OR10X1,NS,carcinoma,0,1	OR10X1	96	1	NM_001004477	exon1	c.C426T	p.I142I	GTTACAGATGGCC	.	PASS	Atlas-SNP
GZMB	3002	hgsc.bcm.edu	37	14	25100282	25100282	+	Missense_Mutation	SNP	A	A	G	rs2236338	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	221	219	237	0	0.99095	0	A|0.729;G|0.271	0.271	strong	GZMB,NS,carcinoma,0,1	GZMB	73	1	NM_004131	exon5	c.T739C	p.Y247H	GTTAGTAGCGTTT	.	PASS	Atlas-SNP
CD5	921	hgsc.bcm.edu	37	11	60886913	60886913	+	Missense_Mutation	SNP	C	C	T	rs2241002	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	39	75	0	0.573529	0	C|0.799;T|0.201	0.201	strong	.	CD5	52	.	NM_014207	exon5	c.C671T	p.P224L	AAGACCCAGGGGA	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100677279	100677279	+	Missense_Mutation	SNP	G	G	C	rs76184171	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	30	50	0	0.47619	0	G|0.992;C|0.008	0.008	strong	MUC17,colon,carcinoma,+1,9	MUC17	804	9	NM_001040105	exon3	c.G2582C	p.S861T	CTTATAGTGAAGG	.	PASS	Atlas-SNP
C9orf129	445577	hgsc.bcm.edu	37	9	96097673	96097673	+	Silent	SNP	G	G	A	rs62574460	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	339	143	287	0	0.421829	0	G|0.804;A|0.196	0.196	strong	.	C9orf129	18	.	NM_001098808	exon3	c.C348T	p.G116G	TCCGCTGCCCTCG	.	PASS	Atlas-SNP
ZNF333	84449	hgsc.bcm.edu	37	19	14829749	14829749	+	Missense_Mutation	SNP	C	C	T	rs3764626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	83	79	0	0.988095	0	C|0.613;T|0.387	0.387	strong	.	ZNF333	76	.	NM_032433	exon12	c.C1610T	p.A537V	AGTGCGCGACTTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9060656	9060656	+	Silent	SNP	C	C	T	rs2216663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	67	131	0	0.54918	0	C|0.788;T|0.212	0.212	strong	MUC16_ENST00000397910,NS,carcinoma,0,3	MUC16	4315	3	NM_024690	exon3	c.G26790A	p.E8930E	AATTGCCTCTGTC	.	PASS	Atlas-SNP
RAB5C	5878	hgsc.bcm.edu	37	17	40280291	40280291	+	Silent	SNP	G	G	A	rs2230326	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	35	74	0	0.507246	0	G|0.619;T|0.051	.	strong	.	RAB5C	20	.	NM_001252039	exon5	c.C528T	p.A176A	TTCCACGGCTCTC	.	PASS	Atlas-SNP
ARHGEF7	8874	hgsc.bcm.edu	37	13	111870037	111870037	+	Silent	SNP	T	T	C	rs2296354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	73	175	0	0.464968	0	T|0.807;C|0.193	0.193	strong	.	ARHGEF7	157	.	NM_001113511	exon6	c.T543C	p.D181D	GACCGATAATAGC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187522528	187522528	+	Silent	SNP	C	C	T	rs2289550	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	71	130	0	0.489655	0	C|0.934;T|0.066	0.066	strong	FAT1,NS,carcinoma,-1,3	FAT1	500	3	NM_005245	exon21	c.G11535A	p.T3845T	ATTTTCCGTCAGA	.	PASS	Atlas-SNP
SAAL1	113174	hgsc.bcm.edu	37	11	18108512	18108512	+	Missense_Mutation	SNP	T	T	C	rs35525096	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	56	108	0	0.427481	0	T|0.903;C|0.097	0.097	strong	.	SAAL1	34	.	NM_138421	exon9	c.A943G	p.I315V	GAAGAATGATGGG	.	PASS	Atlas-SNP
BMP1	649	hgsc.bcm.edu	37	8	22067022	22067022	+	Silent	SNP	C	C	A	rs77242743	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	42	105	0	0.466667	0	C|0.929;A|0.071	0.071	strong	.	BMP1	131	.	NM_006129	exon19	c.C2640A	p.G880G	GTTTGGCGACAAC	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36700175	36700175	+	Silent	SNP	A	A	G	rs9619601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	62	116	0	0.5	0	A|0.951;G|0.049	0.049	strong	.	MYH9	225	.	NM_002473	exon19	c.T2256C	p.N752N	GTACAGATTGCTG	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	37	12	7966975	7966975	+	Silent	SNP	C	C	T	rs71436622		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	51	163	1	1	0.00613497	T|1.000;|0.000	1.000	weak	SLC2A14,NS,carcinoma,-2,1	SLC2A14	78	1	NM_153449	exon12	c.G1500A	p.G500G	GTCCTTCCCAGAT	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238875	31238875	+	Silent	SNP	G	G	A	rs1131104	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	23	146	0	0.232323	0	G|0.912;A|0.088	0.088	strong	.	HLA-C	92	.	NM_002117	exon3	c.C594T	p.N198N	CTTCCCGTTCTCC	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26732987	26732987	+	Silent	SNP	G	G	A	rs2230376	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	25	46	0	0.520833	0	G|0.794;A|0.206	0.206	strong	.	ITPR2	270	.	NM_002223	exon33	c.C4482T	p.P1494P	TGAAAAGGGAGAA	.	PASS	Atlas-SNP
ASB6	140459	hgsc.bcm.edu	37	9	132400480	132400480	+	Silent	SNP	G	G	A	rs3739851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	20	22	0	1	0	G|0.503;A|0.497	0.497	strong	.	ASB6	31	.	NM_017873	exon6	c.C855T	p.A285A	GTAGGCGGCTCCG	.	PASS	Atlas-SNP
AMER3	205147	hgsc.bcm.edu	37	2	131520178	131520178	+	Missense_Mutation	SNP	C	C	G	rs77687733	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	24	50	0	0.489796	0	C|0.866;G|0.134	0.134	strong	FAM123C,caecum,carcinoma,0,1	.	.	1	NM_152698	exon2	c.C533G	p.A178G	CGCTGGCGGCCGA	.	PASS	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33548175	33548175	+	Silent	SNP	T	T	C	rs41304751	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	155	124	0	1	0	T|0.917;C|0.083	0.083	strong	ANKRD18B,NS,carcinoma,+1,1	ANKRD18B	46	1	NM_001244752	exon9	c.T1200C	p.N400N	GCTTAATGATCTG	.	PASS	Atlas-SNP
CCDC164	92749	hgsc.bcm.edu	37	2	26667130	26667130	+	Missense_Mutation	SNP	A	A	G	rs3795958	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	58	108	0	0.53211	0	A|0.858;G|0.142	0.142	strong	.	CCDC164	84	.	NM_145038	exon9	c.A1069G	p.K357E	TATGCCAAGCAAA	.	PASS	Atlas-SNP
PARP9	83666	hgsc.bcm.edu	37	3	122259640	122259640	+	Missense_Mutation	SNP	T	T	C	rs28365795	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	251	159	168	0	0.633466	0	T|0.867;C|0.133	0.133	strong	.	PARP9	72	.	NM_031458	exon8	c.A1549G	p.I517V	GATTGATGGCAGG	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	37	15	85476441	85476441	+	Silent	SNP	G	G	A	rs2305367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	34	84	0	0.492754	0	G|0.569;A|0.431	0.431	strong	.	SLC28A1	118	.	NM_004213	exon13	c.G1149A	p.K383K	CTCCAAGCTGGTC	.	PASS	Atlas-SNP
FAM35A	54537	hgsc.bcm.edu	37	10	88911830	88911830	+	Missense_Mutation	SNP	C	C	A	rs3129516		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	3	107	1	0.029703	0.00934579	.	.	weak	FAM35A,NS,carcinoma,0,3	FAM35A	48	3	NM_019054	exon3	c.C719A	p.T240K	CTGATACAGAATT	.	scavenged	Atlas-SNP
ZFP41	286128	hgsc.bcm.edu	37	8	144332082	144332082	+	Silent	SNP	T	T	C	rs11136275	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	27	77	0	0.380282	0	T|0.448;C|0.552	0.552	strong	.	ZFP41	25	.	NM_173832	exon2	c.T69C	p.S23S	GAAGAGTGCGCTC	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47811272	47811272	+	Silent	SNP	C	C	T	rs3737438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	64	81	0	0.561404	0	C|0.650;T|0.350	0.350	strong	PCNT,NS,carcinoma,0,1	PCNT	283	1	NM_006031	exon21	c.C4197T	p.D1399D	CACGGACGCCGAG	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82817843	82817843	+	Missense_Mutation	SNP	C	C	G	rs374590975		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	68	159	0	0.444444	0	.	.	weak	.	VCAN	498	.	NM_004385	exon7	c.C3718G	p.P1240A	AGGGAACCTGGTG	.	PASS	Atlas-SNP
MRPL54	116541	hgsc.bcm.edu	37	19	3767265	3767265	+	Silent	SNP	C	C	T	rs7239	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	60	67	0	1	0	C|0.442;T|0.558	0.558	strong	.	MRPL54	9	.	NM_172251	exon3	c.C291T	p.F97F	GCTGTTCGAGATG	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50407162	50407162	+	Silent	SNP	T	T	C	rs6021437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	84	168	0	0.491228	0	T|0.668;C|0.332	0.332	strong	.	SALL4	168	.	NM_020436	exon2	c.A1860G	p.T620T	AATGGATGTGTTG	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45024581	45024581	+	Silent	SNP	C	C	G	rs12982449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	33	82	0	0.492537	0	C|0.617;G|0.383	0.383	strong	.	CEACAM20	31	.	NM_001102600	exon5	c.G957C	p.T319T	GGGCCCCGTGTCA	.	PASS	Atlas-SNP
CEP290	80184	hgsc.bcm.edu	37	12	88472996	88472996	+	Missense_Mutation	SNP	C	C	T	rs61941020	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	28	39	0	0.538462	0	C|0.996;T|0.004	0.004	strong	.	CEP290	195	.	NM_025114	exon39	c.G5237A	p.R1746Q	AGTGCCCGACTAA	.	PASS	Atlas-SNP
OR2G2	81470	hgsc.bcm.edu	37	1	247752367	247752367	+	Missense_Mutation	SNP	A	A	G	rs869111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	115	231	1	0.577889	0.004329	A|0.573;G|0.426	0.426	strong	.	OR2G2	88	.	NM_001001915	exon1	c.A706G	p.R236G	GCTACCAGGAGAC	.	PASS	Atlas-SNP
ABCA1	19	hgsc.bcm.edu	37	9	107562804	107562804	+	Missense_Mutation	SNP	T	T	C	rs2230808	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	67	136	0	0.446667	0	T|0.422;C|0.578	0.578	strong	.	ABCA1	244	.	NM_005502	exon35	c.A4760G	p.K1587R	TTATTTTTGGTGT	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183108	11183108	+	Missense_Mutation	SNP	G	G	C	rs74807793	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	266	253	276	0	0.951128	0	.	.	weak	.	TAS2R31	24	.	NM_176885	exon1	c.C827G	p.P276R	ATGAATGGGTGGA	.	PASS	Atlas-SNP
LRRC66	339977	hgsc.bcm.edu	37	4	52862020	52862020	+	Missense_Mutation	SNP	C	C	G	rs202189181	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	69	103	0	0.539062	0	.	.	weak	.	LRRC66	128	.	NM_001024611	exon4	c.G1168C	p.A390P	TGAAGGCGACAAG	.	PASS	Atlas-SNP
A4GNT	51146	hgsc.bcm.edu	37	3	137843106	137843106	+	Silent	SNP	T	T	C	rs2170309	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	94	58	0	0.979167	0	T|0.339;C|0.661	0.661	strong	.	A4GNT	42	.	NM_016161	exon3	c.A1023G	p.X341X	TTAGCTTTATTTG	.	PASS	Atlas-SNP
UNC5B	219699	hgsc.bcm.edu	37	10	73046617	73046617	+	Missense_Mutation	SNP	A	A	G	rs34957097	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	27	69	0	0.465517	0	A|0.963;G|0.037	0.037	strong	.	UNC5B	123	.	NM_001244889	exon5	c.A724G	p.I242V	ACCGTCATCGTCT	.	PASS	Atlas-SNP
UROS	7390	hgsc.bcm.edu	37	10	127484721	127484721	+	Missense_Mutation	SNP	A	A	G	rs17173752	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	62	145	0	0.473282	0	A|0.994;C|0.006	.	alt	.	UROS	20	.	NM_000375	exon8	c.T512C	p.V171A	TGTGCAACTGTCT	.	PASS	Atlas-SNP
TMEM132A	54972	hgsc.bcm.edu	37	11	60701176	60701176	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	21	44	0	0.411765	0	.	.	none	.	TMEM132A	135	.	NM_017870	exon8	c.G1522A	p.E508K	ACCCTCGAGCAGG	.	PASS	Atlas-SNP
STEAP2	261729	hgsc.bcm.edu	37	7	89856644	89856644	+	Silent	SNP	C	C	T	rs2016903	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	82	140	0	0.532468	0	C|0.869;T|0.131	0.131	strong	STEAP2_ENST00000394626,NS,adenoma,0,2	STEAP2	78	2	NM_001244946	exon4	c.C852T	p.Y284Y	TTATTACGGCACC	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122361711	122361711	+	Missense_Mutation	SNP	C	C	T	rs34703321	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	36	62	0	0.48	0	C|0.995;T|0.005	0.005	strong	.	WDR66	143	.	NM_001178003	exon3	c.C562T	p.R188W	ACCGACCGGATGC	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42882620	42882620	+	Silent	SNP	C	C	T	rs17521586	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	26	68	0	0.490566	0	C|0.882;T|0.118	0.118	strong	.	AKAP11	146	.	NM_016248	exon9	c.C5148T	p.T1716T	GTCAACCGAGTCT	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207787796	207787796	+	Missense_Mutation	SNP	T	T	C	rs61822976	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	196	12	160	0	0.0612245	0	.	.	weak	CR1_ENST00000367049,NS,carcinoma,0,4	CR1	354	4	NM_000651	exon40	c.T6623C	p.M2208T	CTGGAATGAAAGC	.	PASS	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239038912	239038912	+	Silent	SNP	T	T	C	rs57813708	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	79	110	0	0.5	0	T|0.748;C|0.252	0.252	strong	.	ESPNL	63	.	NM_194312	exon9	c.T1557C	p.L519L	GCAGCTTCGGCGC	.	PASS	Atlas-SNP
LDB3	11155	hgsc.bcm.edu	37	10	88446985	88446985	+	Silent	SNP	T	T	C	rs76615432	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	65	117	0	0.467626	0	T|0.954;C|0.046	0.046	strong	.	LDB3	164	.	NM_001171610	exon6	c.T849C	p.D283D	CATGGATGCCATC	.	PASS	Atlas-SNP
SRSF9	8683	hgsc.bcm.edu	37	12	120907271	120907271	+	Silent	SNP	G	G	T	rs11548262	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	23	44	0	0.469388	0	G|0.918;T|0.082	0.082	strong	SRSF9,colon,carcinoma,0,1	SRSF9	14	1	NM_003769	exon1	c.C142A	p.R48R	CGTGCCGGTTCTT	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36869769	36869769	+	Missense_Mutation	SNP	C	C	T	rs41282824	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	74	150	1	0.517483	0.00666667	C|0.961;T|0.039	0.039	strong	KIAA1755,colon,carcinoma,0,1	KIAA1755	145	1	NM_001029864	exon3	c.G764A	p.R255Q	CCACACCGGGCTT	.	scavenged	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21064203	21064203	+	Missense_Mutation	SNP	G	G	A	rs1801982		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	600	10	532	4	0.0166667	0.0075188	.	.	weak	PI4KA_ENST00000255882,trunk,malignant_melanoma,0,4	PI4KA	313	4	NM_058004	exon53	c.C6166T	p.L2056F	TCAAGAGCTTGAT	.	scavenged	Atlas-SNP
ZNF12	7559	hgsc.bcm.edu	37	7	6732315	6732315	+	Missense_Mutation	SNP	A	A	C	rs61227179	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	139	139	0	0.658768	0	A|0.942;C|0.058	0.058	strong	.	ZNF12	53	.	NM_016265	exon5	c.T258G	p.D86E	TAGGTCATCAGTT	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373111	5373111	+	Missense_Mutation	SNP	G	G	A	rs7479477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	61	170	0	0.352601	0	G|0.768;A|0.232	0.232	strong	.	OR51B6	53	.	NM_001004750	exon1	c.G374A	p.R125H	CCATCCGCAGCCC	.	PASS	Atlas-SNP
NOBOX	135935	hgsc.bcm.edu	37	7	144107279	144107279	+	Silent	SNP	A	A	G	rs1208179	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	93	207	2	0.479381	0.00966184	A|0.900;G|0.100	0.100	strong	NOBOX_ENST00000467773,NS,carcinoma,0,4	NOBOX	130	4	NM_001080413	exon1	c.T42C	p.G14G	CCAGGTACCCTCC	.	scavenged	Atlas-SNP
TMBIM4	51643	hgsc.bcm.edu	37	12	66546100	66546100	+	Missense_Mutation	SNP	A	A	G	rs8793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	160	122	0	0.993789	0	G|0.478;N|0.000	0.478	strong	.	TMBIM4	47	.	NM_016056	exon3	c.T263C	p.I88T	TTTAAAATCAACG	.	PASS	Atlas-SNP
SHF	90525	hgsc.bcm.edu	37	15	45491136	45491136	+	Missense_Mutation	SNP	C	C	G	rs62026667	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	42	76	0	0.482759	0	C|0.938;G|0.062	0.062	strong	.	SHF	27	.	NM_138356	exon2	c.G137C	p.W46S	AGCATCCAGGAAT	.	PASS	Atlas-SNP
AGT	183	hgsc.bcm.edu	37	1	230845794	230845794	+	Missense_Mutation	SNP	A	A	G	rs699	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	73	91	0	0.973333	0	T|0.033;G|0.557	0.557	strong	AGT,rectum,carcinoma,0,2	AGT	62	2	NM_000029	exon2	c.T803C	p.M268T	GCTCCCATCAGGG	.	PASS	Atlas-SNP
WWC2	80014	hgsc.bcm.edu	37	4	184203886	184203886	+	Missense_Mutation	SNP	G	G	C	rs3814422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	24	56	0	0.358209	0	G|0.747;C|0.253	0.253	strong	WWC2,colon,carcinoma,0,1	WWC2	78	1	NM_024949	exon18	c.G2710C	p.D904H	GCCTCTGATGAAA	.	PASS	Atlas-SNP
SMC1A	8243	hgsc.bcm.edu	37	X	53407996	53407996	+	Silent	SNP	G	G	A	rs142611198	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	103	75	0	0.971698	0	G|0.999;A|0.001	0.001	strong	.	SMC1A	112	.	NM_006306	exon23	c.C3450T	p.A1150A	GAAGGGGGCTGGC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324921	31324921	+	Silent	SNP	C	C	T	rs1050459	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	26	125	0	0.553191	0	C|0.873;T|0.127	0.127	strong	.	HLA-B	54	.	NM_005514	exon1	c.G15A	p.A5A	TCGGGGCGCCATG	.	PASS	Atlas-SNP
BAG3	9531	hgsc.bcm.edu	37	10	121429633	121429633	+	Missense_Mutation	SNP	T	T	C	rs2234962	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	29	54	0	0.527273	0	T|0.867;C|0.133	0.133	strong	.	BAG3	42	.	NM_004281	exon2	c.T451C	p.C151R	AAACAGTGTGGAC	.	PASS	Atlas-SNP
FOXN2	3344	hgsc.bcm.edu	37	2	48602252	48602252	+	Silent	SNP	C	C	T	rs17855177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	82	191	1	0.546667	0.0052356	C|0.730;T|0.270	0.270	strong	.	FOXN2	39	.	NM_002158	exon7	c.C966T	p.S322S	GTCTTCCCTGTCT	.	PASS	Atlas-SNP
WBP2NL	164684	hgsc.bcm.edu	37	22	42423110	42423110	+	Missense_Mutation	SNP	G	G	C	rs2301521	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	66	43	0	0.970588	0	G|0.245;C|0.755	0.755	strong	.	WBP2NL	24	.	NM_152613	exon6	c.G855C	p.Q285H	GCCTCAGGAATCT	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7229346	7229346	+	Silent	SNP	T	T	C	rs2714315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	39	70	0	0.541667	0	T|0.555;C|0.445	0.445	strong	.	RREB1	242	.	NM_001003700	exon10	c.T1014C	p.H338H	GACCCATGTGGCG	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2957005	2957005	+	Silent	SNP	T	T	C	rs3735124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	9	25	0	0.183673	0	T|0.633;C|0.367	0.367	strong	.	CARD11	339	.	NM_032415	exon20	c.A2622G	p.P874P	TTCTTCTGGCTGC	.	PASS	Atlas-SNP
ADRB2	154	hgsc.bcm.edu	37	5	148206440	148206440	+	Missense_Mutation	SNP	G	G	A	rs1042713	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	37	90	0	0.506849	0	G|0.576;A|0.424	0.424	strong	.	ADRB2	42	.	NM_000024	exon1	c.G46A	p.G16R	CCCAATGGAAGCC	.	PASS	Atlas-SNP
C15orf39	56905	hgsc.bcm.edu	37	15	75498744	75498744	+	Missense_Mutation	SNP	G	G	C	rs1873379	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	54	90	0	0.473684	0	G|0.828;C|0.172	0.172	strong	C15orf39,NS,carcinoma,0,1	C15orf39	64	1	NM_015492	exon2	c.G355C	p.A119P	CCCCAGGCTCACT	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64408852	64408852	+	Silent	SNP	G	G	C	rs33976862	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	16	42	0	0.347826	0	G|0.904;C|0.096	0.096	strong	SYNE2,NS,carcinoma,0,1	SYNE2	577	1	NM_182914	exon6	c.G399C	p.L133L	TATCCTGCACTTT	.	PASS	Atlas-SNP
TOP2B	7155	hgsc.bcm.edu	37	3	25639849	25639849	+	Silent	SNP	A	A	G	rs11548723	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	84	107	0	0.626866	0	A|0.977;G|0.023	0.023	strong	.	TOP2B	98	.	NM_001068	exon36	c.T4815C	p.F1605F	CTCTGCAAAATAT	.	PASS	Atlas-SNP
KCNK18	338567	hgsc.bcm.edu	37	10	118957027	118957027	+	Missense_Mutation	SNP	A	A	G	rs67346047	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	28	69	0	0.474576	0	A|0.941;G|0.059	0.059	strong	.	KCNK18	70	.	NM_181840	exon1	c.A28G	p.R10G	CAGGCCAGGAGAT	.	PASS	Atlas-SNP
QRFPR	84109	hgsc.bcm.edu	37	4	122301622	122301622	+	Missense_Mutation	SNP	A	A	C	rs17438900	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	84	178	0	0.521739	0	A|0.852;C|0.147	0.147	strong	QRFPR,NS,carcinoma,0,1	QRFPR	65	1	NM_198179	exon1	c.T181G	p.F61V	TGCCAAAGAGCGC	.	PASS	Atlas-SNP
CHD2	1106	hgsc.bcm.edu	37	15	93557954	93557954	+	Missense_Mutation	SNP	G	G	C	rs56227200	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	43	79	0	0.409524	0	G|0.981;C|0.019	0.019	strong	.	CHD2	280	.	NM_001271	exon37	c.G4721C	p.G1574A	TGACTGGGGGTAA	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136291361	136291361	+	Silent	SNP	C	C	T	rs34054981	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	22	53	0	0.423077	0	C|0.942;T|0.058	0.058	strong	.	ADAMTS13	113	.	NM_139026	exon6	c.C582T	p.G194G	GCGGGGCGTCACC	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79028472	79028472	+	Missense_Mutation	SNP	C	C	T	rs4704585	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	81	149	0	0.509434	0	C|0.428;T|0.572	0.572	strong	.	CMYA5	643	.	NM_153610	exon2	c.C3884T	p.A1295V	CTGAGGCTTTATC	.	PASS	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	37	2	207174559	207174559	+	Silent	SNP	A	A	G	rs13408088	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	54	109	0	0.473684	0	A|0.970;G|0.030	0.030	strong	.	ZDBF2	531	.	NM_020923	exon5	c.A5307G	p.K1769K	TAAGAAAAGACAC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31322910	31322910	+	Missense_Mutation	SNP	G	G	A	rs74189305	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	5	88	2	0.0423729	0.0227273	.	.	weak	HLA-B,NS,carcinoma,-1,7	HLA-B	54	7	NM_005514	exon5	c.C986T	p.A329V	ATCACAGCAGCGA	.	scavenged	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127216378	127216378	+	Splice_Site	SNP	T	T	C	rs118108631	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	36	58	1	0.521739	0.0172414	T|0.993;C|0.007	0.007	strong	GPR144,NS,carcinoma,0,1	GPR144	33	1	NM_001161808	exon5	c.1078+2T>C	.	GACAGGTGCGCCC	.	scavenged	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	37	7	135333172	135333172	+	Silent	SNP	C	C	T	rs61740269	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	32	34	0	0.744186	0	C|0.954;T|0.046	0.046	strong	.	NUP205	198	.	NM_015135	exon43	c.C5907T	p.N1969N	AATCAACGCTTTT	.	PASS	Atlas-SNP
DLG5	9231	hgsc.bcm.edu	37	10	79584178	79584178	+	Silent	SNP	G	G	C	rs1248629	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	30	77	0	0.447761	0	G|0.288;C|0.712	0.712	strong	.	DLG5	154	.	NM_004747	exon14	c.C2346G	p.R782R	GCAGCTGCGCAGC	.	PASS	Atlas-SNP
B4GALNT1	2583	hgsc.bcm.edu	37	12	58024278	58024278	+	Missense_Mutation	SNP	C	C	G	rs810205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	47	87	0	0.516484	0	C|0.966;G|0.034	0.034	strong	.	B4GALNT1	53	.	NM_001478	exon5	c.T514C	p.X172Q	CCTGACCAGAAGC	.	PASS	Atlas-SNP
RAD18	56852	hgsc.bcm.edu	37	3	8955389	8955389	+	Missense_Mutation	SNP	C	C	T	rs373572	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	212	209	143	0	0.985849	0	T|0.661;G|0.003	0.661	strong	.	RAD18	52	.	NM_020165	exon8	c.G905A	p.R302Q	ATTTCTCGAACTA	.	PASS	Atlas-SNP
HOGA1	112817	hgsc.bcm.edu	37	10	99371344	99371344	+	Silent	SNP	C	C	A	rs12261752	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	33	67	0	0.428571	0	C|0.700;A|0.300	0.300	strong	HOGA1,colon,carcinoma,+2,1	HOGA1	25	1	NM_138413	exon7	c.C912A	p.A304A	CCGCGCCCCCTTG	.	PASS	Atlas-SNP
SEC61A2	55176	hgsc.bcm.edu	37	10	12191933	12191933	+	Silent	SNP	C	C	T	rs10466280	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	37	66	0	0.596774	0	C|0.580;T|0.420	0.420	strong	.	SEC61A2	48	.	NM_001142627	exon6	c.C435T	p.A145A	GGGTGCCGGAATC	.	PASS	Atlas-SNP
MYRIP	25924	hgsc.bcm.edu	37	3	40275461	40275461	+	Missense_Mutation	SNP	C	C	T	rs34800524	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	56	88	0	0.424242	0	C|0.942;T|0.058	0.058	strong	.	MYRIP	98	.	NM_015460	exon12	c.C2017T	p.P673S	CAAGTCCCTCCTG	.	PASS	Atlas-SNP
TAS2R38	5726	hgsc.bcm.edu	37	7	141673345	141673345	+	Missense_Mutation	SNP	C	C	G	rs713598	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	25	64	0	0.462963	0	C|0.528;G|0.472	0.472	strong	.	TAS2R38	51	.	NM_176817	exon1	c.G145C	p.A49P	TCAGTGCCTGCCT	.	PASS	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602928	5602928	+	Silent	SNP	G	G	C	rs10838375	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	197	213	2	1	0.00938967	A|0.000;C|0.633;G|0.366	0.633	strong	.	OR52B6	37	.	NM_001005162	exon1	c.G822C	p.A274A	CCCTGCGCTTTTT	.	PASS	Atlas-SNP
KRT76	51350	hgsc.bcm.edu	37	12	53167395	53167395	+	Missense_Mutation	SNP	C	C	T	rs11170271	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	39	91	0	0.506494	0	C|0.817;T|0.183	0.183	strong	KRT76,NS,carcinoma,0,1	KRT76	72	1	NM_015848	exon3	c.G847A	p.A283T	TCTCTGCGGCAGT	.	PASS	Atlas-SNP
FAM160A2	84067	hgsc.bcm.edu	37	11	6238960	6238960	+	Missense_Mutation	SNP	C	C	A	rs3750943	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	26	78	0	0.541667	0	C|0.853;A|0.147	0.147	strong	.	FAM160A2	100	.	NM_032127	exon9	c.G1898T	p.R633L	CCAGCCCGCCCCC	.	PASS	Atlas-SNP
PROS1	5627	hgsc.bcm.edu	37	3	93593119	93593119	+	Silent	SNP	T	T	C	rs6123	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	360	119	260	0	0.330556	0	T|0.649;C|0.351	0.351	strong	.	PROS1	126	.	NM_000313	exon15	c.A2001G	p.P667P	AACTGATGGACAT	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29812602	29812602	+	Silent	SNP	G	G	T	rs7070678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	51	114	0	0.485714	0	G|0.584;T|0.416	0.416	strong	SVIL,colon,carcinoma,0,1	SVIL	226	1	NM_021738	exon15	c.C2941A	p.R981R	TGGCTCGGTTCAG	.	PASS	Atlas-SNP
PSD4	23550	hgsc.bcm.edu	37	2	113953346	113953346	+	Missense_Mutation	SNP	G	G	A	rs370284646		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	11	74	0	0.192982	0	.	.	weak	.	PSD4	74	.	NM_012455	exon11	c.G2224A	p.V742M	TGGGCCGTGTGAG	.	PASS	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	37	18	76753768	76753768	+	Missense_Mutation	SNP	C	C	G	rs2447437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	6	6	0	0	1	.	C|0.211;G|0.789	0.789	strong	SALL3,NS,carcinoma,0,1	SALL3	162	1	NM_171999	exon2	c.C1777G	p.L593V	CCGCCCCTCACTA	.	PASS	Atlas-SNP
ABCB11	8647	hgsc.bcm.edu	37	2	169789016	169789016	+	Silent	SNP	T	T	C	rs497692	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	57	112	0	0.459677	0	T|0.519;C|0.481	0.481	strong	ABCB11,colon,carcinoma,-1,2	ABCB11	136	2	NM_003742	exon24	c.A3084G	p.A1028A	AGCTGTTGCACTC	.	PASS	Atlas-SNP
MARCH7	64844	hgsc.bcm.edu	37	2	160604812	160604812	+	Silent	SNP	C	C	T	rs1427329	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	91	90	0	0.98913	0	C|0.649;T|0.351	0.351	strong	MARCH7,NS,haematopoietic_neoplasm,+2,1	MARCH7	48	1	NM_022826	exon5	c.C1011T	p.P337P	AGTTCCCGATAAT	.	PASS	Atlas-SNP
DHRS4L2	317749	hgsc.bcm.edu	37	14	24459520	24459520	+	Silent	SNP	T	T	C	rs61738427	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	96	170	0	0.989691	0	T|0.868;C|0.132	0.132	strong	DHRS4L2,colon,carcinoma,0,1	DHRS4L2	29	1	NM_198083	exon2	c.T258C	p.T86T	GGGCACTGTGTGC	.	PASS	Atlas-SNP
ZNF410	57862	hgsc.bcm.edu	37	14	74388908	74388908	+	Silent	SNP	T	T	C	rs1127392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	54	115	0	0.446281	0	A|0.000;C|0.298;T|0.702	0.298	strong	.	ZNF410	25	.	NM_001242924	exon11	c.T1320C	p.D440D	TGATGATGGTAAG	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7664239	7664239	+	Silent	SNP	C	C	T	rs12185237	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	58	138	0	0.389262	0	C|0.971;T|0.029	0.029	strong	.	DNAH2	498	.	NM_020877	exon17	c.C2967T	p.A989A	TGTTGCCGACATT	.	PASS	Atlas-SNP
RNF32	140545	hgsc.bcm.edu	37	7	156469123	156469123	+	Missense_Mutation	SNP	G	G	A	rs2302148	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	30	87	0	0.441176	0	G|0.941;A|0.059	0.059	strong	.	RNF32	77	.	NM_001184996	exon9	c.G863A	p.R288Q	TGCGCCGGGAGAC	.	PASS	Atlas-SNP
IL18	3606	hgsc.bcm.edu	37	11	112020916	112020916	+	Silent	SNP	T	T	G	rs549908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	30	57	0	0.483871	0	T|0.780;G|0.220	0.220	strong	.	IL18	10	.	NM_001562	exon4	c.A105C	p.S35S	GTAATCTGATTCC	.	PASS	Atlas-SNP
NUP107	57122	hgsc.bcm.edu	37	12	69113184	69113184	+	Silent	SNP	C	C	T	rs35209116	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	77	146	0	0.534722	0	C|0.996;T|0.004	0.004	strong	.	NUP107	88	.	NM_020401	exon13	c.C1147T	p.L383L	TGGAAACTGTACC	.	PASS	Atlas-SNP
COMP	1311	hgsc.bcm.edu	37	19	18897440	18897440	+	Missense_Mutation	SNP	T	T	C	rs61739916	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	64	122	0	0.474074	0	T|0.969;C|0.031	0.031	strong	.	COMP	62	.	NM_000095	exon11	c.A1156G	p.N386D	GGCAGTTGTCGGC	.	PASS	Atlas-SNP
TYR	7299	hgsc.bcm.edu	37	11	88911575	88911575	+	Missense_Mutation	SNP	C	C	T	rs145513733	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	61	0	0.506667	0	C|0.999;T|0.001	0.001	strong	.	TYR	130	.	NM_000372	exon1	c.C454T	p.P152S	GTCATCCCCATAG	.	PASS	Atlas-SNP
BTBD16	118663	hgsc.bcm.edu	37	10	124096014	124096014	+	Missense_Mutation	SNP	A	A	G	rs150944464	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	17	76	0	0.269841	0	A|0.990;G|0.010	0.010	strong	.	BTBD16	44	.	NM_144587	exon15	c.A1269G	p.I423M	GAGAATAAAGCAC	.	PASS	Atlas-SNP
RRN3	54700	hgsc.bcm.edu	37	16	15188018	15188018	+	Missense_Mutation	SNP	C	C	T	rs141593500	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	60	124	0	0.5	0	C|1.000;T|0.000	0.000	weak	.	RRN3	36	.	NM_018427	exon1	c.G73A	p.G25S	ACGCGCCCAGCTT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1537956	1537956	+	Missense_Mutation	SNP	C	C	G	rs144904207	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	25	43	0	0.520833	0	C|0.998;G|0.002	0.002	strong	.	PTX4	46	.	NM_001013658	exon2	c.G142C	p.E48Q	TCACCTCCTGGAA	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150905485	150905485	+	Silent	SNP	C	C	T	rs36092108	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	37	58	0	0.536232	0	C|0.954;T|0.046	0.046	strong	.	FAT2	465	.	NM_001447	exon17	c.G10350A	p.L3450L	GTCACTCAGGATC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228476420	228476420	+	Silent	SNP	C	C	T	rs56367754	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	56	85	0	0.495575	0	C|0.995;T|0.005	0.005	strong	OBSCN_ENST00000570156,colon,carcinoma,+1,4	OBSCN	2142	4	NM_001271223	exon43	c.C11457T	p.P3819P	GGCCCCCGTGGAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9024994	9024994	+	Missense_Mutation	SNP	C	C	T	rs67631215	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	43	48	0	0.5375	0	C|0.686;T|0.314	0.314	strong	MUC16_ENST00000397910,NS,carcinoma,0,1	MUC16	4315	1	NM_024690	exon16	c.G36868A	p.E12290K	CTTTCTCGGGCCT	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16291971	16291971	+	Silent	SNP	C	C	T	rs9940825	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	61	90	0	0.554545	0	C|0.732;T|0.268	0.268	strong	.	ABCC6	110	.	NM_001171	exon10	c.G1245A	p.V415V	CACGTCCACGGAC	.	PASS	Atlas-SNP
SGTA	6449	hgsc.bcm.edu	37	19	2767192	2767192	+	Silent	SNP	G	G	T	rs1128925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	22	76	0	0.289474	0	G|0.780;T|0.220	0.220	strong	.	SGTA	19	.	NM_003021	exon4	c.C234A	p.P78P	TCGCGCGGGGCTC	.	PASS	Atlas-SNP
COBL	23242	hgsc.bcm.edu	37	7	51093049	51093049	+	Silent	SNP	C	C	T	rs1129262	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	31	87	0	0.224638	0	C|0.993;T|0.007	0.007	strong	COBL,NS,haematopoietic_neoplasm,0,1	COBL	167	1	NM_015198	exon12	c.G3525A	p.E1175E	GAGCTCCTCAGAA	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419746	28419746	+	Silent	SNP	G	G	A	rs139335991	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	284	32	239	0	0.112676	0	G|0.942;A|0.058	0.058	strong	.	HERC2	501	.	NM_004667	exon65	c.C9852T	p.N3284N	GTGGTCGTTGTCA	.	PASS	Atlas-SNP
EXOSC10	5394	hgsc.bcm.edu	37	1	11137661	11137661	+	Silent	SNP	A	A	G	rs2273339	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	21	73	0	0.403846	0	A|0.930;G|0.070	0.070	strong	EXOSC10,NS,carcinoma,0,1	EXOSC10	59	1	NM_001001998	exon15	c.T1797C	p.A599A	TACCTCAGCACTG	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126219706	126219706	+	Silent	SNP	A	A	G	rs3829851	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	18	55	0	0.346154	0	A|0.943;G|0.057	0.057	strong	DENND1A,NS,carcinoma,0,1	DENND1A	112	1	NM_024820	exon15	c.T1107C	p.D369D	TCGACCATCAATA	.	PASS	Atlas-SNP
TXNDC2	84203	hgsc.bcm.edu	37	18	9887429	9887429	+	Missense_Mutation	SNP	C	C	T	rs2240908	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	29	67	0	0.517857	0	C|0.809;T|0.191	0.191	strong	.	TXNDC2	168	.	NM_001098529	exon2	c.C953T	p.P318L	AGTCCCCAGAAGA	.	PASS	Atlas-SNP
ADCY2	108	hgsc.bcm.edu	37	5	7743787	7743787	+	Silent	SNP	C	C	T	rs62342477	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	75	181	0	0.436047	0	C|0.541;T|0.459	0.459	strong	ADCY2,bladder,carcinoma,+1,1	ADCY2	337	1	NM_020546	exon15	c.C1878T	p.S626S	AACGTCCGTCCTG	.	PASS	Atlas-SNP
FCAMR	83953	hgsc.bcm.edu	37	1	207140440	207140440	+	Silent	SNP	C	C	T	rs11119933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	38	87	0	0.413043	0	C|0.778;T|0.222	0.222	strong	FCAMR,NS,carcinoma,0,1	FCAMR	125	1	NM_001170631	exon3	c.G126A	p.A42A	CCATCCCGCCCTC	.	PASS	Atlas-SNP
C12orf5	57103	hgsc.bcm.edu	37	12	4459032	4459032	+	Silent	SNP	G	G	A	rs7309402	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	110	117	0	1	0	G|0.742;A|0.258	0.258	strong	.	C12orf5	28	.	NM_020375	exon4	c.G240A	p.T80T	TATGACGGTAAAG	.	PASS	Atlas-SNP
HAS3	3038	hgsc.bcm.edu	37	16	69143481	69143481	+	Silent	SNP	T	T	G	rs2232227	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	40	49	0	0.470588	0	T|0.913;G|0.087	0.087	strong	.	HAS3	61	.	NM_138612	exon2	c.T183G	p.L61L	GAGCCTTTTTGCC	.	PASS	Atlas-SNP
KRT3	3850	hgsc.bcm.edu	37	12	53185492	53185492	+	Missense_Mutation	SNP	C	C	T	rs61929765	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	64	142	0	0.395062	0	C|0.907;T|0.093	0.093	strong	.	KRT3	65	.	NM_057088	exon6	c.G1297A	p.E433K	CACCCTCGATCTC	.	PASS	Atlas-SNP
HID1	283987	hgsc.bcm.edu	37	17	72949167	72949167	+	Silent	SNP	T	T	C	rs2307011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	66	115	0	0.464789	0	T|0.841;C|0.159	0.159	strong	.	.	.	.	NM_030630	exon16	c.A1986G	p.A662A	CCTCCATGCCTGG	.	PASS	Atlas-SNP
KCNA7	3743	hgsc.bcm.edu	37	19	49573438	49573438	+	Missense_Mutation	SNP	A	A	G	rs1017219	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	30	55	0	0.5	0	A|0.619;G|0.381	0.381	strong	.	KCNA7	30	.	NM_031886	exon2	c.T1253C	p.M418T	GGCTGCATGTCCA	.	PASS	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	37	12	121442241	121442241	+	Silent	SNP	C	C	T	rs73214128	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	48	95	0	0.470588	0	C|0.960;T|0.040	0.040	strong	.	C12orf43	30	.	NM_022895	exon6	c.G504A	p.A168A	GTCGGACGCCGAC	.	PASS	Atlas-SNP
C16orf59	80178	hgsc.bcm.edu	37	16	2511114	2511114	+	Missense_Mutation	SNP	G	G	A	rs199831316	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	22	36	0	0.578947	0	G|0.997;A|0.003	0.003	strong	.	C16orf59	13	.	NM_025108	exon4	c.G494A	p.R165H	GGACCCGTGTTGG	.	PASS	Atlas-SNP
GBP1	2633	hgsc.bcm.edu	37	1	89521841	89521841	+	Missense_Mutation	SNP	G	G	C	rs61746650	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	293	131	284	0	0.447099	0	G|0.208;C|0.792	0.792	strong	.	GBP1	68	.	NM_002053	exon8	c.C1226G	p.A409G	AGTAAAGCTGAGC	.	PASS	Atlas-SNP
FRY	10129	hgsc.bcm.edu	37	13	32785086	32785086	+	Silent	SNP	G	G	A	rs798981	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	36	65	0	0.404494	0	G|0.632;A|0.368	0.368	strong	FRY,NS,carcinoma,0,1	FRY	312	1	NM_023037	exon34	c.G4506A	p.E1502E	GACAGAGCCCGTG	.	PASS	Atlas-SNP
LRPAP1	4043	hgsc.bcm.edu	37	4	3516560	3516560	+	Silent	SNP	G	G	A	rs11549512	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	61	96	0	0.488	0	G|0.971;A|0.029	0.029	strong	.	LRPAP1	29	.	NM_002337	exon7	c.C930T	p.S310S	GCCCACGCTCTCT	.	PASS	Atlas-SNP
A2ML1	144568	hgsc.bcm.edu	37	12	8975901	8975901	+	Silent	SNP	C	C	T	rs17792974	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	28	50	0	0.444444	0	C|0.909;T|0.091	0.091	strong	.	A2ML1	199	.	NM_144670	exon2	c.C186T	p.T62T	CAAGACCCAGAAG	.	PASS	Atlas-SNP
FITM2	128486	hgsc.bcm.edu	37	20	42939693	42939693	+	Missense_Mutation	SNP	C	C	T	rs148377517	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	78	114	0	0.503226	0	C|0.991;T|0.009	0.009	strong	.	FITM2	15	.	NM_001080472	exon1	c.G96A	p.M32I	CGCCAGCATGGAG	.	PASS	Atlas-SNP
RICTOR	253260	hgsc.bcm.edu	37	5	38955796	38955796	+	Missense_Mutation	SNP	G	G	A	rs2043112	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	34	100	0	0.395349	0	G|0.620;N|0.000	.	strong	.	RICTOR	182	.	NM_152756	exon26	c.C2510T	p.S837F	TATTTGGAGTTGT	.	PASS	Atlas-SNP
PSCA	8000	hgsc.bcm.edu	37	8	143763547	143763547	+	Silent	SNP	C	C	A	rs1045531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	13	35	0	0.40625	0	C|0.584;A|0.416	0.416	strong	.	PSCA	9	.	NM_005672	exon3	c.C342A	p.L114L	CCAGCTCTAGGCT	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70160338	70160338	+	Silent	SNP	G	G	C	rs72552703	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	25	59	0	0.333333	0	G|0.792;C|0.208	0.208	strong	.	UGT2B28	101	.	NM_053039	exon6	c.G1401C	p.V467V	ATTTGTGATGTGC	.	PASS	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	37	4	11401087	11401087	+	Silent	SNP	A	A	G	rs1047389	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	96	0	1	0	G|0.241;N|0.000	0.241	strong	.	HS3ST1	41	.	NM_005114	exon2	c.T543C	p.D181D	CCTGCCATCGCGC	.	PASS	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	37	10	134997480	134997480	+	Silent	SNP	C	C	T	rs57510763	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	71	71	0	1	0	C|0.611;T|0.389	0.389	strong	.	KNDC1	155	.	NM_152643	exon5	c.C612T	p.F204F	GTCCTTCGGAGCG	.	PASS	Atlas-SNP
CNTNAP3B	728577	hgsc.bcm.edu	37	9	43685357	43685357	+	Missense_Mutation	SNP	C	C	A	rs4879079	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	18	58	0	0.206897	0	C|0.500;A|0.500	0.500	strong	CNTNAP3B,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	CNTNAP3B	37	1	NM_001201380	exon1	c.C63A	p.S21R	TTGGAGCCCCGTA	.	scavenged	Atlas-SNP
C3orf30	152405	hgsc.bcm.edu	37	3	118866376	118866376	+	Missense_Mutation	SNP	C	C	T	rs56317615	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	104	106	0	0.654088	0	C|0.766;T|0.234	0.234	strong	.	C3orf30	64	.	NM_152539	exon1	c.C1340T	p.S447L	CCATCTCATCCAA	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84607291	84607291	+	Missense_Mutation	SNP	T	T	G	rs201182137	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	4	101	0	0.0366972	0	.	.	weak	FAM75D4,NS,carcinoma,0,2	.	.	2	NM_001001670	exon4	c.T1906G	p.L636V	GAAAGTTTGTGGG	.	scavenged	Atlas-SNP
ADAD2	161931	hgsc.bcm.edu	37	16	84229580	84229580	+	Silent	SNP	C	C	T	rs2303239	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	54	41	0	1	0	C|0.720;T|0.280	0.280	strong	.	ADAD2	46	.	NM_139174	exon8	c.C1458T	p.A486A	CTGGGCCGTGCTG	.	PASS	Atlas-SNP
PRKCZ	5590	hgsc.bcm.edu	37	1	1987993	1987993	+	Silent	SNP	T	T	C	rs12184	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	87	128	0	0.50289	0	T|0.462;C|0.538	0.538	strong	.	PRKCZ	84	.	NM_002744	exon3	c.T264C	p.D88D	CAGGGATGAAGGC	.	PASS	Atlas-SNP
ABCA1	19	hgsc.bcm.edu	37	9	107602678	107602678	+	Silent	SNP	G	G	A	rs2274873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	80	141	0	0.481928	0	G|0.901;A|0.099	0.099	strong	.	ABCA1	244	.	NM_005502	exon9	c.C936T	p.P312P	TCCCTCGGGATGC	.	PASS	Atlas-SNP
FAM92B	339145	hgsc.bcm.edu	37	16	85141661	85141661	+	Silent	SNP	G	G	A	rs17200833	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	72	0	1	0	G|0.904;A|0.096	0.096	strong	.	FAM92B	29	.	NM_198491	exon3	c.C300T	p.Y100Y	TGCCCCGTAGAGC	.	PASS	Atlas-SNP
ZNF519	162655	hgsc.bcm.edu	37	18	14105016	14105016	+	Missense_Mutation	SNP	C	C	A	rs61609068	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	21	32	0	0.525	0	C|0.781;A|0.219	0.219	strong	.	ZNF519	53	.	NM_145287	exon3	c.G1523T	p.R508I	TGAATTCTCTGAT	.	PASS	Atlas-SNP
PTCH2	8643	hgsc.bcm.edu	37	1	45307694	45307694	+	Silent	SNP	C	C	T	rs45573433	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	42	94	0	0.466667	0	C|0.992;T|0.008	0.008	strong	PTCH2,mouth,carcinoma,0,1	PTCH2	96	1	NM_001166292	exon2	c.G90A	p.L30L	AGCCTTCAGGCTC	.	PASS	Atlas-SNP
SIM1	6492	hgsc.bcm.edu	37	6	100868779	100868779	+	Missense_Mutation	SNP	G	G	T	rs3734354	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	44	110	0	0.431373	0	T|0.145;G|0.854;A|0.000	0.145	strong	SIM1,NS,carcinoma,+2,2	SIM1	173	2	NM_005068	exon9	c.C1054A	p.P352T	AGGCTGGTTTGGA	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62595169	62595169	+	Silent	SNP	A	A	G	rs817325	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	49	87	0	0.480392	0	A|0.423;G|0.577	0.577	strong	.	ZNF512B	72	.	NM_020713	exon9	c.T1578C	p.L526L	CTTCTTAAGCCCC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324064	31324064	+	Missense_Mutation	SNP	T	T	A	rs41541519	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	60	125	0	0.287081	0	T|0.939;A|0.061	0.061	strong	.	HLA-B	54	.	NM_005514	exon3	c.A499T	p.T167S	GCTGGGTGATCTG	.	PASS	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	37	8	53537316	53537316	+	Silent	SNP	A	A	G	rs1129660	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	57	138	0	0.38	0	A|0.804;G|0.196	0.196	strong	.	RB1CC1	163	.	NM_014781	exon23	c.T4668C	p.L1556L	TTTTCCAAGTACC	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41352807	41352807	+	Silent	SNP	A	A	G	rs55805386	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	255	32	220	0	0.12549	0	A|0.947;G|0.053	0.053	strong	.	CYP2A6	69	.	NM_000762	exon5	c.T804C	p.I268I	GGAGTCAATGAAG	.	PASS	Atlas-SNP
ZDHHC11	79844	hgsc.bcm.edu	37	5	833915	833915	+	Missense_Mutation	SNP	G	G	T	rs62332110	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	216	80	294	127	0.37037	0.431973	G|0.500;T|0.500	0.500	strong	ZDHHC11_ENST00000424784,NS,carcinoma,0,10	ZDHHC11	97	10	NM_024786	exon7	c.C908A	p.A303D	GCGCCAGCTCCTT	.	scavenged	Atlas-SNP
AK4	205	hgsc.bcm.edu	37	1	65690461	65690461	+	Silent	SNP	G	G	A	rs4915685	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	138	142	0	0.992806	0	G|0.726;A|0.274	0.274	strong	.	AK4	22	.	NM_203464	exon5	c.G465A	p.P155P	TGAACCGTTAGTC	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188356	140188356	+	Silent	SNP	A	A	G	rs144593807	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	20	108	0	0.31746	0	A|0.976;G|0.024	0.024	strong	PCDHA4_ENST00000530339,NS,carcinoma,+2,8	PCDHA4	419	8	NM_031500	exon1	c.A1584G	p.L528L	GGAGCTAGAGCTG	.	PASS	Atlas-SNP
KIAA1522	57648	hgsc.bcm.edu	37	1	33231403	33231403	+	Silent	SNP	G	G	T	rs6702519	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	15	51	0	0.394737	0	G|0.855;T|0.145	0.145	strong	KIAA1522_ENST00000373480,rectum,carcinoma,0,1	KIAA1522	68	1	NM_001198972	exon1	c.G33T	p.A11A	CCCGGCGCTCCTA	.	PASS	Atlas-SNP
CHD9	80205	hgsc.bcm.edu	37	16	53326860	53326860	+	Silent	SNP	G	G	A	rs2287078	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	54	141	0	0.421875	0	G|0.692;A|0.308	0.308	strong	CHD9,NS,carcinoma,0,1	CHD9	203	1	NM_025134	exon29	c.G5406A	p.Q1802Q	AATTCAGCAGATA	.	PASS	Atlas-SNP
GABRR2	2570	hgsc.bcm.edu	37	6	89967498	89967498	+	Missense_Mutation	SNP	G	G	A	rs282129	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	101	172	0	0.520619	0	G|0.693;T|0.005	.	strong	.	GABRR2	41	.	NM_002043	exon9	c.C1289T	p.T430M	AAACCCGTCTGGC	.	PASS	Atlas-SNP
TRAPPC12	51112	hgsc.bcm.edu	37	2	3392295	3392295	+	Missense_Mutation	SNP	A	A	G	rs11686212	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	29	63	0	0.322222	0	A|0.595;G|0.405	0.405	strong	TTC15,NS,carcinoma,0,2	.	.	2	NM_016030	exon2	c.A901G	p.S301G	AGCATGAGCGAGA	.	PASS	Atlas-SNP
LTF	4057	hgsc.bcm.edu	37	3	46480958	46480958	+	Missense_Mutation	SNP	C	C	G	rs2073495	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	72	99	0	0.533333	0	C|0.739;G|0.261	0.261	strong	LTF,NS,carcinoma,0,1	LTF	98	1	NM_002343	exon15	c.G1737C	p.E579D	CCATGCCTCATTG	.	PASS	Atlas-SNP
PRKD3	23683	hgsc.bcm.edu	37	2	37518045	37518045	+	Silent	SNP	G	G	C	rs10177176	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	62	64	0	0.548673	0	G|0.650;C|0.350	0.350	strong	.	PRKD3	170	.	NM_005813	exon3	c.C525G	p.L175L	TCCCCAGAGCATC	.	PASS	Atlas-SNP
ALOX12	239	hgsc.bcm.edu	37	17	6909838	6909838	+	Silent	SNP	A	A	G	rs2307214	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	17	39	0	0.485714	0	A|0.931;G|0.069	0.069	strong	.	ALOX12	49	.	NM_000697	exon11	c.A1452G	p.Q484Q	CTACCAAAGGGAT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093272	1093272	+	Silent	SNP	A	A	C	rs56230143		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	4	22	7	0.166667	0.318182	.	.	weak	MUC2_ENST00000441003,NS,carcinoma,0,8	MUC2	614	8	NM_002457	exon30	c.A5091C	p.T1697T	CCCAACATCGACA	.	scavenged	Atlas-SNP
ANO8	57719	hgsc.bcm.edu	37	19	17435887	17435887	+	Silent	SNP	C	C	T	rs56286266	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	47	114	0	0.412281	0	C|0.746;T|0.254	0.254	strong	.	ANO8	67	.	NM_020959	exon17	c.G2970A	p.S990S	CCCTGACGAGAGG	.	PASS	Atlas-SNP
GPR116	221395	hgsc.bcm.edu	37	6	46846043	46846043	+	Missense_Mutation	SNP	T	T	A	rs41273668	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	217	114	230	0	0.525346	0	T|0.980;A|0.020	0.020	strong	.	GPR116	133	.	NM_015234	exon10	c.A1136T	p.K379M	ATCACCTTCATTT	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16291983	16291983	+	Silent	SNP	A	A	G	rs9930886	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	57	86	0	0.522936	0	A|0.707;G|0.293	0.293	strong	.	ABCC6	110	.	NM_001171	exon10	c.T1233C	p.N411N	CACCAGATTGACC	.	PASS	Atlas-SNP
ALG1	56052	hgsc.bcm.edu	37	16	5123201	5123201	+	Missense_Mutation	SNP	A	A	C	rs113219939	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	96	224	0	0.436364	0	A|0.984;C|0.016	0.016	strong	.	ALG1	35	.	NM_019109	exon3	c.A334C	p.M112L	CAGGCTATGTACT	.	PASS	Atlas-SNP
CHD9	80205	hgsc.bcm.edu	37	16	53358439	53358439	+	Missense_Mutation	SNP	A	A	G	rs3743771	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	20	45	0	0.416667	0	A|0.774;G|0.225	0.225	strong	CHD9,NS,carcinoma,0,1	CHD9	203	1	NM_025134	exon39	c.A8278G	p.T2760A	CCTTCCACATCCT	.	PASS	Atlas-SNP
PIBF1	10464	hgsc.bcm.edu	37	13	73369642	73369642	+	Missense_Mutation	SNP	A	A	G	rs1372000	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	69	87	0	0.683168	0	G|0.329;N|0.000	0.329	strong	.	PIBF1	65	.	NM_006346	exon4	c.A499G	p.I167V	CAATATATTAAAT	.	PASS	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15687059	15687059	+	Missense_Mutation	SNP	A	A	G	rs4661330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	71	81	0	1	0	A|0.740;G|0.260	0.260	strong	.	FHAD1	78	.	NM_052929	exon21	c.A2756G	p.E919G	GGTTTGAAGAAGA	.	PASS	Atlas-SNP
PPP1R18	170954	hgsc.bcm.edu	37	6	30647035	30647035	+	Missense_Mutation	SNP	G	G	T	rs115169407	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	17	32	0	0.447368	0	G|0.997;T|0.003	0.003	strong	KIAA1949,NS,carcinoma,0,1	.	.	1	NM_001134870	exon3	c.C1743A	p.D581E	TTCGTCGTCGGGT	.	PASS	Atlas-SNP
SCRN2	90507	hgsc.bcm.edu	37	17	45917703	45917703	+	Silent	SNP	C	C	T	rs11652952	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	66	97	0	0.568965	0	C|0.963;T|0.037	0.037	strong	.	SCRN2	35	.	NM_138355	exon3	c.G210A	p.T70T	AGCGTGCGTCTTC	.	PASS	Atlas-SNP
ZNF696	79943	hgsc.bcm.edu	37	8	144378184	144378184	+	Silent	SNP	C	C	G	rs2235115	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	30	31	0	0.555556	0	C|0.518;G|0.482	0.482	strong	.	ZNF696	18	.	NM_030895	exon3	c.C339G	p.G113G	CCCCGGCGCAGAG	.	PASS	Atlas-SNP
LPA	4018	hgsc.bcm.edu	37	6	161006077	161006077	+	Splice_Site	SNP	C	C	T	rs41272114	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	33	71	1	0.478261	0.0140845	C|0.977;T|0.023	0.023	strong	LPA,colon,carcinoma,-1,1	LPA	237	1	NM_005577	exon28	c.4289+1G>A	.	GACATACGCATTT	.	scavenged	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64637147	64637147	+	Silent	SNP	C	C	A	rs7161192	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	53	124	0	0.441667	0	C|0.628;A|0.372	0.372	strong	.	SYNE2	577	.	NM_182914	exon94	c.C17202A	p.L5734L	CAGCCTCTACCAA	.	PASS	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	37	2	165551201	165551201	+	Missense_Mutation	SNP	T	T	C	rs7607980	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	31	85	0	0.442857	0	T|0.872;C|0.128	0.128	strong	.	COBLL1	122	.	NM_014900	exon12	c.A2815G	p.N939D	CTTTATTTGTCAG	.	PASS	Atlas-SNP
DZIP1L	199221	hgsc.bcm.edu	37	3	137786442	137786442	+	Missense_Mutation	SNP	T	T	C	rs442800	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	89	0	1	0	C|0.571;N|0.001	0.571	strong	.	DZIP1L	88	.	NM_173543	exon14	c.A1933G	p.K645E	CATCCTTGGGCCG	.	PASS	Atlas-SNP
UEVLD	55293	hgsc.bcm.edu	37	11	18555949	18555949	+	Silent	SNP	T	T	C	rs55999230	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	47	61	0	0.494737	0	T|0.793;C|0.207	0.207	strong	.	UEVLD	58	.	NM_001040697	exon11	c.A1176G	p.L392L	TACTGATAGTCCA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276149	152276149	+	Missense_Mutation	SNP	C	C	T	rs77422831	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	221	134	186	0	0.606335	0	C|0.841;T|0.159	0.159	strong	.	FLG	900	.	NM_002016	exon3	c.G11213A	p.R3738H	TCGTGGCGGGATC	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38956803	38956803	+	Silent	SNP	G	G	A	rs2228069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	69	53	0	0.971831	0	A|0.594;C|0.000;G|0.406	0.594	strong	.	RYR1	708	.	NM_001042723	exon24	c.G2943A	p.T981T	GCAGACGACACTG	.	PASS	Atlas-SNP
PEBP4	157310	hgsc.bcm.edu	37	8	22675196	22675196	+	Missense_Mutation	SNP	T	T	C	rs34057411	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	101	156	0	0.492683	0	T|0.978;C|0.022	0.022	strong	.	PEBP4	23	.	NM_144962	exon4	c.A311G	p.E104G	CTGGGTTCTGCTC	.	PASS	Atlas-SNP
TMEM68	137695	hgsc.bcm.edu	37	8	56675384	56675384	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	3	126	0	0.0205479	0	.	.	none	TMEM68,NS,carcinoma,+2,1	TMEM68	25	1	NM_152417	exon3	c.G135A	p.L45L	AACCCACAAGAGA	.	scavenged	Atlas-SNP
VGLL2	245806	hgsc.bcm.edu	37	6	117591755	117591755	+	Silent	SNP	T	T	C	rs13194610	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	10	35	0	0.454545	0	T|0.831;C|0.169	0.169	strong	.	VGLL2	18	.	NM_182645	exon3	c.T441C	p.N147N	CTGGAATAGCGCG	.	PASS	Atlas-SNP
ZNF695	57116	hgsc.bcm.edu	37	1	247151557	247151557	+	Missense_Mutation	SNP	A	A	G	rs2642992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	32	34	0	0.969697	0	A|0.368;G|0.632	0.632	strong	ZNF695,NS,carcinoma,0,1	ZNF695	55	1	NM_001204221	exon4	c.T260C	p.V87A	GACAAAACTGGAA	.	PASS	Atlas-SNP
OR10R2	343406	hgsc.bcm.edu	37	1	158450314	158450314	+	Missense_Mutation	SNP	A	A	G	rs6679056	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	246	86	178	0	0.349593	0	A|0.467;G|0.533	0.533	strong	OR10R2,colon,carcinoma,+1,1	OR10R2	81	1	NM_001004472	exon1	c.A647G	p.E216G	TTAACGAATTTGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505774	195505774	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	5	96	3	0.0416667	0.03125	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C12677A	p.P4226H	GTGACAGGAAGAG	.	scavenged	Atlas-SNP
OR1D5	8386	hgsc.bcm.edu	37	17	2966191	2966191	+	Silent	SNP	G	G	A	rs61752194	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	421	129	287	0	0.306413	0	G|0.625;A|0.375	0.375	strong	.	OR1D5	33	.	NM_014566	exon1	c.C711T	p.T237T	AGAGAAGGTTTTG	.	PASS	Atlas-SNP
CALD1	800	hgsc.bcm.edu	37	7	134618710	134618710	+	Missense_Mutation	SNP	A	A	G	rs6973420	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	92	122	0	0.575	0	A|0.502;G|0.496	0.496	strong	.	CALD1	150	.	NM_033138	exon5	c.A1190G	p.H397R	AAAAACATGCCAT	.	PASS	Atlas-SNP
KIF7	374654	hgsc.bcm.edu	37	15	90196008	90196008	+	Missense_Mutation	SNP	C	C	T	rs8179065	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	42	57	0	0.56	0	C|0.763;T|0.237	0.237	strong	.	KIF7	130	.	NM_198525	exon2	c.G154A	p.D52N	GTCGGTCACGGCC	.	PASS	Atlas-SNP
ABCA4	24	hgsc.bcm.edu	37	1	94544234	94544234	+	Missense_Mutation	SNP	T	T	C	rs3112831	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	73	144	0	0.474026	0	T|0.748;C|0.251;N|0.001	0.251	strong	ABCA4,NS,carcinoma,-1,2	ABCA4	275	2	NM_000350	exon10	c.A1268G	p.H423R	CTAACGTGTTCCA	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44890817	44890817	+	Silent	SNP	G	G	A	rs73039937	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	49	118	0	0.422414	0	G|0.932;A|0.068	0.068	strong	.	ZNF285	86	.	NM_152354	exon4	c.C1590T	p.H530H	TCTGAGGTGAACA	.	PASS	Atlas-SNP
EPB41L3	23136	hgsc.bcm.edu	37	18	5478295	5478295	+	Missense_Mutation	SNP	C	C	A	rs117900256	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	310	175	199	0	0.564516	0	C|0.990;A|0.010	0.010	strong	.	EPB41L3	222	.	NM_012307	exon3	c.G326T	p.S109I	TGCATGCTTTTAG	.	PASS	Atlas-SNP
TARP	0	hgsc.bcm.edu	37	7	38305083	38305083	+	Silent	SNP	G	G	A	rs77580342	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	520	417	227	0	0.801923	0	.	.	weak	.	.	.	.	NM_001003806	exon2	c.C12T	p.N4N	TGTGTCGTTAGTC	.	PASS	Atlas-SNP
ERCC4	2072	hgsc.bcm.edu	37	16	14014055	14014055	+	Silent	SNP	C	C	T	rs3136042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	37	70	0	0.474359	0	C|0.986;T|0.014	0.014	strong	.	ERCC4	100	.	NM_005236	exon1	c.C33T	p.A11A	GATTGCCATGGCG	.	PASS	Atlas-SNP
PITX1	5307	hgsc.bcm.edu	37	5	134364518	134364518	+	Missense_Mutation	SNP	C	C	G	rs479632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	39	56	0	1	0	C|0.748;G|0.252	0.252	strong	.	PITX1	31	.	NM_002653	exon3	c.G896C	p.G299A	TGCAGGCCGCCGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9072742	9072742	+	Missense_Mutation	SNP	T	T	C	rs2591590	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	375	168	396	0	0.448	0	T|0.787;C|0.213	0.213	strong	MUC16_ENST00000397910,NS,carcinoma,+2,6	MUC16	4315	6	NM_024690	exon3	c.A14704G	p.I4902V	GGGAGATGCTGGT	.	PASS	Atlas-SNP
DCAF12	25853	hgsc.bcm.edu	37	9	34107504	34107504	+	Silent	SNP	C	C	T	rs1378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	50	110	0	0.568182	0	C|0.923;T|0.077	0.077	strong	DCAF12,colon,carcinoma,0,1	DCAF12	37	1	NM_015397	exon3	c.G393A	p.R131R	AGGCTCCCGGTCT	.	PASS	Atlas-SNP
WTAP	9589	hgsc.bcm.edu	37	6	160169258	160169258	+	Silent	SNP	G	G	T	rs7766006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	224	204	0	0.906883	0	G|0.800;T|0.200	0.200	strong	WTAP,NS,carcinoma,+2,1	WTAP	44	1	NM_001270533	exon6	c.G309T	p.P103P	GCAGCCGAGCGTT	.	PASS	Atlas-SNP
OSBPL8	114882	hgsc.bcm.edu	37	12	76844711	76844711	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	5	113	0	0.0423729	0	.	.	none	.	OSBPL8	86	.	NM_020841	exon4	c.G137A	p.R46H	CCTTGGCGCTGAC	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46657798	46657798	+	Silent	SNP	A	A	G	rs6007748	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	48	80	0	0.551724	0	A|0.737;G|0.263	0.263	strong	.	PKDREJ	195	.	NM_006071	exon1	c.T1422C	p.D474D	AAATCTATCAGAG	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1119963	1119963	+	Silent	SNP	A	A	G	rs2074921	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	73	67	0	0.986486	0	A|0.566;C|0.000;G|0.433;T|0.000	0.433	strong	.	SBNO2	112	.	NM_014963	exon12	c.T1209C	p.A403A	TAGCACAGCCTTG	.	PASS	Atlas-SNP
PCTP	58488	hgsc.bcm.edu	37	17	53851237	53851237	+	Silent	SNP	C	C	T	rs34608946	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	7	28	0	0.333333	0	C|0.990;T|0.010	0.010	strong	.	PCTP	17	.	NM_021213	exon4	c.C492T	p.D164D	GAGTGACGGCAAG	.	PASS	Atlas-SNP
CCDC61	729440	hgsc.bcm.edu	37	19	46518682	46518682	+	Missense_Mutation	SNP	G	G	A	rs7271	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	10	41	0	0.47619	0	G|0.900;A|0.100	0.100	strong	.	CCDC61	32	.	NM_001267723	exon7	c.G842A	p.R281K	ACAAGAGGGGGTG	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228401329	228401329	+	Silent	SNP	C	C	T	rs185717159	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	64	100	0	0.561404	0	C|0.994;T|0.006	0.006	strong	.	OBSCN	2142	.	NM_001271223	exon3	c.C1176T	p.R392R	CGTGCGCAATGTC	.	PASS	Atlas-SNP
FKTN	2218	hgsc.bcm.edu	37	9	108366734	108366734	+	Missense_Mutation	SNP	G	G	A	rs34787999	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	30	57	0	0.517241	0	G|0.755;A|0.245	0.245	strong	.	FKTN	47	.	NM_006731	exon5	c.G608A	p.R203Q	CCTTCCGAAAGTT	.	PASS	Atlas-SNP
FLVCR2	55640	hgsc.bcm.edu	37	14	76045362	76045362	+	Missense_Mutation	SNP	T	T	C	rs2287015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	25	78	0	0.384615	0	T|0.591;C|0.409	0.409	strong	.	FLVCR2	39	.	NM_017791	exon1	c.T47C	p.V16A	CCCCTGTGCCGGA	.	PASS	Atlas-SNP
MMAB	326625	hgsc.bcm.edu	37	12	110011230	110011230	+	Missense_Mutation	SNP	C	C	T	rs10774775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	29	38	0	0.527273	0	C|0.693;T|0.307	0.307	strong	.	MMAB	16	.	NM_052845	exon1	c.G56A	p.R19H	CACCCGCGCAGGC	.	PASS	Atlas-SNP
ADH4	127	hgsc.bcm.edu	37	4	100047812	100047812	+	Silent	SNP	G	G	A	rs1126672	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	80	119	1	1	0.00840336	G|0.824;A|0.176	0.176	strong	ADH4,NS,carcinoma,0,1	ADH4	35	1	NM_000670	exon8	c.C1051T	p.L351L	TCACCAGTGCATC	.	PASS	Atlas-SNP
PTPRS	5802	hgsc.bcm.edu	37	19	5212380	5212380	+	Silent	SNP	C	C	T	rs1064300	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	31	90	0	0.430556	0	C|0.669;T|0.331	0.331	strong	.	PTPRS	169	.	NM_002850	exon31	c.G4737A	p.P1579P	ATCTGGCGGGTTG	.	PASS	Atlas-SNP
PYCR2	29920	hgsc.bcm.edu	37	1	226108200	226108200	+	Silent	SNP	C	C	T	rs73131849	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	47	60	0	0.61039	0	C|0.808;T|0.192	0.192	strong	.	PYCR2	13	.	NM_013328	exon7	c.G918A	p.G306G	GAGCTTCCCTGGG	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121415720	121415720	+	Missense_Mutation	SNP	T	T	C	rs3732410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	420	155	289	0	0.369048	0	T|0.787;C|0.213	0.213	strong	GOLGB1,NS,carcinoma,0,1	GOLGB1	319	1	NM_001256486	exon13	c.A3650G	p.Y1217C	CGATTATAGTCAT	.	PASS	Atlas-SNP
CDH20	28316	hgsc.bcm.edu	37	18	59195229	59195229	+	Silent	SNP	C	C	T	rs34784622	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	53	132	0	0.407692	0	C|0.987;T|0.013	0.013	strong	.	CDH20	117	.	NM_031891	exon6	c.C1047T	p.Y349Y	AAGCTACACCTTA	.	PASS	Atlas-SNP
PLA2G4C	8605	hgsc.bcm.edu	37	19	48608598	48608598	+	Missense_Mutation	SNP	C	C	G	rs2307279	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	61	102	0	0.544643	0	C|0.781;G|0.219	0.219	strong	.	PLA2G4C	76	.	NM_001159322	exon3	c.G142C	p.A48P	CATCAGCCTCAAT	.	PASS	Atlas-SNP
DRD2	1813	hgsc.bcm.edu	37	11	113287694	113287694	+	Silent	SNP	C	C	T	rs1800499	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	28	72	0	0.4375	0	C|0.977;T|0.023	0.023	strong	DRD2,NS,carcinoma,-2,1	DRD2	98	1	NM_016574	exon4	c.G423A	p.L141L	ATTGTACAGCATG	.	PASS	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602790	5602790	+	Silent	SNP	A	A	G	rs2163946	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	139	116	1	0.992857	0.00862069	A|0.342;G|0.658	0.658	strong	.	OR52B6	37	.	NM_001005162	exon1	c.A684G	p.L228L	AGGCCTAGACATC	.	PASS	Atlas-SNP
VWA2	340706	hgsc.bcm.edu	37	10	116008497	116008497	+	Missense_Mutation	SNP	G	G	A	rs9664945	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	84	144	0	0.48	0	G|0.764;A|0.236	0.236	strong	.	VWA2	64	.	NM_001272046	exon2	c.G25A	p.A9T	CTGGAAGCCGTCT	.	PASS	Atlas-SNP
DPPA4	55211	hgsc.bcm.edu	37	3	109049384	109049384	+	Silent	SNP	T	T	C	rs13059848	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	70	110	0	0.451613	0	T|0.879;C|0.121	0.121	strong	.	DPPA4	56	.	NM_018189	exon5	c.A666G	p.P222P	CTCTTGTGGAGAT	.	PASS	Atlas-SNP
RFC5	5985	hgsc.bcm.edu	37	12	118465820	118465820	+	Silent	SNP	T	T	C	rs5745873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	31	39	0	0.596154	0	T|0.884;C|0.116	0.116	strong	.	RFC5	35	.	NM_007370	exon9	c.T856C	p.L286L	ATACACTTGTTTG	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42523943	42523943	+	Missense_Mutation	SNP	A	A	G	rs16947	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	130	189	1	1	0.00529101	A|0.378;G|0.622	0.622	strong	CYP2D6_ENST00000360608,NS,carcinoma,0,2	CYP2D6	104	2	NM_000106	exon6	c.T886C	p.C296R	CTATGCACAGGTT	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	732536	732536	+	Missense_Mutation	SNP	T	T	C	rs34832656	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	40	95	0	0.40404	0	T|0.838;C|0.162	0.162	strong	.	KANK1	231	.	NM_001256876	exon10	c.T3164C	p.I1055T	TTAATATTGAAGG	.	PASS	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	37	7	133580447	133580447	+	Silent	SNP	G	G	A	rs2042456	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	53	105	0	0.557895	0	G|0.501;A|0.499	0.499	strong	.	EXOC4	118	.	NM_021807	exon12	c.G1830A	p.V610V	GTGCGTGAAGCTC	.	PASS	Atlas-SNP
USP25	29761	hgsc.bcm.edu	37	21	17203785	17203785	+	Silent	SNP	A	A	T	rs2297248	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	135	177	0	0.546559	0	A|0.826;T|0.174	0.174	strong	.	USP25	156	.	NM_013396	exon16	c.A1830T	p.A610A	CTGGGCATATATT	.	PASS	Atlas-SNP
PSMB7	5695	hgsc.bcm.edu	37	9	127177161	127177161	+	Missense_Mutation	SNP	A	A	G	rs4574	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	80	0	0.454545	0	A|0.553;G|0.447	0.447	strong	.	PSMB7	11	.	NM_002799	exon2	c.T116C	p.V39A	TTCCGGACCTTTG	.	PASS	Atlas-SNP
FAM194B	220081	hgsc.bcm.edu	37	13	46124380	46124380	+	Silent	SNP	C	C	T	rs149506203	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	39	55	0	0.639344	0	C|0.987;T|0.013	0.013	strong	.	FAM194B	42	.	NM_182542	exon12	c.G1479A	p.G493G	GCCTGTCCCATCA	.	PASS	Atlas-SNP
CSRNP1	64651	hgsc.bcm.edu	37	3	39186728	39186728	+	Silent	SNP	C	C	T	rs784517	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	160	107	1	0.987654	0.00934579	T|0.456;G|0.000;C|0.544	0.456	strong	.	CSRNP1	59	.	NM_033027	exon3	c.G225A	p.R75R	GCGAGCCCGCTTC	.	PASS	Atlas-SNP
GTSE1	51512	hgsc.bcm.edu	37	22	46719100	46719100	+	Missense_Mutation	SNP	C	C	G	rs6008684	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	72	114	0	0.489796	0	C|0.856;G|0.144	0.144	strong	.	GTSE1	100	.	NM_016426	exon8	c.C1446G	p.D482E	CCCGGACAGCTCA	.	PASS	Atlas-SNP
MYO10	4651	hgsc.bcm.edu	37	5	16676247	16676247	+	Missense_Mutation	SNP	G	G	A	rs61744227	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	37	117	0	0.451219	0	G|0.994;A|0.006	0.006	strong	.	MYO10	198	.	NM_012334	exon34	c.C4559T	p.S1520L	ACATCCGAGTTCA	.	PASS	Atlas-SNP
MGAT5B	146664	hgsc.bcm.edu	37	17	74921072	74921072	+	Silent	SNP	G	G	C	rs3889145	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	64	90	0	0.984615	0	G|0.785;C|0.215	0.215	strong	MGAT5B,NS,carcinoma,0,2	MGAT5B	98	2	NM_198955	exon8	c.G1083C	p.R361R	AGGCCGGGGAAGC	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25265103	25265103	+	Silent	SNP	A	A	G	rs7981616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	48	119	0	0.475248	0	A|0.726;G|0.273	0.273	strong	.	ATP12A	172	.	NM_001185085	exon8	c.A801G	p.A267A	TAAAGCATCTACT	.	PASS	Atlas-SNP
MBD3L3	653657	hgsc.bcm.edu	37	19	7056590	7056590	+	Missense_Mutation	SNP	C	C	T	rs76391970		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	282	51	207	0	0.180851	0	.	.	weak	MBD3L3,NS,haematopoietic_neoplasm,0,1	MBD3L3	12	1	NM_001164425	exon2	c.G370A	p.G124S	ATTCACCGGCCGT	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237858	31237858	+	Silent	SNP	T	T	C	rs34794906	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	72	139	0	1	0	T|0.659;C|0.341	0.341	strong	.	HLA-C	92	.	NM_002117	exon5	c.A900G	p.P300P	GGAAGATGGCTCT	.	PASS	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14535001	14535001	+	Silent	SNP	G	G	C	rs61997955		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	411	59	289	1	0.143552	0.00346021	.	.	weak	POTEC,NS,carcinoma,0,2	POTEC	129	2	NM_001137671	exon4	c.C816G	p.G272G	TGTGAGGCCACAC	.	scavenged	Atlas-SNP
ST7	7982	hgsc.bcm.edu	37	7	116849886	116849886	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	2	66	0	0.0266667	0	.	.	none	ST7,bladder,carcinoma,-2,1	ST7	64	1	NM_021908	exon13	c.C1300T	p.L434L	CATATCCTGAAGA	.	scavenged	Atlas-SNP
ZSWIM8	23053	hgsc.bcm.edu	37	10	75558867	75558867	+	Silent	SNP	G	G	A	rs2271271	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	146	116	0	0.993197	0	G|0.465;A|0.535	0.535	strong	KIAA0913_ENST00000398706,NS,carcinoma,0,1	.	.	1	NM_015037	exon21	c.G4284A	p.L1428L	CTGGCTGTATGAG	.	PASS	Atlas-SNP
TMEM176B	28959	hgsc.bcm.edu	37	7	150491084	150491084	+	Missense_Mutation	SNP	T	T	G	rs3173833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	154	132	0	1	0	T|0.444;G|0.556	0.556	strong	TMEM176B,colon,carcinoma,0,2	TMEM176B	36	2	NM_014020	exon3	c.A280C	p.S94R	AGGCACTCAGCAC	.	PASS	Atlas-SNP
GPR52	9293	hgsc.bcm.edu	37	1	174417941	174417941	+	Missense_Mutation	SNP	G	G	A	rs200286780	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	49	99	0	0.401639	0	.	.	weak	.	GPR52	40	.	NM_005684	exon1	c.G692A	p.R231H	TTTGCCGTCAGCA	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7701922	7701922	+	Silent	SNP	G	G	A	rs146210717	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	33	48	0	0.540984	0	G|0.999;A|0.001	0.001	strong	.	DNAH2	498	.	NM_020877	exon54	c.G8445A	p.T2815T	GACCACGTCCTTC	.	PASS	Atlas-SNP
SLC36A3	285641	hgsc.bcm.edu	37	5	150664183	150664183	+	Silent	SNP	G	G	C	rs17111902	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	54	83	0	0.545455	0	G|0.895;C|0.105	0.105	strong	.	SLC36A3	54	.	NM_001145017	exon8	c.C921G	p.G307G	ACCGACGCCTTCA	.	PASS	Atlas-SNP
SERINC2	347735	hgsc.bcm.edu	37	1	31896608	31896608	+	Silent	SNP	C	C	T	rs78029434	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	32	69	0	0.52459	0	C|0.980;T|0.020	0.020	strong	.	SERINC2	44	.	NM_001199038	exon3	c.C135T	p.T45T	CTCCACCGTGAGC	.	PASS	Atlas-SNP
ADAMTSL2	9719	hgsc.bcm.edu	37	9	136412296	136412296	+	Silent	SNP	C	C	T	rs2073877	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	21	50	0	0.446809	0	C|0.895;T|0.105	0.105	strong	.	ADAMTSL2	40	.	NM_014694	exon9	c.C900T	p.I300I	GTACATCGTGGCA	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115422474	115422474	+	Silent	SNP	A	A	G	rs3127122	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	23	66	0	0.353846	0	A|0.683;G|0.317	0.317	strong	NRAP,NS,carcinoma,0,2	NRAP	208	2	NM_001261463	exon3	c.T219C	p.N73N	ATTTAGATTTAAT	.	PASS	Atlas-SNP
NLRP14	338323	hgsc.bcm.edu	37	11	7059981	7059981	+	Missense_Mutation	SNP	G	G	A	rs61063081	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	32	75	0	0.52459	0	G|0.835;A|0.165	0.165	strong	.	NLRP14	187	.	NM_176822	exon2	c.G164A	p.R55Q	CCAGGCGGGAGGA	.	PASS	Atlas-SNP
KRT37	8688	hgsc.bcm.edu	37	17	39579059	39579059	+	Nonsense_Mutation	SNP	G	G	A	rs78158550	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	13	56	0	0.342105	0	G|0.847;A|0.153	0.153	strong	.	KRT37	61	.	NM_003770	exon3	c.C703T	p.Q235X	AGAGCTGCTCCTC	.	PASS	Atlas-SNP
FBXO17	115290	hgsc.bcm.edu	37	19	39433299	39433299	+	Silent	SNP	A	A	G	rs8113389	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	45	0	0.454545	0	A|0.241;G|0.759	0.759	strong	FBXO17,NS,carcinoma,0,1	FBXO17	42	1	NM_148169	exon6	c.T813C	p.Y271Y	GGCGCCATAGTGC	.	PASS	Atlas-SNP
ENKD1	84080	hgsc.bcm.edu	37	16	67697922	67697922	+	Missense_Mutation	SNP	C	C	T	rs143645135	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	64	86	0	0.533333	0	C|0.984;T|0.016	0.016	strong	.	.	.	.	NM_032140	exon4	c.G497A	p.R166Q	TGCGCCCGCAGGA	.	PASS	Atlas-SNP
IL12RB2	3595	hgsc.bcm.edu	37	1	67852335	67852335	+	Silent	SNP	G	G	A	rs2228420	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	157	171	1	1	0.00584795	G|0.567;A|0.433	0.433	strong	.	IL12RB2	94	.	NM_001559	exon14	c.G1929A	p.T643T	CTCAACGCATTAC	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77920930	77920930	+	Missense_Mutation	SNP	A	A	G	rs2511188	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	76	0	0.493827	0	A|0.644;G|0.356	0.356	strong	.	USP35	179	.	NM_020798	exon10	c.A2029G	p.I677V	GAAAGGATAGAGA	.	PASS	Atlas-SNP
CCNY	219771	hgsc.bcm.edu	37	10	35772402	35772402	+	Silent	SNP	G	G	A	rs3802509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	254	114	238	1	0.448819	0.00420168	G|0.564;A|0.436	0.436	strong	CCNY,rectum,carcinoma,+1,1	CCNY	22	1	NM_145012	exon2	c.G225A	p.T75T	TCAGACGGACGGT	.	PASS	Atlas-SNP
ZNF345	25850	hgsc.bcm.edu	37	19	37368887	37368887	+	Silent	SNP	T	T	A	rs4806370	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	17	29	0	0.515152	0	T|0.961;A|0.039	0.039	strong	.	ZNF345	68	.	NM_001242476	exon4	c.T1155A	p.L385L	AAAACTTATCCAA	.	PASS	Atlas-SNP
HCN2	610	hgsc.bcm.edu	37	19	613307	613307	+	Silent	SNP	C	C	T	rs2301778	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	26	60	0	0.4	0	C|0.712;T|0.288	0.288	strong	.	HCN2	36	.	NM_001194	exon6	c.C1644T	p.A548A	CAACGCCGACCCC	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23615946	23615946	+	Silent	SNP	G	G	A	rs34646520	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	45	82	1	0.517241	0.0121951	G|0.978;A|0.022	0.022	strong	BCR,NS,carcinoma,+1,1	BCR	74	1	NM_021574	exon8	c.G2100A	p.T700T	CATGACGGTGAAG	.	scavenged	Atlas-SNP
MYOF	26509	hgsc.bcm.edu	37	10	95168634	95168634	+	Silent	SNP	A	A	G	rs2296142	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	79	142	0	0.537415	0	A|0.857;G|0.143	0.143	strong	.	MYOF	177	.	NM_133337	exon7	c.T639C	p.G213G	GTTGTTACCACTT	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24394811	24394811	+	Missense_Mutation	SNP	A	A	G	rs12145360	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	72	119	0	0.510638	0	A|0.836;G|0.164	0.164	strong	.	MYOM3	131	.	NM_152372	exon26	c.T3197C	p.I1066T	TGGATGATCACTT	.	PASS	Atlas-SNP
ABHD8	79575	hgsc.bcm.edu	37	19	17412399	17412399	+	Silent	SNP	G	G	A	rs11086067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	11	28	0	0.423077	0	G|0.778;A|0.222	0.222	strong	.	ABHD8	26	.	NM_024527	exon2	c.C27T	p.I9I	ACAGAAGATACCG	.	PASS	Atlas-SNP
OR5H14	403273	hgsc.bcm.edu	37	3	97868656	97868656	+	Missense_Mutation	SNP	C	C	T	rs146577101	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	529	72	357	0	0.136106	0	C|0.936;T|0.064	0.064	strong	.	OR5H14	56	.	NM_001005514	exon1	c.C427T	p.R143W	TGCATCCGGCTAT	.	PASS	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	37	12	40758652	40758652	+	Missense_Mutation	SNP	T	T	C	rs3761863	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	16	41	0	0.516129	0	T|0.417;C|0.583	0.583	strong	.	LRRK2	763	.	NM_198578	exon49	c.T7190C	p.M2397T	AGGTAATGGTAAA	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	37	3	58081888	58081888	+	Silent	SNP	T	T	C	rs1522384	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	27	59	0	0.391304	0	T|0.536;C|0.464	0.464	strong	.	FLNB	430	.	NM_001457	exon6	c.T927C	p.S309S	TGACAGTGACAAG	.	PASS	Atlas-SNP
PIK3R3	8503	hgsc.bcm.edu	37	1	46521517	46521517	+	Silent	SNP	G	G	A	rs785468	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	150	148	1	0.993378	0.00675676	G|0.336;A|0.664	0.664	strong	.	PIK3R3	41	.	NM_001114172	exon8	c.C891T	p.S297S	TTTGATGCTATTC	.	PASS	Atlas-SNP
TMEM63A	9725	hgsc.bcm.edu	37	1	226034909	226034909	+	Silent	SNP	G	G	A	rs41441645	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	39	94	0	0.481481	0	G|0.983;A|0.017	0.017	strong	TMEM63A,colon,carcinoma,-2,1	TMEM63A	75	1	NM_014698	exon24	c.C2256T	p.Y752Y	AGGCACGTAGGGC	.	PASS	Atlas-SNP
VEGFA	7422	hgsc.bcm.edu	37	6	43738977	43738977	+	Silent	SNP	C	C	T	rs25648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	20	32	0	0.555556	0	C|0.876;T|0.124	0.124	strong	.	VEGFA	21	.	NM_001171622	exon1	c.C534T	p.S178S	GGCCTCCGAAACC	.	PASS	Atlas-SNP
WDR63	126820	hgsc.bcm.edu	37	1	85589842	85589842	+	Missense_Mutation	SNP	A	A	G	rs17121745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	99	198	0	0.469194	0	A|0.944;G|0.056	0.056	strong	.	WDR63	91	.	NM_145172	exon19	c.A2020G	p.T674A	GACGGAACTGTCC	.	PASS	Atlas-SNP
OR52I2	143502	hgsc.bcm.edu	37	11	4608393	4608393	+	Silent	SNP	A	A	G	rs56002758	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	272	23	295	11	0.0845588	0.0372881	A|0.972;G|0.028	0.028	strong	OR52I2,NS,carcinoma,0,1	OR52I2	50	1	NM_001005170	exon1	c.A351G	p.S117S	CTGCTCAGGAGAC	.	scavenged	Atlas-SNP
ST6GALNAC1	55808	hgsc.bcm.edu	37	17	74625715	74625715	+	Silent	SNP	T	T	C	rs8081258	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	117	247	0	0.473684	0	T|0.901;C|0.099	0.099	strong	.	ST6GALNAC1	42	.	NM_018414	exon2	c.A210G	p.A70A	CCTCCTTGCCCTT	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100998623	100998623	+	Silent	SNP	G	G	A	rs1379130	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	25	65	0	0.409836	0	G|0.842;A|0.158	0.158	strong	.	PGR	115	.	NM_000926	exon1	c.C1179T	p.G393G	CTCCGCGCCTTCC	.	PASS	Atlas-SNP
ST6GAL2	84620	hgsc.bcm.edu	37	2	107450589	107450589	+	Silent	SNP	C	C	T	rs3796111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	59	122	0	0.460938	0	C|0.716;T|0.284	0.284	strong	.	ST6GAL2	159	.	NM_032528	exon3	c.G957A	p.A319A	CAAAACCGCATCA	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201195119	201195119	+	Missense_Mutation	SNP	C	C	T	rs3738270	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	59	87	0	0.62766	0	C|0.435;T|0.565	0.565	strong	IGFN1_ENST00000335211,caecum,carcinoma,0,6	IGFN1	220	6	NM_001164586	exon22	c.C10654T	p.H3552Y	CGCATCCACACCA	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43732823	43732823	+	Missense_Mutation	SNP	T	T	C	rs7578597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	59	123	0	0.395973	0	T|0.871;C|0.129	0.129	strong	.	THADA	131	.	NM_001083953	exon24	c.A3559G	p.T1187A	TCATTGTTATTTT	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84778762	84778762	+	Silent	SNP	C	C	T	rs4553618	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	47	66	0	0.546512	0	C|0.779;T|0.221	0.221	strong	.	USP10	51	.	NM_001272075	exon5	c.C687T	p.D229D	GCCTGACAGTCCT	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144941419	144941419	+	Silent	SNP	C	C	T	rs12681478	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	32	88	1	0.492308	0.0113636	C|0.740;T|0.260	0.260	strong	EPPK1,NS,carcinoma,0,1	EPPK1	199	1	NM_031308	exon1	c.G6003A	p.A2001A	TGCCTCCGCCTTC	.	scavenged	Atlas-SNP
UBD	10537	hgsc.bcm.edu	37	6	29523952	29523952	+	Missense_Mutation	SNP	A	A	G	rs2076485	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	84	180	0	0.617647	0	G|0.183;N|0.000	0.183	strong	UBD,caecum,carcinoma,0,1	UBD	13	1	NM_006398	exon2	c.T203C	p.I68T	TTGTCAATGCCAT	.	PASS	Atlas-SNP
COLEC11	78989	hgsc.bcm.edu	37	2	3673648	3673648	+	Silent	SNP	G	G	A	rs10170348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	32	85	0	0.405063	0	G|0.878;A|0.122	0.122	strong	.	COLEC11	93	.	NM_199235	exon4	c.G159A	p.K53K	AAGGAAGTGCACC	.	PASS	Atlas-SNP
PDIA3	2923	hgsc.bcm.edu	37	15	44038850	44038850	+	Missense_Mutation	SNP	G	G	T	rs61734331	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	29	59	0	0.508772	0	G|0.999;T|0.001	0.001	strong	.	PDIA3	40	.	NM_005313	exon1	c.G113T	p.R38L	AGAGTCGCATCTC	.	PASS	Atlas-SNP
ESR1	2099	hgsc.bcm.edu	37	6	152420095	152420095	+	Silent	SNP	G	G	A	rs2228480	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	22	41	0	0.44898	0	G|0.822;A|0.178	0.178	strong	.	ESR1	94	.	NM_000125	exon8	c.G1782A	p.T594T	TGCCACGGTCTGA	.	PASS	Atlas-SNP
ZNF311	282890	hgsc.bcm.edu	37	6	28964086	28964086	+	Silent	SNP	G	G	A	rs61751894	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	19	55	0	0.413043	0	G|0.919;A|0.081	0.081	strong	.	ZNF311	59	.	NM_001010877	exon7	c.C693T	p.N231N	TTTTGAGTTTGGA	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55540141	55540141	+	Silent	SNP	C	C	T	rs114557304	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	91	201	0	0.52	0	C|0.970;T|0.030	0.030	strong	.	RP1	429	.	NM_006269	exon4	c.C3699T	p.S1233S	AATCTCCTCTTTG	.	PASS	Atlas-SNP
RIPK3	11035	hgsc.bcm.edu	37	14	24805463	24805463	+	Missense_Mutation	SNP	G	G	T	rs3212254	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	38	58	0	0.481013	0	G|0.896;T|0.104	0.104	strong	.	RIPK3	43	.	NM_006871	exon10	c.C1475A	p.P492Q	ACTGGTGGGGGGT	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56369215	56369215	+	Silent	SNP	C	C	T	rs395503	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	115	117	0	1	0	C|0.574;T|0.426	0.426	strong	.	NLRP4	331	.	NM_134444	exon3	c.C456T	p.I152I	AGTGATCATTCAA	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	37	19	23545447	23545447	+	Missense_Mutation	SNP	A	A	G	rs296091	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	16	28	0	0.551724	0	A|0.841;G|0.159	0.159	strong	.	ZNF91	349	.	NM_003430	exon4	c.T334C	p.Y112H	TTTCATATTTTCT	.	PASS	Atlas-SNP
WNT9B	7484	hgsc.bcm.edu	37	17	44950122	44950122	+	Missense_Mutation	SNP	T	T	C	rs4968281	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	85	0	1	0	T|0.264;C|0.736	0.736	strong	.	WNT9B	37	.	NM_003396	exon2	c.T317C	p.M106T	GCAGGATGGGCCT	.	PASS	Atlas-SNP
ANKMY2	57037	hgsc.bcm.edu	37	7	16666741	16666741	+	Silent	SNP	T	T	G	rs11532682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	96	78	0	1	0	T|0.823;G|0.177	0.177	strong	.	ANKMY2	46	.	NM_020319	exon3	c.A195C	p.L65L	TCGCAGTAGTAAT	.	PASS	Atlas-SNP
POLR2D	5433	hgsc.bcm.edu	37	2	128608184	128608184	+	Silent	SNP	C	C	T	rs11556864	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	93	197	0	0.447115	0	C|0.907;T|0.093	0.093	strong	.	POLR2D	13	.	NM_004805	exon3	c.G330A	p.E110E	CTTGGACTCCTCA	.	PASS	Atlas-SNP
IGSF9B	22997	hgsc.bcm.edu	37	11	133788992	133788992	+	Missense_Mutation	SNP	T	T	C	rs12800905	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	16	21	0	0.533333	0	T|0.585;C|0.415	0.415	strong	.	IGSF9B	290	.	NM_014987	exon19	c.A3992G	p.Q1331R	TCTCTCTGCAGCT	.	PASS	Atlas-SNP
FAM189A1	23359	hgsc.bcm.edu	37	15	29421054	29421054	+	Missense_Mutation	SNP	C	C	T	rs2306933	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	22	35	0	0.478261	0	C|0.877;T|0.123	0.123	strong	.	FAM189A1	20	.	NM_015307	exon8	c.G941A	p.G314D	TGCTGACCTATAC	.	PASS	Atlas-SNP
PYGL	5836	hgsc.bcm.edu	37	14	51410969	51410969	+	Silent	SNP	G	G	A	rs77316189	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	71	62	0	0.986111	0	G|0.933;A|0.067	0.067	strong	PYGL,NS,carcinoma,0,1	PYGL	77	1	NM_002863	exon1	c.C153T	p.D51D	GTAGTAGTCGCGG	.	PASS	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329676	8329676	+	Missense_Mutation	SNP	C	C	T	rs10743252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	85	189	1	0.469613	0.00529101	C|0.481;T|0.519	0.519	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.C400T	p.R134C	ACTCAGCGTTTGT	.	scavenged	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99150237	99150237	+	Silent	SNP	G	G	A	rs41300219	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	18	20	0	0.580645	0	G|0.949;A|0.051	0.051	strong	.	RRP12	97	.	NM_015179	exon6	c.C696T	p.P232P	GGTCACGGGGTAG	.	PASS	Atlas-SNP
BTN1A1	696	hgsc.bcm.edu	37	6	26505403	26505403	+	Silent	SNP	C	C	A	rs3736782	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	68	79	0	0.985507	0	C|0.487;A|0.513	0.513	strong	.	BTN1A1	68	.	NM_001732	exon3	c.C678A	p.G226G	TCTTGGCCAGGAG	.	PASS	Atlas-SNP
SCGB1D2	10647	hgsc.bcm.edu	37	11	62010863	62010863	+	Missense_Mutation	SNP	C	C	T	rs2232950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	76	158	0	0.475	0	C|0.614;N|0.000	.	strong	.	SCGB1D2	11	.	NM_006551	exon2	c.C158T	p.P53L	CCCCTCCGGAAGC	.	PASS	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38046695	38046695	+	Missense_Mutation	SNP	C	C	A	rs12170939	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	59	110	0	0.517544	0	C|0.871;A|0.129	0.129	strong	.	SH3BP1	41	.	NM_018957	exon16	c.C1561A	p.P521T	CCAGCTCCGGCCC	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957570	111957570	+	Missense_Mutation	SNP	G	G	C	rs45455292	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	30	119	0	0.294118	0	G|0.853;C|0.147	0.147	strong	.	OVGP1	177	.	NM_002557	exon11	c.C1553G	p.T518S	CCAGGGGTCACAG	.	PASS	Atlas-SNP
REXO4	57109	hgsc.bcm.edu	37	9	136279935	136279935	+	Missense_Mutation	SNP	C	C	T	rs6597630	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	75	143	0	0.539568	0	C|0.889;T|0.111	0.111	strong	.	REXO4	27	.	NM_020385	exon2	c.G422A	p.R141K	GGCGCCCTCCTGT	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	37	16	31371674	31371674	+	Missense_Mutation	SNP	G	G	A	rs2230428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	83	132	0	0.468927	0	G|0.860;A|0.140	0.140	strong	ITGAX,colon,carcinoma,0,1	ITGAX	198	1	NM_000887	exon8	c.G751A	p.A251T	GATGCCGCCAAAA	.	PASS	Atlas-SNP
ATP6V0A2	23545	hgsc.bcm.edu	37	12	124229429	124229429	+	Silent	SNP	T	T	C	rs7135542	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	120	125	0	0.983607	0	T|0.266;C|0.734	0.734	strong	ATP6V0A2,NS,carcinoma,0,1	ATP6V0A2	68	1	NM_012463	exon13	c.T1515C	p.N505N	TTACAGTGACAGC	.	PASS	Atlas-SNP
CNRIP1	25927	hgsc.bcm.edu	37	2	68546449	68546449	+	Silent	SNP	G	G	A	rs13025842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	29	58	0	0.508772	0	G|0.780;A|0.220	0.220	strong	.	CNRIP1	45	.	NM_001111101	exon1	c.C84T	p.D28D	CTGCCCGTCCACC	.	PASS	Atlas-SNP
TOP1MT	116447	hgsc.bcm.edu	37	8	144392368	144392368	+	Missense_Mutation	SNP	G	G	A	rs2293925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	13	27	0	0.619048	0	G|0.617;A|0.383	0.383	strong	.	TOP1MT	63	.	NM_052963	exon13	c.C1573T	p.R525W	GGAGCCGCCTCTT	.	PASS	Atlas-SNP
C12orf54	121273	hgsc.bcm.edu	37	12	48884610	48884610	+	Missense_Mutation	SNP	C	C	T	rs61940778	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	38	83	0	0.387755	0	C|0.954;T|0.046	0.046	strong	.	C12orf54	11	.	NM_152319	exon6	c.C184T	p.R62W	GATGCTCGGATTC	.	PASS	Atlas-SNP
PPFIBP1	8496	hgsc.bcm.edu	37	12	27788021	27788021	+	Silent	SNP	G	G	A	rs2075378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	53	93	0	0.53	0	G|0.671;A|0.329	0.329	strong	.	PPFIBP1	153	.	NM_003622	exon4	c.G243A	p.T81T	AGAAACGCTTGTT	.	PASS	Atlas-SNP
BTN1A1	696	hgsc.bcm.edu	37	6	26505362	26505362	+	Missense_Mutation	SNP	G	G	A	rs3736781	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	110	126	0	1	0	G|0.485;A|0.515	0.515	strong	.	BTN1A1	68	.	NM_001732	exon3	c.G637A	p.A213T	ACTTCTGCGAAAA	.	PASS	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	37	15	48058071	48058071	+	Missense_Mutation	SNP	G	G	A	rs532598	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	39	128	0	0.419355	0	G|0.549;N|0.000	.	strong	.	SEMA6D	322	.	NM_153617	exon14	c.G1433A	p.S478N	GGTGCAGTGCTGA	.	PASS	Atlas-SNP
PI3	5266	hgsc.bcm.edu	37	20	43803606	43803606	+	Missense_Mutation	SNP	G	G	A	rs41282752	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	53	96	0	0.486239	0	G|0.973;A|0.027	0.027	strong	.	PI3	21	.	NM_002638	exon1	c.G43A	p.A15T	CTCATCGCTGGGA	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143740311	143740311	+	Missense_Mutation	SNP	A	A	C	rs117839538	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	54	86	0	0.486486	0	A|0.969;C|0.031	0.031	strong	.	.	.	.	NM_001077527	exon4	c.T1627G	p.L543V	TTGCCAACTCCTC	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38935280	38935280	+	Silent	SNP	A	A	G	rs2229139	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	129	98	0	1	0	A|0.408;G|0.592	0.592	strong	.	RYR1	708	.	NM_001042723	exon7	c.A594G	p.L198L	GACACTATGGAAC	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39139370	39139370	+	Missense_Mutation	SNP	G	G	A	rs9908304	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	20	64	0	0.377358	0	G|0.630;A|0.370	0.370	strong	.	KRT40	27	.	NM_182497	exon4	c.C458T	p.T153M	GCTTTCGTGCATA	.	PASS	Atlas-SNP
DCAF11	80344	hgsc.bcm.edu	37	14	24587667	24587667	+	Silent	SNP	C	C	T	rs17101367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	74	140	0	0.510345	0	C|0.753;N|0.000	.	strong	.	.	.	.	NM_025230	exon7	c.C648T	p.D216D	CCGCGACGTAGGC	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115381747	115381747	+	Missense_Mutation	SNP	G	G	A	rs868738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	74	161	0	0.448485	0	G|0.758;N|0.000	.	strong	NRAP,colon,carcinoma,0,2	NRAP	208	2	NM_001261463	exon24	c.C2650T	p.R884C	CTTTGCGGGCATG	.	PASS	Atlas-SNP
MAN2C1	4123	hgsc.bcm.edu	37	15	75650836	75650836	+	Silent	SNP	G	G	A	rs1128933	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	20	49	0	0.5	0	G|0.651;A|0.349	0.349	strong	.	MAN2C1	76	.	NM_001256494	exon20	c.C2421T	p.D807D	GCCAACGTCCAGC	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39915637	39915637	+	Silent	SNP	G	G	A	rs31727	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	37	40	0	1	0	G|0.437;A|0.563	0.563	strong	.	PLEKHG2	329	.	NM_022835	exon19	c.G3864A	p.Q1288Q	CAGCCAGAGCCTG	.	PASS	Atlas-SNP
RAPH1	65059	hgsc.bcm.edu	37	2	204306093	204306093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	61	43	0	0.663043	0	.	.	none	.	RAPH1	118	.	NM_213589	exon14	c.C1820T	p.P607L	AAAGGGGGCACAA	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126372742	126372742	+	Missense_Mutation	SNP	G	G	A	rs1567047	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	76	140	0	0.503311	0	G|0.769;A|0.231	0.231	strong	.	FAT4	1752	.	NM_024582	exon9	c.G10571A	p.G3524D	GGCCAGGCACTTT	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156276289	156276289	+	Silent	SNP	C	C	T	rs2341894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	135	0	1	0	C|0.324;T|0.676	0.676	strong	.	MAP9	79	.	NM_001039580	exon10	c.G1314A	p.V438V	TAAATACACATTT	.	PASS	Atlas-SNP
TMEM37	140738	hgsc.bcm.edu	37	2	120194682	120194682	+	Missense_Mutation	SNP	A	A	C	rs200510439	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	15	48	0	0.375	0	.	.	weak	.	TMEM37	40	.	NM_183240	exon2	c.A239C	p.H80P	AGGCCCATGTGCC	.	PASS	Atlas-SNP
HDAC7	51564	hgsc.bcm.edu	37	12	48177906	48177906	+	Silent	SNP	C	C	T	rs7306788	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	43	92	0	0.438776	0	C|0.879;G|0.000;T|0.121	0.121	strong	.	HDAC7	71	.	NM_015401	exon25	c.G2886A	p.V962V	TGCGGTCACTGCC	.	PASS	Atlas-SNP
CPNE6	9362	hgsc.bcm.edu	37	14	24545366	24545366	+	Silent	SNP	T	T	C	rs2070342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	49	88	0	0.532609	0	T|0.579;C|0.421	0.421	strong	.	CPNE6	40	.	NM_006032	exon11	c.T933C	p.I311I	GGCCATTGACTTC	.	PASS	Atlas-SNP
CD6	923	hgsc.bcm.edu	37	11	60776306	60776306	+	Missense_Mutation	SNP	C	C	T	rs2074225	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	79	59	0	0.9875	0	C|0.409;T|0.591	0.591	strong	CD6_ENST00000313421,NS,carcinoma,-1,2	CD6	122	2	NM_006725	exon4	c.C770T	p.A257V	CGGGCGCGGTGTG	.	PASS	Atlas-SNP
C20orf194	25943	hgsc.bcm.edu	37	20	3285140	3285140	+	Missense_Mutation	SNP	T	T	C	rs2422864	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	76	51	0	1	0	T|0.098;C|0.902	0.902	strong	.	C20orf194	83	.	NM_001009984	exon21	c.A1729G	p.R577G	TACTTCTATGACG	.	PASS	Atlas-SNP
DZIP1L	199221	hgsc.bcm.edu	37	3	137807259	137807259	+	Missense_Mutation	SNP	G	G	A	rs2724693	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	62	65	0	0.96875	0	G|0.448;A|0.552	0.552	strong	.	DZIP1L	88	.	NM_001170538	exon7	c.C961T	p.R321W	GCTCCCGTGCCTG	.	PASS	Atlas-SNP
ARHGAP17	55114	hgsc.bcm.edu	37	16	24955183	24955183	+	Silent	SNP	T	T	C	rs17624477	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	22	87	0	0.4	0	T|0.946;C|0.054	0.054	strong	.	ARHGAP17	138	.	NM_001006634	exon15	c.A1242G	p.G414G	AAGTGTTCTGCAA	.	PASS	Atlas-SNP
FSTL5	56884	hgsc.bcm.edu	37	4	163032498	163032498	+	Missense_Mutation	SNP	C	C	G	rs140747357	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	41	101	0	0.506173	0	C|0.996;G|0.004	0.004	strong	.	FSTL5	207	.	NM_001128428	exon2	c.G51C	p.E17D	TTCCGACTCCAGA	.	PASS	Atlas-SNP
GZMB	3002	hgsc.bcm.edu	37	14	25101589	25101589	+	Missense_Mutation	SNP	G	G	C	rs11539752	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	155	279	0	0.945122	0	G|0.724;C|0.276	0.276	strong	GZMB,NS,carcinoma,0,1	GZMB	73	1	NM_004131	exon3	c.C280G	p.P94A	GGATGGGTCTTTT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910752	29910752	+	Missense_Mutation	SNP	G	G	C	rs1136683	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	38	131	0	0.198953	0	C|0.195;G|0.805	0.195	strong	HLA-A,NS,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon2	c.G292C	p.D98H	CAGACTGACCGAG	.	PASS	Atlas-SNP
ZSWIM4	65249	hgsc.bcm.edu	37	19	13936385	13936385	+	Missense_Mutation	SNP	C	C	T	rs62620757	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	41	78	0	0.455556	0	C|0.892;T|0.108	0.108	strong	.	ZSWIM4	69	.	NM_023072	exon11	c.C1886T	p.T629M	TGCACACGGTACT	.	PASS	Atlas-SNP
TAF5L	27097	hgsc.bcm.edu	37	1	229730452	229730452	+	Silent	SNP	G	G	A	rs2295625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	48	94	0	0.461538	0	G|0.674;A|0.326	0.326	strong	.	TAF5L	76	.	NM_014409	exon5	c.C1362T	p.S454S	CTGAGCGCTCCAC	.	PASS	Atlas-SNP
DHDDS	79947	hgsc.bcm.edu	37	1	26786627	26786627	+	Missense_Mutation	SNP	G	G	A	rs3816539	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	50	108	0	0.510204	0	G|0.637;A|0.363	0.363	strong	DHDDS,NS,carcinoma,0,2	DHDDS	33	2	NM_024887	exon8	c.G757A	p.V253M	CATAGCGTGCTTC	.	PASS	Atlas-SNP
MAP2K3	5606	hgsc.bcm.edu	37	17	21203907	21203907	+	Silent	SNP	T	T	C	rs73311539	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	39	138	0	0.386139	0	T|0.741;C|0.259	0.259	strong	MAP2K3_ENST00000316920,NS,carcinoma,0,4	MAP2K3	135	4	NM_145109	exon4	c.T216C	p.R72R	GGGCCGTGGAGCC	.	PASS	Atlas-SNP
PFN4	375189	hgsc.bcm.edu	37	2	24342532	24342532	+	Silent	SNP	G	G	A	rs1134516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	8	17	0	0.285714	0	G|0.866;A|0.134	0.134	strong	.	PFN4	16	.	NM_199346	exon4	c.C276T	p.V92V	CTTCACGACAACC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29912042	29912042	+	Missense_Mutation	SNP	G	G	A	rs60318678		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	20	116	0	0.183486	0	A|1.000;|0.000	1.000	weak	HLA-A,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	HLA-A	89	1	NM_001242758	exon4	c.G763A	p.V255M	GAGCTCGTGGAGA	.	scavenged	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179069468	179069468	+	Missense_Mutation	SNP	A	A	G	rs62405726	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	19	41	0	0.422222	0	A|0.713;G|0.287	0.287	strong	C5orf60,caecum,carcinoma,+1,1	C5orf60	24	1	NM_001142306	exon5	c.T706C	p.W236R	GCCTCCACCTGCC	.	PASS	Atlas-SNP
INCENP	3619	hgsc.bcm.edu	37	11	61913196	61913196	+	Missense_Mutation	SNP	G	G	T	rs7129085	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	32	63	0	0.470588	0	G|0.625;T|0.375	0.375	strong	.	INCENP	122	.	NM_001040694	exon14	c.G1932T	p.E644D	AGAGGAGGCACGT	.	PASS	Atlas-SNP
TRIM10	10107	hgsc.bcm.edu	37	6	30121525	30121525	+	Silent	SNP	G	G	A	rs12210298	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	58	78	0	0.563107	0	G|0.970;A|0.030	0.030	strong	.	TRIM10	65	.	NM_052828	exon8	c.C1128T	p.D376D	GCCTGAGTCCCCA	.	PASS	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	37	17	73751175	73751175	+	Missense_Mutation	SNP	C	C	T	rs140501692	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	22	50	0	0.511628	0	C|1.000;T|0.000	0.000	weak	ITGB4_ENST00000339591,colon,carcinoma,+1,1	ITGB4	165	1	NM_001005619	exon33	c.C4388T	p.P1463L	GGCTTCCGCTGTC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9077264	9077264	+	Silent	SNP	T	T	G	rs1862461	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	225	118	251	0	0.524444	0	T|0.748;G|0.252	0.252	strong	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon3	c.A10182C	p.V3394V	GGTGCTTACCCAT	.	PASS	Atlas-SNP
CHST15	51363	hgsc.bcm.edu	37	10	125798111	125798111	+	Silent	SNP	T	T	C	rs28375663	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	52	112	0	0.412698	0	T|0.852;C|0.148	0.148	strong	CHST15_ENST00000421115,NS,carcinoma,0,2	CHST15	134	2	NM_014863	exon5	c.A1110G	p.P370P	AAACGGTGGCTCG	.	PASS	Atlas-SNP
BMPER	168667	hgsc.bcm.edu	37	7	34091570	34091570	+	Silent	SNP	T	T	G	rs117988035	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	43	97	0	0.275641	0	T|0.990;G|0.010	0.010	strong	.	BMPER	131	.	NM_133468	exon9	c.T774G	p.A258A	CACAGCTTGTACC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9049726	9049726	+	Silent	SNP	G	G	A	rs11670328	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	85	159	0	0.5	0	G|0.737;A|0.263	0.263	strong	.	MUC16	4315	.	NM_024690	exon5	c.C31905T	p.D10635D	GCTGACGTCTGCC	.	PASS	Atlas-SNP
ACAD11	84129	hgsc.bcm.edu	37	3	132361596	132361596	+	Silent	SNP	G	G	A	rs9877018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	228	83	226	1	0.364035	0.00442478	G|0.953;A|0.047	0.047	strong	ACAD11,NS,carcinoma,-2,2	ACAD11	78	2	NM_032169	exon3	c.C300T	p.P100P	GGGAACGGGGAAT	.	scavenged	Atlas-SNP
ZNF846	162993	hgsc.bcm.edu	37	19	9868404	9868404	+	Missense_Mutation	SNP	C	C	T	rs10414485	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	40	127	0	0.347826	0	C|0.749;T|0.251	0.251	strong	.	ZNF846	61	.	NM_001077624	exon6	c.G1349A	p.C450Y	CATTCACAGGCCT	.	PASS	Atlas-SNP
COMMD10	51397	hgsc.bcm.edu	37	5	115428334	115428334	+	Silent	SNP	G	G	T	rs1129494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	79	94	0	1	0	G|0.536;T|0.464	0.464	strong	COMMD10,NS,carcinoma,0,1	COMMD10	18	1	NM_016144	exon4	c.G336T	p.T112T	CAATACGTGGTCT	.	PASS	Atlas-SNP
RARS2	57038	hgsc.bcm.edu	37	6	88239365	88239365	+	Missense_Mutation	SNP	C	C	T	rs145297855	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	3	127	0	0.0211268	0	A|0.000;C|1.000;T|0.000	0.000	strong	RARS2,NS,carcinoma,0,2	RARS2	61	2	NM_020320	exon10	c.G773A	p.R258H	CCCAGACGCTAAA	.	scavenged	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18219835	18219835	+	Silent	SNP	T	T	C	rs3829956	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	81	111	0	1	0	T|0.772;C|0.228	0.228	strong	.	SMCR8	62	.	NM_144775	exon1	c.T732C	p.I244I	CATCATTGAACAT	.	PASS	Atlas-SNP
NRP1	8829	hgsc.bcm.edu	37	10	33559711	33559711	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	2	172	0	0.0106952	0	.	.	none	NRP1_ENST00000374823,NS,carcinoma,0,3	NRP1	126	3	NM_001244973	exon3	c.G322T	p.A108S	GAGGGGCTATCTT	.	scavenged	Atlas-SNP
MYBL2	4605	hgsc.bcm.edu	37	20	42320881	42320881	+	Silent	SNP	C	C	T	rs2229036	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	19	50	0	0.487179	0	C|0.953;T|0.047	0.047	strong	.	MYBL2	82	.	NM_002466	exon6	c.C585T	p.D195D	CAAAGACTGCAAG	.	PASS	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12125772	12125772	+	Missense_Mutation	SNP	A	A	G	rs1126472	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	38	74	0	0.44186	0	A|0.845;G|0.155	0.155	strong	.	HIVEP1	242	.	NM_002114	exon4	c.A5744G	p.Q1915R	GTCAACAGCCAGT	.	PASS	Atlas-SNP
OR2K2	26248	hgsc.bcm.edu	37	9	114089882	114089882	+	Missense_Mutation	SNP	C	C	T	rs61748723	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	79	143	0	0.512987	0	C|0.939;T|0.061	0.061	strong	OR2K2_ENST00000374428,NS,malignant_melanoma,+1,2	OR2K2	77	2	NM_205859	exon1	c.G832A	p.G278R	GCACTCCGTAAAG	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113479820	113479820	+	Missense_Mutation	SNP	A	A	G	rs368865	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	76	183	0	0.406417	0	A|0.187;G|0.813	0.813	strong	ATP11A,NS,carcinoma,0,1	ATP11A	225	1	NM_032189	exon11	c.A949G	p.M317V	AAATACATGTGGC	.	PASS	Atlas-SNP
ODAM	54959	hgsc.bcm.edu	37	4	71068489	71068489	+	Missense_Mutation	SNP	T	T	C	rs3196714	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	83	176	0	0.427835	0	C|0.258;N|0.001	0.258	strong	.	ODAM	38	.	NM_017855	exon9	c.T665C	p.I222T	AAGAGATACCATA	.	PASS	Atlas-SNP
CXCR7	57007	hgsc.bcm.edu	37	2	237489904	237489904	+	Silent	SNP	C	C	T	rs1045879	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	56	90	0	0.56	0	C|0.632;T|0.368	0.368	strong	CXCR7_ENST00000272928,lower_third,carcinoma,-1,1	CXCR7	72	1	NM_020311	exon2	c.C796T	p.L266L	TGCTGGCTGCCCT	.	PASS	Atlas-SNP
KRT39	390792	hgsc.bcm.edu	37	17	39114962	39114962	+	Missense_Mutation	SNP	C	C	T	rs7213256	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	76	118	0	0.542857	0	C|0.741;T|0.259	0.259	strong	KRT39,colon,carcinoma,0,1	KRT39	53	1	NM_213656	exon7	c.G1367A	p.R456Q	AGTATCCGGGACA	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33643558	33643558	+	Silent	SNP	G	G	A	rs2229637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	44	113	0	0.37931	0	G|0.786;A|0.214	0.214	strong	ITPR3_ENST00000374316,NS,carcinoma,0,2	ITPR3	409	2	NM_002224	exon25	c.G3207A	p.P1069P	TGCGCCGCTGGTC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076858	9076858	+	Missense_Mutation	SNP	C	C	T	rs2547074	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	299	145	273	1	0.48495	0.003663	C|0.749;T|0.251	0.251	strong	.	MUC16	4315	.	NM_024690	exon3	c.G10588A	p.V3530I	TGGTTACGTCCAG	.	PASS	Atlas-SNP
SLIT3	6586	hgsc.bcm.edu	37	5	168175324	168175324	+	Silent	SNP	G	G	T	rs17634681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	29	50	0	0.537037	0	G|0.957;T|0.043	0.043	strong	.	SLIT3	224	.	NM_001271946	exon20	c.C2253A	p.P751P	ATCCTTGGGCATG	.	PASS	Atlas-SNP
PRPF40B	25766	hgsc.bcm.edu	37	12	50037071	50037071	+	Silent	SNP	G	G	A	rs115544158	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	23	64	0	0.418182	0	G|0.987;A|0.013	0.013	strong	PRPF40B,colon,carcinoma,+2,1	PRPF40B	83	1	NM_001031698	exon23	c.G2271A	p.R757R	GAGGCGGAACCCC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13913885	13913885	+	Silent	SNP	A	A	G	rs3213936	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	45	102	0	0.529412	0	A|0.439;G|0.561	0.561	strong	.	DNAH5	868	.	NM_001369	exon11	c.T1503C	p.I501I	CCCTTCAATTGTG	.	PASS	Atlas-SNP
RPP38	10557	hgsc.bcm.edu	37	10	15146061	15146061	+	Missense_Mutation	SNP	C	C	G	rs34040166	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	50	106	0	0.434783	0	C|0.945;G|0.055	0.055	strong	.	RPP38	26	.	NM_001265601	exon2	c.C748G	p.R250G	GACGGTCGGCAGG	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32906729	32906729	+	Missense_Mutation	SNP	A	A	C	rs144848	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	31	79	0	0.413333	0	T|0.005;G|0.003	.	strong	BRCA2_ENST00000544455,NS,carcinoma,0,1	BRCA2	812	1	NM_000059	exon10	c.A1114C	p.N372H	GTAGCAAATCAGA	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	62038544	62038544	+	Silent	SNP	A	A	G	rs1031688	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	57	141	0	0.475	0	A|0.975;G|0.025	0.025	strong	.	ANK3	703	.	NM_020987	exon4	c.T402C	p.N134N	TTGTGCATTGACA	.	PASS	Atlas-SNP
TMEM222	84065	hgsc.bcm.edu	37	1	27660731	27660731	+	Silent	SNP	G	G	C	rs6663062	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	59	116	0	0.487603	0	G|0.969;C|0.031	0.031	strong	.	TMEM222	16	.	NM_032125	exon5	c.G498C	p.V166V	TATGGTGACGCTC	.	PASS	Atlas-SNP
ARPP21	10777	hgsc.bcm.edu	37	3	35778773	35778773	+	Silent	SNP	A	A	G	rs2278757	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	58	50	0	0.95082	0	A|0.525;G|0.475	0.475	strong	.	ARPP21	153	.	NM_016300	exon16	c.A1563G	p.P521P	GCAGCCACCACAG	.	PASS	Atlas-SNP
OR6P1	128366	hgsc.bcm.edu	37	1	158533140	158533140	+	Silent	SNP	A	A	G	rs12080815	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	22	53	0	0.34375	0	A|0.465;G|0.535	0.535	strong	OR6P1,NS,carcinoma,0,1	OR6P1	47	1	NM_001160325	exon1	c.T255C	p.F85F	GGTAAGAAAGGCT	.	PASS	Atlas-SNP
FAM162B	221303	hgsc.bcm.edu	37	6	117086378	117086378	+	Missense_Mutation	SNP	C	C	A	rs654128	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	14	32	0	0.538462	0	C|0.895;A|0.105	0.105	strong	.	FAM162B	19	.	NM_001085480	exon2	c.G213T	p.Q71H	GTCGAACTGCGAA	.	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	37	14	23884930	23884930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	2	103	1	0.0176991	0.00970874	.	.	none	MYH7,caecum,carcinoma,0,3	MYH7	349	3	NM_000257	exon35	c.C5065T	p.R1689C	CGGCACGCAACTC	.	scavenged	Atlas-SNP
MRPL34	64981	hgsc.bcm.edu	37	19	17417080	17417080	+	Silent	SNP	C	C	T	rs11548548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	45	52	0	0.505618	0	C|0.936;T|0.064	0.064	strong	.	MRPL34	5	.	NM_023937	exon2	c.C171T	p.N57N	GAGCAACATCAAA	.	PASS	Atlas-SNP
SYNGR1	9145	hgsc.bcm.edu	37	22	39777880	39777880	+	Silent	SNP	C	C	T	rs74681509	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	34	96	0	0.377778	0	C|1.000;T|0.000	0.000	strong	SYNGR1,colon,carcinoma,0,1	SYNGR1	19	1	NM_004711	exon4	c.C663T	p.F221F	CACCTTCGACACC	.	PASS	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	37	2	239059686	239059686	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	2	122	0	0.0152672	0	.	.	none	KLHL30_ENST00000409223,caecum,carcinoma,0,2	KLHL30	79	2	NM_198582	exon8	c.G1717A	p.G573S	CCCTCCGGCCCCA	.	scavenged	Atlas-SNP
FAM135B	51059	hgsc.bcm.edu	37	8	139149406	139149406	+	Silent	SNP	G	G	A	rs6577876	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	39	117	0	0.448276	0	G|0.777;A|0.223	0.223	strong	.	FAM135B	423	.	NM_015912	exon19	c.C3999T	p.L1333L	GTCTTTGAGGGCA	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38763863	38763863	+	Silent	SNP	G	G	C	rs6771157	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	103	118	0	1	0	G|0.767;C|0.233	0.233	strong	.	SCN10A	359	.	NM_006514	exon19	c.C3393G	p.T1131T	ACTCTTGGTGGTA	.	PASS	Atlas-SNP
RAB5A	5868	hgsc.bcm.edu	37	3	20017628	20017628	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	259	4	149	0	0.015444	0	.	.	none	RAB5A,caecum,carcinoma,+1,1	RAB5A	19	1	NM_004162	exon4	c.C405T	p.A135A	CAAGGCCGACCTA	.	scavenged	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220315970	220315970	+	Silent	SNP	G	G	A	rs10932806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	27	56	0	0.428571	0	G|0.544;A|0.456	0.456	strong	.	SPEG	272	.	NM_005876	exon5	c.G2226A	p.K742K	GCTCAAGTGTATC	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143745981	143745981	+	Missense_Mutation	SNP	G	G	A	rs35419434	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	30	22	0	0.625	0	G|0.971;A|0.029	0.029	strong	.	.	.	.	NM_003724	exon3	c.C1495T	p.R499C	CAAAGCGCAGGAC	.	PASS	Atlas-SNP
CCDC153	283152	hgsc.bcm.edu	37	11	119063908	119063908	+	Missense_Mutation	SNP	C	C	T	rs2301574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	28	44	0	0.583333	0	C|0.728;T|0.272	0.272	strong	CCDC153,NS,carcinoma,0,1	CCDC153	19	1	NM_001145018	exon5	c.G302A	p.R101H	TTGCTGCGGGTTT	.	PASS	Atlas-SNP
ZNF19	7567	hgsc.bcm.edu	37	16	71509588	71509588	+	Silent	SNP	G	G	A	rs2288487	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	26	61	0	0.509804	0	G|0.747;A|0.253	0.253	strong	ZNF19,NS,carcinoma,0,1	ZNF19	46	1	NM_006961	exon6	c.C862T	p.L288L	GAAGTAGGGGTGA	.	PASS	Atlas-SNP
ALX4	60529	hgsc.bcm.edu	37	11	44286566	44286566	+	Silent	SNP	G	G	A	rs3802805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	49	93	0	0.485149	0	G|0.699;A|0.301	0.301	strong	ALX4,NS,adenoma,0,1	ALX4	58	1	NM_021926	exon4	c.C1074T	p.H358H	GCCCACGTGACTG	.	PASS	Atlas-SNP
USP34	9736	hgsc.bcm.edu	37	2	61415492	61415492	+	Silent	SNP	A	A	G	rs14170	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	76	73	0	0.987013	0	A|0.525;G|0.475	0.475	strong	.	USP34	334	.	NM_014709	exon80	c.T10386C	p.A3462A	TTCCTCAGCTAGG	.	PASS	Atlas-SNP
S100A5	6276	hgsc.bcm.edu	37	1	153509892	153509892	+	Silent	SNP	A	A	G	rs2248745	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	56	103	0	0.370861	0	A|0.877;G|0.123	0.123	strong	S100A5,NS,carcinoma,-2,1	S100A5	10	1	NM_002962	exon4	c.T159C	p.D53D	CAAGTCATCGATG	.	PASS	Atlas-SNP
APLF	200558	hgsc.bcm.edu	37	2	68794483	68794483	+	Missense_Mutation	SNP	C	C	A	rs36021078	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	96	185	0	0.497409	0	C|0.973;A|0.027	0.027	strong	APLF,NS,carcinoma,-1,1	APLF	69	1	NM_173545	exon9	c.C1297A	p.Q433K	AATCCCCAGCACA	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91498254	91498254	+	Missense_Mutation	SNP	A	A	G	rs1886997	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	51	98	0	0.439655	0	A|0.698;G|0.302	0.302	strong	.	KIF20B	191	.	NM_016195	exon20	c.A3536G	p.N1179S	ATTTAAATGTAAA	.	PASS	Atlas-SNP
POTEH	23784	hgsc.bcm.edu	37	22	16287538	16287538	+	Silent	SNP	G	G	A	rs200179046	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	270	22	128	1	0.0814815	0.0078125	A|0.008;C|0.006;G|0.986	0.008	strong	POTEH,colon,carcinoma,0,1	POTEH	114	1	NM_001136213	exon1	c.C348T	p.N116N	GCCCACGTTGCTC	.	scavenged	Atlas-SNP
EPHB1	2047	hgsc.bcm.edu	37	3	134898742	134898742	+	Silent	SNP	C	C	T	rs1042787	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	55	186	0	0.287958	0	C|0.508;T|0.492	0.492	strong	.	EPHB1	519	.	NM_004441	exon10	c.C1800T	p.Y600Y	CACTTACGAGGAT	.	PASS	Atlas-SNP
CEP170B	283638	hgsc.bcm.edu	37	14	105352651	105352651	+	Missense_Mutation	SNP	C	C	T	rs62641737	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	20	27	0	0.540541	0	C|0.985;T|0.015	0.015	strong	.	.	.	.	NM_001112726	exon12	c.C2075T	p.S692F	AGGGGTCCCTGCC	.	PASS	Atlas-SNP
NCOA4	8031	hgsc.bcm.edu	37	10	51568378	51568378	+	Missense_Mutation	SNP	T	T	G	rs10761581	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	96	117	0	0.969697	0	T|0.572;G|0.428	0.428	strong	NCOA4_ENST00000452682,NS,carcinoma,0,1	NCOA4	58	1	NM_001145261	exon2	c.T22G	p.F8V	ACCACTTTTGCTC	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17083837	17083837	+	Missense_Mutation	SNP	T	T	C	rs7798	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	244	16	203	9	0.0655738	0.044335	T|0.943;C|0.057	0.057	strong	Q13209_HUMAN,NS,carcinoma,0,1	.	.	1	NM_001271733	exon15	c.A1960G	p.K654E	TTCCTTTCAGGAC	.	scavenged	Atlas-SNP
NADK	65220	hgsc.bcm.edu	37	1	1684472	1684472	+	Silent	SNP	C	C	T	rs7407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	84	144	1	0.43299	0.00694444	C|0.648;T|0.352	0.352	strong	NADK,NS,carcinoma,-2,1	NADK	79	1	NM_001198994	exon14	c.G1647A	p.P549P	GGGGAGCGGGTAG	.	scavenged	Atlas-SNP
STOX2	56977	hgsc.bcm.edu	37	4	184930646	184930646	+	Missense_Mutation	SNP	G	G	A	rs61730738	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	24	62	0	0.428571	0	G|0.982;A|0.018	0.018	strong	.	STOX2	142	.	NM_020225	exon3	c.G655A	p.A219T	AAGTCTGCCAAGG	.	PASS	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10713765	10713765	+	Silent	SNP	T	T	C	rs284294	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	12	51	0	0.324324	0	T|0.453;C|0.547	0.547	strong	CASZ1,colon,carcinoma,0,1	CASZ1	150	1	NM_001079843	exon11	c.A2349G	p.S783S	GGGGATTGAGCCA	.	PASS	Atlas-SNP
FBLN2	2199	hgsc.bcm.edu	37	3	13679335	13679335	+	Silent	SNP	C	C	T	rs1061376	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	63	113	0	0.538462	0	C|0.518;N|0.000	.	strong	.	FBLN2	137	.	NM_001004019	exon18	c.C3612T	p.D1204D	CCTGGACGTGGAG	.	PASS	Atlas-SNP
KLHL17	339451	hgsc.bcm.edu	37	1	900505	900505	+	Silent	SNP	G	G	C	rs28705211	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	36	92	0	0.423529	0	G|0.802;C|0.198	0.198	strong	KLHL17,NS,carcinoma,0,1	KLHL17	31	1	NM_198317	exon12	c.G1863C	p.V621V	GGCGGTGCTGGAG	.	PASS	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	37	3	7620789	7620789	+	Silent	SNP	T	T	C	rs1485175	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	273	273	177	1	1	0.00564972	T|0.451;C|0.549	0.549	strong	.	GRM7	223	.	NM_000844	exon8	c.T2196C	p.Y732Y	AGACTATGATGAA	.	PASS	Atlas-SNP
PIGL	9487	hgsc.bcm.edu	37	17	16203290	16203290	+	Missense_Mutation	SNP	C	C	A	rs115958467	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	40	58	0	0.547945	0	C|0.996;A|0.004	0.004	strong	.	PIGL	16	.	NM_004278	exon3	c.C424A	p.L142M	ATCAATCTGGTAA	.	PASS	Atlas-SNP
BCL7A	605	hgsc.bcm.edu	37	12	122468687	122468687	+	Silent	SNP	C	C	T	rs2272132	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	114	114	0	1	0	C|0.964;T|0.036	0.036	strong	.	BCL7A	31	.	NM_020993	exon2	c.C174T	p.D58D	TGATGACGTGAGT	.	PASS	Atlas-SNP
WSCD1	23302	hgsc.bcm.edu	37	17	6012955	6012955	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	19	65	0	0.301587	0	.	.	none	.	WSCD1	84	.	NM_015253	exon6	c.G878A	p.W293X	GGGGCTGGGAATG	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1085966	1085966	+	Silent	SNP	A	A	G	rs3761028	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	98	97	0	0.970297	0	T|0.000;G|0.587;C|0.000;A|0.413	0.587	strong	HMHA1,NS,carcinoma,0,1	HMHA1	78	1	NM_001258328	exon23	c.A3420G	p.T1140T	GATGACACTGGGC	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140995315	140995315	+	Missense_Mutation	SNP	C	C	T	rs56256227	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	48	41	0	1	0	C|0.922;T|0.078	0.078	strong	.	MAGEC1	317	.	NM_005462	exon4	c.C2125T	p.H709Y	TCTCTCCATTTTC	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887282	52887282	+	Missense_Mutation	SNP	A	A	G	rs324125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	67	123	0	0.523438	0	A|0.833;G|0.167	0.167	strong	.	ZNF880	45	.	NM_001145434	exon4	c.A449G	p.Y150C	AAATTTATTCTAG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092890	1092890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	5	39	0	0.121951	0	.	.	none	MUC2_ENST00000441003,NS,carcinoma,-1,2	MUC2	614	2	NM_002457	exon30	c.C4709T	p.T1570I	CGGTGACCCCAAC	.	scavenged	Atlas-SNP
C9orf24	84688	hgsc.bcm.edu	37	9	34379692	34379692	+	Missense_Mutation	SNP	C	C	T	rs3737242	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	52	109	0	0.422764	0	C|0.860;T|0.140	0.140	strong	.	C9orf24	15	.	NM_001252195	exon4	c.G341A	p.C114Y	ACAGCACACTGCA	.	PASS	Atlas-SNP
TICAM1	148022	hgsc.bcm.edu	37	19	4818378	4818378	+	Silent	SNP	T	T	C	rs7255265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	21	48	0	0.512195	0	T|0.268;C|0.732	0.732	strong	.	TICAM1	69	.	NM_182919	exon2	c.A12G	p.T4T	TGGGCCTGTGCAG	.	PASS	Atlas-SNP
SAFB2	9667	hgsc.bcm.edu	37	19	5590291	5590291	+	Silent	SNP	G	G	T	rs117896034	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	28	71	0	0.466667	0	G|0.984;T|0.016	0.016	strong	.	SAFB2	90	.	NM_014649	exon18	c.C2523A	p.P841P	TAACCTGGGGGGA	.	PASS	Atlas-SNP
CCDC164	92749	hgsc.bcm.edu	37	2	26679362	26679362	+	Missense_Mutation	SNP	G	G	A	rs35313480	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	74	138	0	0.420455	0	G|0.960;A|0.040	0.040	strong	.	CCDC164	84	.	NM_145038	exon17	c.G2200A	p.V734M	ACTCAGGTGTTGC	.	PASS	Atlas-SNP
SGCD	6444	hgsc.bcm.edu	37	5	155771579	155771579	+	Silent	SNP	T	T	C	rs1801193	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	212	98	252	1	0.462264	0.00396825	T|0.516;C|0.484	0.484	strong	.	SGCD	52	.	NM_000337	exon3	c.T84C	p.Y28Y	GATTTATGGCTGG	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3999199	3999199	+	Silent	SNP	C	C	T	rs12947597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	32	61	0	0.421053	0	C|0.834;T|0.166	0.166	strong	.	ZZEF1	195	.	NM_015113	exon11	c.G1839A	p.A613A	TTCTTCCGCACAA	.	PASS	Atlas-SNP
MAML2	84441	hgsc.bcm.edu	37	11	95825401	95825401	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	29	100	1	0.329545	0.01	.	.	none	MAML2,caecum,carcinoma,0,2	MAML2	94	2	NM_032427	exon2	c.G1794A	p.Q598Q	CTGCTGCTGCTGC	.	scavenged	Atlas-SNP
PACS2	23241	hgsc.bcm.edu	37	14	105858022	105858022	+	Missense_Mutation	SNP	C	C	T	rs147461490	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	53	40	0	0.595506	0	C|0.965;T|0.035	0.035	strong	PACS2,caecum,carcinoma,-1,4	PACS2	75	4	NM_001100913	exon22	c.C2174T	p.P725L	CCCCGCCGTCCGC	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220354365	220354365	+	Silent	SNP	C	C	T	rs56132883	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	53	104	0	0.540816	0	C|0.748;T|0.252	0.252	strong	.	SPEG	272	.	NM_005876	exon36	c.C8625T	p.F2875F	GCCTTTCGTCCTT	.	PASS	Atlas-SNP
KLHDC7B	113730	hgsc.bcm.edu	37	22	50987287	50987287	+	Missense_Mutation	SNP	A	A	G	rs5770886	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	11	6	2	0.55	0.333333	A|0.627;G|0.373	0.373	strong	KLHDC7B_ENST00000395676,NS,carcinoma,0,2	KLHDC7B	39	2	NM_138433	exon1	c.A692G	p.Q231R	TTGCCCAGCAGCA	.	scavenged	Atlas-SNP
NMUR2	56923	hgsc.bcm.edu	37	5	151784183	151784183	+	Silent	SNP	G	G	A	rs3749787	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	65	62	0	1	0	G|0.781;A|0.219	0.219	strong	NMUR2,NS,carcinoma,-2,1	NMUR2	111	1	NM_020167	exon1	c.C492T	p.L164L	GATCCTGAGGGCC	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70227964	70227964	+	Silent	SNP	C	C	T	rs10998205	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	38	96	0	0.417582	0	C|0.901;T|0.099	0.099	strong	.	DNA2	76	.	NM_001080449	exon3	c.G357A	p.L119L	TGGATACAGAATC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179611847	179611847	+	Silent	SNP	T	T	G	rs141105907	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	35	132	0	0.236486	0	T|0.998;G|0.002	0.002	strong	.	TTN	18412	.	NM_133379	exon46	c.A15280C	p.R5094R	AGTATCTCTCCAG	.	PASS	Atlas-SNP
BTN1A1	696	hgsc.bcm.edu	37	6	26509330	26509330	+	Missense_Mutation	SNP	C	C	G	rs9393728	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	67	0	1	0	C|0.505;G|0.495	0.495	strong	.	BTN1A1	68	.	NM_001732	exon7	c.C1509G	p.D503E	GGAGGACTCTGCC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29843833	29843833	+	Silent	SNP	C	C	T	rs1547169	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	36	67	0	0.5625	0	C|0.740;T|0.260	0.260	strong	.	SVIL	226	.	NM_003174	exon7	c.G39A	p.G13G	TTCAATCCCTTCC	.	PASS	Atlas-SNP
MAPK8IP3	23162	hgsc.bcm.edu	37	16	1817855	1817855	+	Silent	SNP	C	C	T	rs118038816	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	47	65	0	0.559524	0	C|0.995;T|0.005	0.005	strong	.	MAPK8IP3	164	.	NM_015133	exon28	c.C3456T	p.V1152V	GCTTGTCGCGGGC	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19181015	19181015	+	Missense_Mutation	SNP	G	G	C	rs34447754	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	32	63	0	0.571429	0	G|0.720;C|0.280	0.280	strong	.	TAS1R2	134	.	NM_152232	exon3	c.C949G	p.R317G	AGTGGCGCAGCTC	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249152	71249152	+	Silent	SNP	C	C	T	rs112809261	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	16	89	0	0.213333	0	C|0.896;T|0.104	0.104	strong	KRTAP5-8,NS,carcinoma,+1,1	KRTAP5-8	28	1	NM_021046	exon1	c.C51T	p.C17C	GGGCTGCGGCTCT	.	scavenged	Atlas-SNP
OBSL1	23363	hgsc.bcm.edu	37	2	220427347	220427347	+	Silent	SNP	G	G	T	rs10804275	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	39	81	0	0.453488	0	C|0.000;G|0.794;T|0.206	0.206	strong	.	OBSL1	120	.	NM_001173431	exon8	c.C2730A	p.A910A	GCGCACGGCTGCC	.	PASS	Atlas-SNP
GRPR	2925	hgsc.bcm.edu	37	X	16168677	16168677	+	Silent	SNP	T	T	C	rs4986946	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	89	90	0	1	0	0|0.003;C|0.426	0.426	strong	.	GRPR	51	.	NM_005314	exon2	c.T663C	p.I221I	CGTCATTCCACTG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32551958	32551958	+	Missense_Mutation	SNP	C	C	T	rs1064592	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	31	93	0	0.911765	0	T|0.683;C|0.317	0.683	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.G298A	p.A100T	CCCGCGCCTGCTC	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204396830	204396830	+	Silent	SNP	G	G	A	rs17334387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	37	91	0	0.366337	0	G|0.857;A|0.143	0.143	strong	.	PIK3C2B	142	.	NM_002646	exon32	c.C4533T	p.S1511S	GGAGATGGACAGC	.	PASS	Atlas-SNP
GTF3C4	9329	hgsc.bcm.edu	37	9	135554566	135554566	+	Silent	SNP	G	G	A	rs371169	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	63	179	0	0.364162	0	G|0.531;A|0.469	0.469	strong	GTF3C4,colon,carcinoma,0,1	GTF3C4	53	1	NM_012204	exon2	c.G1560A	p.E520E	TGAAGAGGCAGCT	.	PASS	Atlas-SNP
TRIM26	7726	hgsc.bcm.edu	37	6	30154049	30154049	+	Silent	SNP	G	G	A	rs16897204	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	33	75	0	0.39759	0	G|0.968;A|0.032	0.032	strong	.	TRIM26	74	.	NM_001242783	exon9	c.C1224T	p.D408D	CCAGTCGTCATAT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238009	31238009	+	Silent	SNP	T	T	C	rs1131014	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	35	91	0	0.972222	0	T|0.651;C|0.349	0.349	strong	HLA-C_ENST00000383329,colon,carcinoma,0,2	HLA-C	92	2	NM_002117	exon4	c.A873G	p.Q291Q	GGGCTCTTGCAGC	.	scavenged	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6532519	6532519	+	Missense_Mutation	SNP	C	C	T	rs4758423	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	74	148	0	0.453988	0	C|0.748;T|0.252	0.252	strong	DNHD1,NS,adenoma,0,2	DNHD1	198	2	NM_173589	exon6	c.C1252T	p.H418Y	GAGCTACACTCTG	.	PASS	Atlas-SNP
KRT6C	286887	hgsc.bcm.edu	37	12	52865900	52865900	+	Silent	SNP	C	C	T	rs117030701	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	244	125	248	0	0.512295	0	C|0.940;T|0.060	0.060	strong	.	KRT6C	55	.	NM_173086	exon2	c.G705A	p.L235L	CGAGTCCAGGCGG	.	PASS	Atlas-SNP
TMEM52B	120939	hgsc.bcm.edu	37	12	10339178	10339178	+	Silent	SNP	C	C	T	rs4764308	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	16	52	0	0.363636	0	C|0.970;T|0.030	0.030	strong	.	.	.	.	NM_153022	exon3	c.C237T	p.S79S	CCAGAGCACTATC	.	PASS	Atlas-SNP
DNTTIP2	30836	hgsc.bcm.edu	37	1	94343233	94343233	+	Silent	SNP	T	T	C	rs3789457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	49	124	0	0.392	0	T|0.239;C|0.761	0.761	strong	.	DNTTIP2	59	.	NM_014597	exon2	c.A258G	p.E86E	AGAGGTTTCTCCA	.	PASS	Atlas-SNP
SLC23A2	9962	hgsc.bcm.edu	37	20	4855309	4855309	+	Silent	SNP	G	G	A	rs41282100	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	29	79	0	0.483333	0	G|0.990;A|0.010	0.010	strong	.	SLC23A2	62	.	NM_203327	exon10	c.C858T	p.Y286Y	TCTGGCGTATTGA	.	PASS	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329833	8329833	+	Missense_Mutation	SNP	G	G	A	rs11043758	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	55	161	1	0.426357	0.00621118	G|0.506;A|0.494	0.494	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.G557A	p.R186H	GCTTTCGCCTTAG	.	scavenged	Atlas-SNP
RPS6KA2	6196	hgsc.bcm.edu	37	6	166912062	166912062	+	Silent	SNP	C	C	T	rs2230732	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	36	74	0	0.473684	0	C|0.805;T|0.194	0.194	strong	.	RPS6KA2	212	.	NM_001006932	exon9	c.G705A	p.A235A	CTCGGGCGCCATG	.	PASS	Atlas-SNP
SLITRK6	84189	hgsc.bcm.edu	37	13	86370422	86370422	+	Silent	SNP	G	G	A	rs35342386	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	58	120	0	0.479339	0	G|0.983;A|0.017	0.017	strong	.	SLITRK6	150	.	NM_032229	exon2	c.C222T	p.N74N	CAAGCCGTTATTT	.	PASS	Atlas-SNP
UPF2	26019	hgsc.bcm.edu	37	10	12071397	12071397	+	Silent	SNP	G	G	A	rs11257490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	55	113	0	0.486726	0	G|0.765;A|0.235	0.235	strong	.	UPF2	111	.	NM_080599	exon3	c.C492T	p.L164L	TGAGTCGAGGCGG	.	PASS	Atlas-SNP
KRTAP5-9	3846	hgsc.bcm.edu	37	11	71259997	71259997	+	Missense_Mutation	SNP	G	G	T	rs61746411	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	60	132	0	0.535714	0	G|0.959;T|0.041	0.041	strong	.	KRTAP5-9	19	.	NM_005553	exon1	c.G294T	p.Q98H	CTGCCAGTGCAGC	.	PASS	Atlas-SNP
C11orf21	29125	hgsc.bcm.edu	37	11	2323089	2323089	+	Missense_Mutation	SNP	C	C	T	rs188839109	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	31	48	0	0.62	0	C|0.993;T|0.007	0.007	strong	.	C11orf21	11	.	NM_001142946	exon1	c.G3A	p.M1I	CGAGGCCATGTCT	.	PASS	Atlas-SNP
BANP	54971	hgsc.bcm.edu	37	16	88017809	88017809	+	Silent	SNP	C	C	T	rs3815820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	162	193	0	0.987805	0	C|0.376;T|0.624	0.624	strong	.	BANP	67	.	NM_001173540	exon4	c.C324T	p.V108V	CCAGGTCCCCATG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187549428	187549428	+	Missense_Mutation	SNP	C	C	T	rs2304867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	44	100	0	0.396396	0	C|0.922;T|0.078	0.078	strong	FAT1,colon,carcinoma,0,2	FAT1	500	2	NM_005245	exon9	c.G4690A	p.A1564T	AGGAAGCGGTGAA	.	PASS	Atlas-SNP
IL18	3606	hgsc.bcm.edu	37	11	112014328	112014328	+	Silent	SNP	G	G	A	rs5744290	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	36	66	0	0.418605	0	G|0.993;A|0.007	0.007	strong	.	IL18	10	.	NM_001562	exon6	c.C573T	p.N191N	GTCTTCGTTTTGA	.	PASS	Atlas-SNP
KRTAP13-4	284827	hgsc.bcm.edu	37	21	31802768	31802768	+	Missense_Mutation	SNP	G	G	A	rs2226548	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	45	75	0	0.463918	0	G|0.411;A|0.589	0.589	strong	.	KRTAP13-4	46	.	NM_181600	exon1	c.G175A	p.A59T	GAGCCCGCCAGCT	.	PASS	Atlas-SNP
SDCBP2	27111	hgsc.bcm.edu	37	20	1301053	1301053	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	22	85	0	0.247191	0	.	.	none	.	SDCBP2	78	.	NM_080489	exon2	c.C8T	p.S3F	TACAGGGATGACA	.	PASS	Atlas-SNP
WDR36	134430	hgsc.bcm.edu	37	5	110456263	110456263	+	Silent	SNP	C	C	G	rs17624563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	32	75	0	0.492308	0	C|0.897;G|0.103	0.103	strong	.	WDR36	111	.	NM_139281	exon18	c.C2142G	p.V714V	AATAGTCATGCTT	.	PASS	Atlas-SNP
LYZL6	57151	hgsc.bcm.edu	37	17	34264862	34264862	+	Silent	SNP	T	T	C	rs1052266	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	73	121	0	0.561538	0	T|0.923;C|0.077	0.077	strong	.	LYZL6	18	.	NM_020426	exon2	c.A198G	p.A66A	TCCATCTGCATTT	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56383744	56383744	+	Missense_Mutation	SNP	T	T	C	rs11079346	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	17	50	0	0.34	0	T|0.694;C|0.306	0.306	strong	.	BZRAP1	287	.	NM_004758	exon26	c.A5183G	p.H1728R	GTTGTGTGGGCTG	.	PASS	Atlas-SNP
USP4	7375	hgsc.bcm.edu	37	3	49362369	49362369	+	Silent	SNP	C	C	T	rs56038006	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	250	134	194	0	0.536	0	C|0.855;T|0.145	0.145	strong	USP4,NS,carcinoma,0,1	USP4	72	1	NM_001251877	exon5	c.G591A	p.K197K	GTCTAGCTTGCTC	.	PASS	Atlas-SNP
MYO19	80179	hgsc.bcm.edu	37	17	34854121	34854121	+	Missense_Mutation	SNP	C	C	T	rs139565052	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	10	20	0	0.357143	0	C|0.999;T|0.001	0.001	strong	.	MYO19	130	.	NM_001163735	exon26	c.G2746A	p.A916T	GCAGCGCTCGGAT	.	PASS	Atlas-SNP
IFNAR2	3455	hgsc.bcm.edu	37	21	34614255	34614255	+	Missense_Mutation	SNP	T	T	G	rs1051393	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	39	90	0	0.4875	0	A|0.000;G|0.315;T|0.685	0.315	strong	.	IFNAR2	44	.	NM_207585	exon2	c.T28G	p.F10V	TTCATCTTCAGAT	.	PASS	Atlas-SNP
DBR1	51163	hgsc.bcm.edu	37	3	137880743	137880743	+	Silent	SNP	G	G	A	rs2622736	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	347	346	319	1	0.997118	0.0031348	G|0.392;A|0.608	0.608	strong	.	DBR1	45	.	NM_016216	exon8	c.C1623T	p.D541D	TGCATCGTCATCA	.	PASS	Atlas-SNP
ZFP112	7771	hgsc.bcm.edu	37	19	44832693	44832693	+	Silent	SNP	T	T	C	rs61733037	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	36	80	0	0.444444	0	T|0.931;C|0.069	0.069	strong	ZFP112_ENST00000337401,colon,carcinoma,-2,2	ZFP112	219	2	NM_001083335	exon5	c.A1635G	p.R545R	GTGGACTCTCTGA	.	PASS	Atlas-SNP
PPM1F	9647	hgsc.bcm.edu	37	22	22287862	22287862	+	Silent	SNP	G	G	A	rs2027789	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	21	56	0	0.42	0	G|0.665;A|0.335	0.335	strong	.	PPM1F	34	.	NM_014634	exon5	c.C648T	p.N216N	GGCAGCGTTGGTG	.	PASS	Atlas-SNP
SH3RF1	57630	hgsc.bcm.edu	37	4	170077789	170077789	+	Silent	SNP	A	A	G	rs10518039	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	49	93	0	0.462264	0	A|0.681;G|0.319	0.319	strong	SH3RF1,NS,carcinoma,0,1	SH3RF1	60	1	NM_020870	exon3	c.T435C	p.Y145Y	TCCTTCATAGTTG	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40368619	40368619	+	Silent	SNP	G	G	A	rs61732292	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	326	41	345	0	0.125767	0	G|0.932;A|0.068	0.068	strong	FCGBP,NS,carcinoma,0,1	FCGBP	416	1	NM_003890	exon28	c.C12729T	p.G4243G	GCTGCCGCCCCAG	.	scavenged	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	37	8	27737180	27737180	+	Silent	SNP	G	G	A	rs6983356	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	24	54	0	0.631579	0	G|0.852;A|0.148	0.148	strong	.	SCARA5	53	.	NM_173833	exon8	c.C1257T	p.D419D	GCCGTCGTCACAC	.	PASS	Atlas-SNP
SEMA3G	56920	hgsc.bcm.edu	37	3	52476899	52476899	+	Missense_Mutation	SNP	G	G	A	rs138988057	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	57	67	0	0.606383	0	G|0.998;A|0.002	0.002	strong	.	SEMA3G	58	.	NM_020163	exon2	c.C140T	p.A47V	AAGATGGCAGAGC	.	PASS	Atlas-SNP
ATP9A	10079	hgsc.bcm.edu	37	20	50287736	50287736	+	Silent	SNP	C	C	T	rs2255341	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	22	82	0	0.349206	0	C|0.500;T|0.500	0.500	strong	.	ATP9A	135	.	NM_006045	exon12	c.G1098A	p.S366S	GATTTTCGAGTCC	.	PASS	Atlas-SNP
SULT1C3	442038	hgsc.bcm.edu	37	2	108875198	108875198	+	Missense_Mutation	SNP	G	G	A	rs2219078	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	78	139	0	0.553191	0	G|0.694;A|0.306	0.306	strong	.	SULT1C3	53	.	NM_001008743	exon5	c.G535A	p.G179R	GTTGGCGGGTCCT	.	PASS	Atlas-SNP
RASA4	10156	hgsc.bcm.edu	37	7	102246311	102246311	+	Missense_Mutation	SNP	T	T	C	rs200132914		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	47	100	2	0.189516	0.02	.	.	weak	RASA4_ENST00000262940,NS,carcinoid-endocrine_tumour,0,2	RASA4	7	2	NM_006989	exon5	c.A422G	p.E141G	CTGGCCTCCAGCA	.	scavenged	Atlas-SNP
POLA1	5422	hgsc.bcm.edu	37	X	25014016	25014016	+	Silent	SNP	C	C	T	rs11573531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	139	150	0	1	0	C|0.990;T|0.010	0.010	strong	.	POLA1	117	.	NM_016937	exon37	c.C4338T	p.Y1446Y	TGGCTACTCCGAA	.	PASS	Atlas-SNP
TMEM245	23731	hgsc.bcm.edu	37	9	111881856	111881856	+	Missense_Mutation	SNP	T	T	C	rs1051474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	6	9	0	0.666667	0	T|0.646;C|0.354	0.354	strong	.	.	.	.	NM_032012	exon1	c.A338G	p.H113R	GCGCGGTGCAGGC	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536499	1536499	+	Missense_Mutation	SNP	G	G	T	rs2745097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	46	111	0	0.438095	0	G|0.692;T|0.308	0.308	strong	.	PTX4	46	.	NM_001013658	exon3	c.C863A	p.A288D	CGCAGGGCAGTGA	.	PASS	Atlas-SNP
RNF8	9025	hgsc.bcm.edu	37	6	37349033	37349033	+	Silent	SNP	G	G	A	rs2284922	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	53	115	0	0.414062	0	G|0.535;A|0.465	0.465	strong	RNF8,NS,carcinoma,+1,1	RNF8	78	1	NM_003958	exon7	c.G1344A	p.T448T	CAAAACGTACTCT	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39135084	39135084	+	Missense_Mutation	SNP	A	A	G	rs8064733	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	23	59	0	0.522727	0	A|0.654;G|0.346	0.346	strong	.	KRT40	27	.	NM_182497	exon8	c.T1168C	p.W390R	GGCCCCAGTACGT	.	PASS	Atlas-SNP
PPP3R2	5535	hgsc.bcm.edu	37	9	104357062	104357062	+	Missense_Mutation	SNP	C	C	T	rs151333989	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	21	37	0	0.512195	0	C|0.998;T|0.002	0.002	strong	.	PPP3R2	38	.	NM_147180	exon1	c.G151A	p.E51K	GCAGCTCCGGCAG	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62196182	62196182	+	Silent	SNP	G	G	C	rs3810488	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	62	63	0	0.452555	0	A|0.001;C|0.168;G|0.831	0.168	strong	PRIC285,NS,carcinoma,0,1	.	.	1	NM_001037335	exon9	c.C3993G	p.A1331A	GCGGCCGGCAACC	.	PASS	Atlas-SNP
TOR1B	27348	hgsc.bcm.edu	37	9	132569553	132569553	+	Silent	SNP	C	C	T	rs1043178	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	73	212	0	0.431953	0	C|0.794;N|0.000	.	strong	.	TOR1B	20	.	NM_014506	exon3	c.C552T	p.P184P	GCACCCCGGGATC	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31084787	31084787	+	Missense_Mutation	SNP	A	A	G	rs707913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	22	68	0	0.385965	0	A|0.728;G|0.272	0.272	strong	.	CDSN	48	.	NM_001264	exon2	c.T605C	p.F202S	ACCCCAAAGGTCT	.	PASS	Atlas-SNP
KIAA0319L	79932	hgsc.bcm.edu	37	1	35944609	35944609	+	Missense_Mutation	SNP	T	T	C	rs34372241	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	21	46	0	0.456522	0	T|0.994;C|0.006	0.006	strong	.	KIAA0319L	156	.	NM_024874	exon4	c.A871G	p.T291A	GGGGGGTAGGGGT	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957693	111957693	+	Missense_Mutation	SNP	A	A	G	rs2485319	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	224	120	222	0	0.535714	0	A|0.440;G|0.560	0.560	strong	.	OVGP1	177	.	NM_002557	exon11	c.T1430C	p.M477T	ATGGTCATTGCCC	.	PASS	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50720940	50720940	+	Silent	SNP	T	T	C	rs34796700	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	45	75	0	0.441176	0	T|0.980;C|0.020	0.020	strong	.	MYH14	261	.	NM_001077186	exon3	c.T474C	p.I158I	AGCCATTGTGGAG	.	PASS	Atlas-SNP
CDC5L	988	hgsc.bcm.edu	37	6	44413463	44413463	+	Silent	SNP	T	T	A	rs2273666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	44	117	0	0.392857	0	T|0.878;A|0.122	0.122	strong	.	CDC5L	86	.	NM_001253	exon15	c.T2163A	p.L721L	TTTGCTTGGGGGT	.	PASS	Atlas-SNP
CDON	50937	hgsc.bcm.edu	37	11	125891269	125891269	+	Missense_Mutation	SNP	C	C	T	rs3740912	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	83	120	1	1	0.00833333	C|0.401;T|0.599	0.599	strong	CDON,NS,carcinoma,0,1	CDON	137	1	NM_016952	exon3	c.G223A	p.V75I	TCTTAACATGTTC	.	PASS	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39619219	39619219	+	Silent	SNP	G	G	A	rs2857257	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	57	75	0	0.542857	0	G|0.352;A|0.648	0.648	strong	KRT32,colon,carcinoma,0,1	KRT32	57	1	NM_002278	exon6	c.C1080T	p.N360N	CTCAACGTTGGTG	.	PASS	Atlas-SNP
SVOPL	136306	hgsc.bcm.edu	37	7	138363767	138363767	+	Silent	SNP	A	A	G	rs10250576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	61	113	0	0.504132	0	A|0.433;G|0.567	0.567	strong	.	SVOPL	111	.	NM_001139456	exon1	c.T24C	p.P8P	CGTGACAGGCTCT	.	PASS	Atlas-SNP
RIN3	79890	hgsc.bcm.edu	37	14	93118669	93118669	+	Silent	SNP	G	G	A	rs3742716	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	30	89	0	0.38961	0	G|0.748;A|0.252	0.252	strong	RIN3,rectum,carcinoma,0,1	RIN3	81	1	NM_024832	exon6	c.G1275A	p.T425T	GGACACGCCCCGG	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167262939	167262939	+	Silent	SNP	A	A	G	rs33953730	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	266	261	293	0	0.981203	0	A|0.948;G|0.052	0.052	strong	SCN7A_ENST00000409855,NS,carcinoma,-1,2	SCN7A	410	2	NM_002976	exon25	c.T4200C	p.Y1400Y	AAAATTATACATT	.	PASS	Atlas-SNP
C12orf42	374470	hgsc.bcm.edu	37	12	103872172	103872172	+	Missense_Mutation	SNP	T	T	G	rs10778257	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	38	61	0	0.5	0	T|0.451;G|0.549	0.549	strong	.	C12orf42	50	.	NM_001099336	exon2	c.A33C	p.E11D	TTCTTCTTCCCTT	.	PASS	Atlas-SNP
VPS18	57617	hgsc.bcm.edu	37	15	41192540	41192540	+	Silent	SNP	C	C	T	rs79536497	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	23	61	0	0.425926	0	C|0.996;T|0.004	0.004	strong	.	VPS18	67	.	NM_020857	exon4	c.C1524T	p.G508G	GCAGGGCGACCCA	.	PASS	Atlas-SNP
KRT37	8688	hgsc.bcm.edu	37	17	39579112	39579112	+	Missense_Mutation	SNP	G	G	A	rs16966811	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	21	59	0	0.403846	0	G|0.849;A|0.151	0.151	strong	.	KRT37	61	.	NM_003770	exon3	c.C650T	p.A217V	AGGGTCGCGTCAT	.	PASS	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	37	6	123696766	123696766	+	Missense_Mutation	SNP	G	G	T	rs17737379	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	43	93	0	0.438776	0	G|0.834;N|0.000	.	strong	.	TRDN	88	.	NM_001251987	exon19	c.C1260A	p.D420E	TTGTTTGTCACTT	.	PASS	Atlas-SNP
FAM71F2	346653	hgsc.bcm.edu	37	7	128315889	128315889	+	Missense_Mutation	SNP	A	A	T	rs6971819	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	15	25	0	0.555556	0	A|0.892;T|0.108	0.108	strong	.	FAM71F2	19	.	NM_001012454	exon2	c.A341T	p.D114V	CTGGTGACGCCCC	.	PASS	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	37	5	140209185	140209185	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	2	149	0	0.0153846	0	.	.	none	PCDHA6_ENST00000529310,caecum,carcinoma,0,2	PCDHA6	442	2	NM_018909	exon1	c.G1509A	p.A503A	GCGCGCGTTGTCG	.	scavenged	Atlas-SNP
BRD9	65980	hgsc.bcm.edu	37	5	870619	870619	+	Silent	SNP	A	A	G	rs1051630	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	38	65	0	0.535211	0	A|0.865;G|0.135	0.135	strong	.	BRD9	113	.	NM_023924	exon14	c.T1494C	p.V498V	CACAGAAACGTCG	.	PASS	Atlas-SNP
NEK2	4751	hgsc.bcm.edu	37	1	211840498	211840498	+	Missense_Mutation	SNP	T	T	C	rs2230489	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	89	179	0	0.458763	0	T|0.684;G|0.030	.	strong	.	NEK2	49	.	NM_002497	exon7	c.A1061G	p.N354S	CTGTAGTTCTTCA	.	PASS	Atlas-SNP
POTEG	404785	hgsc.bcm.edu	37	14	19553680	19553680	+	Silent	SNP	C	C	T	rs28578761		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	407	9	291	1	0.022113	0.00343643	.	.	weak	POTEG,bladder,carcinoma,0,1	POTEG	118	1	NM_001005356	exon1	c.C264T	p.D88D	CGACGACTCTGCT	.	scavenged	Atlas-SNP
TEKT4	150483	hgsc.bcm.edu	37	2	95537572	95537572	+	Missense_Mutation	SNP	C	C	T	rs4854235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	11	15	0	0.52381	0	C|0.646;T|0.354	0.354	strong	.	TEKT4	72	.	NM_144705	exon1	c.C248T	p.T83M	AGCGCACGCAGCA	.	PASS	Atlas-SNP
RDH8	50700	hgsc.bcm.edu	37	19	10132318	10132318	+	Missense_Mutation	SNP	T	T	C	rs45503592	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	35	72	0	0.479452	0	T|0.990;C|0.010	0.010	strong	.	RDH8	51	.	NM_015725	exon6	c.T889C	p.Y297H	AGCCTGTATGTGC	.	PASS	Atlas-SNP
STIL	6491	hgsc.bcm.edu	37	1	47726087	47726087	+	Missense_Mutation	SNP	T	T	C	rs13376679	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	289	146	262	1	0.50519	0.00381679	T|0.764;C|0.236	0.236	strong	.	STIL	91	.	NM_001048166	exon16	c.A2954G	p.H985R	GAATGATGTGTTT	.	PASS	Atlas-SNP
DHRS4	10901	hgsc.bcm.edu	37	14	24435542	24435542	+	Missense_Mutation	SNP	G	G	T	rs11556285	bycluster;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	751	38	685	0	0.0505992	0	G|0.998;T|0.002	0.002	weak	.	DHRS4	22	.	NM_021004	exon6	c.G582T	p.K194N	GACCAAGACCCTG	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	37	9	35705759	35705759	+	Silent	SNP	G	G	A	rs11541908	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	15	55	0	0.384615	0	G|0.806;A|0.194	0.194	strong	.	TLN1	185	.	NM_006289	exon42	c.C5601T	p.T1867T	CTGAACGGTCACT	.	PASS	Atlas-SNP
XYLT2	64132	hgsc.bcm.edu	37	17	48432324	48432324	+	Missense_Mutation	SNP	G	G	C	rs12451299	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	47	78	0	0.580247	0	G|0.835;C|0.165	0.165	strong	XYLT2,NS,carcinoma,+1,1	XYLT2	51	1	NM_022167	exon4	c.G914C	p.R305T	TCCTGAGGATGTA	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19968971	19968971	+	Missense_Mutation	SNP	G	G	A	rs2073748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	37	14	0	0.973684	0	G|0.654;T|0.005	.	strong	.	ARVCF	54	.	NM_001670	exon5	c.C659T	p.P220L	GGGCCTGGGCCAA	.	PASS	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	37	5	56177743	56177743	+	Missense_Mutation	SNP	G	G	A	rs832582	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	46	104	0	0.5	0	G|0.285;A|0.715	0.715	strong	.	MAP3K1	355	.	NM_005921	exon14	c.G2716A	p.V906I	TGCACAGTCCATT	.	PASS	Atlas-SNP
ROS1	6098	hgsc.bcm.edu	37	6	117724379	117724379	+	Missense_Mutation	SNP	C	C	T	rs2243380	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	34	50	0	0.557377	0	C|0.939;T|0.061	0.061	strong	.	ROS1	728	.	NM_002944	exon6	c.G500A	p.R167Q	ACCACTCGGAAAA	.	PASS	Atlas-SNP
KIF14	9928	hgsc.bcm.edu	37	1	200558420	200558420	+	Silent	SNP	C	C	T	rs77213709	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	303	175	216	0	0.577558	0	C|0.996;T|0.004	0.004	strong	.	KIF14	156	.	NM_014875	exon18	c.G3039A	p.K1013K	CTTTGCCTTTTCT	.	PASS	Atlas-SNP
APOBEC3G	60489	hgsc.bcm.edu	37	22	39477123	39477123	+	Silent	SNP	T	T	C	rs5757465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	42	86	0	0.446809	0	T|0.692;C|0.308	0.308	strong	APOBEC3G_ENST00000407997,NS,carcinoma,0,1	APOBEC3G	69	1	NM_021822	exon3	c.T357C	p.F119F	CATCTTTGTTGCC	.	PASS	Atlas-SNP
VPS13C	54832	hgsc.bcm.edu	37	15	62259637	62259637	+	Missense_Mutation	SNP	C	C	T	rs3784634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	106	99	0	1	0	C|0.293;T|0.707	0.707	strong	.	VPS13C	506	.	NM_020821	exon29	c.G2921A	p.R974K	GGCTTCCTTTTGG	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26733062	26733062	+	Silent	SNP	T	T	C	rs2230375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	25	51	0	0.423729	0	T|0.774;C|0.226	0.226	strong	.	ITPR2	270	.	NM_002223	exon33	c.A4407G	p.K1469K	TGCATGTTTCCTG	.	PASS	Atlas-SNP
PRG3	10394	hgsc.bcm.edu	37	11	57146202	57146202	+	Silent	SNP	G	G	A	rs1940145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	52	73	0	0.547368	0	G|0.966;A|0.034	0.034	strong	.	PRG3	35	.	NM_006093	exon4	c.C459T	p.S153S	GACTGTGCTAGTG	.	PASS	Atlas-SNP
ST5	6764	hgsc.bcm.edu	37	11	8724191	8724191	+	Missense_Mutation	SNP	A	A	G	rs113126215	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	17	37	0	0.485714	0	A|0.996;G|0.004	0.004	strong	.	ST5	85	.	NM_005418	exon17	c.T2648C	p.V883A	TGGCGCACACTGA	.	PASS	Atlas-SNP
RTP1	132112	hgsc.bcm.edu	37	3	186917751	186917751	+	Missense_Mutation	SNP	C	C	G	rs6764714	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	258	127	182	0	0.492248	0	C|0.544;G|0.456	0.456	strong	.	RTP1	51	.	NM_153708	exon2	c.C685G	p.Q229E	CAGGACCAGACGG	.	PASS	Atlas-SNP
GDF5	8200	hgsc.bcm.edu	37	20	34022196	34022196	+	Silent	SNP	C	C	T	rs224330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	70	0	0.493827	0	C|0.877;T|0.123	0.123	strong	.	GDF5	66	.	NM_000557	exon2	c.G1017A	p.K339K	CAGGGCCTTCTCG	.	PASS	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	37	3	140282861	140282861	+	Silent	SNP	C	C	T	rs10804675	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	118	135	0	0.670455	0	C|0.523;T|0.477	0.477	strong	.	CLSTN2	190	.	NM_022131	exon16	c.C2541T	p.V847V	GTTTGTCGTGGCC	.	PASS	Atlas-SNP
ARAP1	116985	hgsc.bcm.edu	37	11	72421569	72421569	+	Missense_Mutation	SNP	C	C	T	rs369752678		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	22	57	0	0.458333	0	.	.	weak	.	ARAP1	168	.	NM_001040118	exon10	c.G1277A	p.R426Q	GAGAGCCGGGCCC	.	PASS	Atlas-SNP
KIF2C	11004	hgsc.bcm.edu	37	1	45226084	45226084	+	Silent	SNP	G	G	A	rs1140279	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	43	92	0	0.505882	0	G|0.834;A|0.166	0.166	strong	KIF2C,NS,carcinoma,+2,1	KIF2C	68	1	NM_006845	exon15	c.G1500A	p.A500A	AGGCGCGGACACT	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33359950	33359950	+	Missense_Mutation	SNP	C	C	G	rs141655944	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	43	109	0	0.511905	0	C|0.993;G|0.007	0.007	strong	.	FMN1	174	.	NM_001103184	exon1	c.G136C	p.E46Q	CAGATTCTAATTT	.	PASS	Atlas-SNP
IL36A	27179	hgsc.bcm.edu	37	2	113763575	113763575	+	Missense_Mutation	SNP	A	A	G	rs895497	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	148	158	0	1	0	A|0.212;G|0.788	0.788	strong	IL36A,NS,carcinoma,0,2	IL36A	17	2	NM_014440	exon2	c.A35G	p.Q12R	CTCAGCAGGGGAG	.	PASS	Atlas-SNP
OR7A17	26333	hgsc.bcm.edu	37	19	14991439	14991439	+	Silent	SNP	T	T	G	rs34590588	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	34	67	0	0.548387	0	T|0.950;G|0.050	0.050	strong	.	OR7A17	37	.	NM_030901	exon1	c.A729C	p.S243S	GAGGTGTGATGCA	.	PASS	Atlas-SNP
KRT71	112802	hgsc.bcm.edu	37	12	52946498	52946498	+	Missense_Mutation	SNP	C	C	T	rs665470	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	65	150	0	0.445205	0	C|0.774;N|0.000	.	strong	.	KRT71	70	.	NM_033448	exon1	c.G364A	p.E122K	GGATCTCGGGGTC	.	PASS	Atlas-SNP
PLB1	151056	hgsc.bcm.edu	37	2	28854958	28854958	+	Missense_Mutation	SNP	C	C	T	rs2199619	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	52	82	0	0.481481	0	C|0.742;A|0.002	.	strong	.	PLB1	255	.	NM_153021	exon55	c.C3953T	p.A1318V	ACTTTGCGGTTGT	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61831290	61831290	+	Missense_Mutation	SNP	T	T	C	rs28932171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	131	123	0	0.992424	0	T|0.936;C|0.064	0.064	strong	.	ANK3	703	.	NM_020987	exon37	c.A9349G	p.I3117V	TTATGATTTTTTT	.	PASS	Atlas-SNP
LZTR1	8216	hgsc.bcm.edu	37	22	21347142	21347142	+	Silent	SNP	C	C	T	rs145833752	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	64	93	0	0.551724	0	C|0.994;T|0.006	0.006	strong	.	LZTR1	99	.	NM_006767	exon11	c.C1209T	p.F403F	CATCTTCGGGGGC	.	PASS	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	37	16	10575824	10575824	+	Silent	SNP	C	C	A	rs1970817	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	38	73	0	0.44186	0	C|0.529;A|0.471	0.471	strong	ATF7IP2_ENST00000396560,NS,adenoma,0,1	ATF7IP2	40	1	NM_024997	exon12	c.C1767A	p.P589P	CAGACCCAATGGC	.	PASS	Atlas-SNP
OBFC1	79991	hgsc.bcm.edu	37	10	105657363	105657363	+	Silent	SNP	C	C	G	rs11191853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	35	85	0	0.393258	0	C|0.780;G|0.220	0.220	strong	.	OBFC1	33	.	NM_024928	exon7	c.G696C	p.V232V	AGACTCCACCATT	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169511734	169511734	+	Missense_Mutation	SNP	T	T	C	rs4525	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	284	170	229	0	0.598592	0	T|0.758;C|0.242	0.242	strong	F5,NS,carcinoma,-1,1	F5	301	1	NM_000130	exon13	c.A2594G	p.H865R	CCCTTATGCTTAG	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102112914	102112914	+	Silent	SNP	C	C	T	rs184787600	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	10	22	0	0.434783	0	C|0.995;T|0.005	0.005	strong	LRWD1,colon,carcinoma,0,1	LRWD1	41	1	NM_152892	exon13	c.C1548T	p.S516S	GGGGAGCGGCCTG	.	PASS	Atlas-SNP
HEPH	9843	hgsc.bcm.edu	37	X	65427040	65427040	+	Silent	SNP	T	T	C	rs806607	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	52	68	0	1	0	0|0.020;C|0.435	0.435	strong	.	HEPH	224	.	NM_138737	exon14	c.T2457C	p.Y819Y	TAGTTATGGTTAC	.	PASS	Atlas-SNP
PGAM5	192111	hgsc.bcm.edu	37	12	133294333	133294333	+	Silent	SNP	C	C	T	rs61978651	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	23	45	0	0.534884	0	C|0.942;T|0.058	0.058	strong	PGAM5,NS,carcinoma,+1,1	PGAM5	18	1	NM_138575	exon4	c.C534T	p.G178G	GGAAGGCGCCCCC	.	PASS	Atlas-SNP
HORMAD1	84072	hgsc.bcm.edu	37	1	150679033	150679033	+	Missense_Mutation	SNP	G	G	A	rs1336900	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	36	90	0	0.45	0	G|0.641;A|0.359	0.359	strong	.	HORMAD1	59	.	NM_032132	exon10	c.C800T	p.T267I	ACACTTGTATAAT	.	PASS	Atlas-SNP
PDZRN3	23024	hgsc.bcm.edu	37	3	73433494	73433494	+	Silent	SNP	T	T	C	rs13091636	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	25	45	0	0.543478	0	A|0.000;C|0.372;T|0.627	0.372	strong	.	PDZRN3	196	.	NM_015009	exon10	c.A2223G	p.S741S	GATATCTGAGAGC	.	PASS	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	37	3	33877570	33877570	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	3	95	0	0.0218978	0	.	.	none	PDCD6IP,NS,carcinoma,0,1	PDCD6IP	62	1	NM_001162429	exon8	c.G884A	p.R295H	CATCTCGCTATGA	.	scavenged	Atlas-SNP
MLPH	79083	hgsc.bcm.edu	37	2	238434245	238434245	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	51	74	0	0.490385	0	.	.	none	.	MLPH	41	.	NM_001042467	exon7	c.C677G	p.S226C	CTTAGTCCCTCAC	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100105782	100105782	+	Missense_Mutation	SNP	C	C	G	rs2061634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	39	71	0	0.433333	0	C|0.698;G|0.302	0.302	strong	.	.	.	.	NM_020893	exon19	c.C2567G	p.S856C	ACACTTCCAGTGC	.	PASS	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43184132	43184132	+	Missense_Mutation	SNP	A	A	C	rs2273709	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	25	54	0	0.462963	0	A|0.629;C|0.371	0.371	strong	CUL9,colon,carcinoma,0,1	CUL9	248	1	NM_015089	exon31	c.A6173C	p.H2058P	GCGTACACCAGGC	.	PASS	Atlas-SNP
SURF2	6835	hgsc.bcm.edu	37	9	136228006	136228006	+	Silent	SNP	G	G	A	rs34939258	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	24	47	0	0.444444	0	G|0.940;A|0.060	0.060	strong	.	SURF2	9	.	NM_017503	exon6	c.G762A	p.Q254Q	TAAACAGCCAGGT	.	PASS	Atlas-SNP
L3MBTL2	83746	hgsc.bcm.edu	37	22	41610024	41610024	+	Silent	SNP	G	G	A	rs139451	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	30	61	0	0.491803	0	G|0.598;A|0.402	0.402	strong	.	L3MBTL2	61	.	NM_031488	exon3	c.G390A	p.R130R	GGCTAGGTTACAG	.	PASS	Atlas-SNP
ITIH4	3700	hgsc.bcm.edu	37	3	52861211	52861211	+	Missense_Mutation	SNP	A	A	T	rs13072536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	79	96	0	0.560284	0	A|0.744;T|0.256	0.256	strong	.	ITIH4	74	.	NM_001166449	exon3	c.T254A	p.I85N	TCGATGATCCTGG	.	PASS	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	37	1	16265904	16265904	+	Silent	SNP	T	T	A	rs41269155	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	46	93	0	0.522727	0	T|0.932;A|0.068	0.068	strong	.	SPEN	374	.	NM_015001	exon15	c.T10977A	p.I3659I	CATGATTGTCATT	.	PASS	Atlas-SNP
NKAIN4	128414	hgsc.bcm.edu	37	20	61879009	61879009	+	Missense_Mutation	SNP	G	G	T	rs2236194	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	71	192	2	0.396648	0.0104167	G|0.819;T|0.181	0.181	strong	NKAIN4,NS,carcinoma,0,1	NKAIN4	23	1	NM_152864	exon4	c.C392A	p.A131D	ACCAGGGCCTGGC	.	scavenged	Atlas-SNP
ITPKC	80271	hgsc.bcm.edu	37	19	41235167	41235167	+	Missense_Mutation	SNP	G	G	A	rs112628847	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	35	69	0	0.479452	0	G|0.967;A|0.033	0.033	strong	.	ITPKC	36	.	NM_025194	exon3	c.G1316A	p.R439H	AGCAGCGCAGCCT	.	PASS	Atlas-SNP
TNS4	84951	hgsc.bcm.edu	37	17	38640744	38640744	+	Missense_Mutation	SNP	C	C	T	rs2290207	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	9	15	0	1	0	C|0.761;T|0.239	0.239	strong	.	TNS4	72	.	NM_032865	exon6	c.G1493A	p.S498N	GGTCGACTCTGAG	.	PASS	Atlas-SNP
FLVCR2	55640	hgsc.bcm.edu	37	14	76045963	76045963	+	Silent	SNP	C	C	G	rs2287017	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	43	61	0	0.704918	0	C|0.621;G|0.379	0.379	strong	.	FLVCR2	39	.	NM_017791	exon1	c.C648G	p.S216S	CTGCTCCGTGGCT	.	PASS	Atlas-SNP
ECM2	1842	hgsc.bcm.edu	37	9	95284873	95284873	+	Silent	SNP	A	A	G	rs9299405	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	34	60	0	0.539683	0	A|0.691;G|0.309	0.309	strong	ECM2,NS,carcinoma,0,1	ECM2	147	1	NM_001393	exon2	c.T276C	p.S92S	ATTATAACTTGAT	.	PASS	Atlas-SNP
CPN1	1369	hgsc.bcm.edu	37	10	101823428	101823428	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	47	92	0	0.559524	0	.	.	none	.	CPN1	62	.	NM_001308	exon5	c.G814A	p.G272R	AATCTCCGCAGTT	.	PASS	Atlas-SNP
WBP2NL	164684	hgsc.bcm.edu	37	22	42416056	42416056	+	Missense_Mutation	SNP	A	A	G	rs133335	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	29	109	0	0.408451	0	A|0.488;G|0.512	0.512	strong	.	WBP2NL	24	.	NM_152613	exon4	c.A362G	p.D121G	ATGGAGATGCCAT	.	PASS	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	37	2	210705348	210705348	+	Silent	SNP	C	C	G	rs10178675	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	143	103	0	1	0	C|0.831;G|0.169	0.169	strong	.	UNC80	280	.	NM_032504	exon20	c.C3339G	p.L1113L	CCGACTCTCTTTC	.	PASS	Atlas-SNP
ANGEL1	23357	hgsc.bcm.edu	37	14	77275630	77275630	+	Missense_Mutation	SNP	C	C	A	rs34270005	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	31	57	0	0.449275	0	C|0.945;A|0.055	0.055	strong	ANGEL1,NS,carcinoma,0,1	ANGEL1	63	1	NM_015305	exon2	c.G421T	p.G141W	CCACCCCCTCCAC	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156878737	156878737	+	Silent	SNP	T	T	C	rs6671392	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	52	89	0	0.565217	0	T|0.809;C|0.191	0.191	strong	.	PEAR1	118	.	NM_001080471	exon11	c.T1320C	p.P440P	TCCTCCTGACACC	.	PASS	Atlas-SNP
CHAF1B	8208	hgsc.bcm.edu	37	21	37759957	37759957	+	Missense_Mutation	SNP	C	C	T	rs62229404	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	236	114	262	1	0.483051	0.00381679	C|0.940;T|0.060	0.060	strong	.	CHAF1B	47	.	NM_005441	exon3	c.C188T	p.A63V	ATCTTGCTCGTCA	.	PASS	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102265183	102265183	+	Missense_Mutation	SNP	G	G	A	rs2295772	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	54	106	0	0.486486	0	G|0.808;A|0.192	0.192	strong	.	SEC31B	84	.	NM_015490	exon10	c.C1114T	p.P372S	TCAGTGGTGCTTG	.	PASS	Atlas-SNP
CRELD2	79174	hgsc.bcm.edu	37	22	50315382	50315382	+	Missense_Mutation	SNP	C	C	G	rs74510325	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	45	71	0	0.46875	0	C|0.978;G|0.022	0.022	strong	.	CRELD2	57	.	NM_024324	exon5	c.C565G	p.R189G	TCGCTCCGGAACG	.	PASS	Atlas-SNP
FARP1	10160	hgsc.bcm.edu	37	13	98896776	98896776	+	Missense_Mutation	SNP	C	C	T	rs7318267	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	29	86	0	0.42029	0	C|0.627;T|0.373	0.373	strong	.	FARP1	207	.	NM_001001715	exon3	c.C203T	p.T68I	AAGCCACCGGCTC	.	PASS	Atlas-SNP
PERP	64065	hgsc.bcm.edu	37	6	138413333	138413333	+	Missense_Mutation	SNP	G	G	C	rs648802	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	27	78	0	0.421875	0	G|0.435;C|0.565	0.565	strong	.	PERP	15	.	NM_022121	exon3	c.C428G	p.P143R	ACAGCAGGGTTGG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239010	31239010	+	Silent	SNP	G	G	A	rs17839985	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	23	145	0	0.291139	0	G|0.930;A|0.070	0.070	strong	.	HLA-C	92	.	NM_002117	exon3	c.C459T	p.D153D	GCGCAGGTCCTCG	.	PASS	Atlas-SNP
PRR5	55615	hgsc.bcm.edu	37	22	45128232	45128232	+	Silent	SNP	T	T	C	rs8141631	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	41	119	1	0.460674	0.00840336	T|0.655;C|0.345	0.345	strong	PRR5_ENST00000432186,caecum,carcinoma,+2,3	PRR5	75	3	NM_001198721	exon8	c.T585C	p.R195R	TGCCCGTGTGCCC	.	scavenged	Atlas-SNP
FSCN1	6624	hgsc.bcm.edu	37	7	5643145	5643145	+	Silent	SNP	T	T	C	rs1640233	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	85	65	0	0.658915	0	T|0.793;C|0.207	0.207	strong	.	FSCN1	29	.	NM_003088	exon3	c.T1008C	p.F336F	CTACTTTGACATC	.	PASS	Atlas-SNP
RSL1D1	26156	hgsc.bcm.edu	37	16	11935639	11935639	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	44	74	0	0.478261	0	.	.	none	.	RSL1D1	40	.	NM_015659	exon7	c.G768T	p.E256D	CGATTTCTCAGTT	.	PASS	Atlas-SNP
CLSTN1	22883	hgsc.bcm.edu	37	1	9811541	9811541	+	Silent	SNP	A	A	G	rs11674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	42	76	0	0.446809	0	A|0.749;G|0.251	0.251	strong	.	CLSTN1	88	.	NM_001009566	exon5	c.T639C	p.V213V	TTTGTCAACAGTA	.	PASS	Atlas-SNP
TBRG4	9238	hgsc.bcm.edu	37	7	45148773	45148773	+	Missense_Mutation	SNP	C	C	A	rs2304694	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	44	75	0	0.360656	0	C|0.875;A|0.125	0.125	strong	TBRG4,NS,carcinoma,0,1	TBRG4	52	1	NM_001261834	exon2	c.G97T	p.A33S	CCATGGCAGGGGC	.	PASS	Atlas-SNP
RNF126	55658	hgsc.bcm.edu	37	19	652238	652238	+	Silent	SNP	A	A	G	rs11554788	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	20	40	0	0.454545	0	A|0.667;G|0.333	0.333	strong	.	RNF126	15	.	NM_194460	exon3	c.T193C	p.L65L	CCTCCAACGGTGG	.	PASS	Atlas-SNP
EFCAB12	90288	hgsc.bcm.edu	37	3	129137188	129137188	+	Missense_Mutation	SNP	C	C	T	rs62266958	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	55	89	0	0.528846	0	C|0.960;T|0.040	0.040	strong	.	.	.	.	NM_207307	exon3	c.G590A	p.R197H	ATCTTGCGGCTAT	.	PASS	Atlas-SNP
LRRC37A3	374819	hgsc.bcm.edu	37	17	62892159	62892159	+	Missense_Mutation	SNP	G	G	T	rs199539333	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	286	66	417	1	0.230769	0.00239808	.	.	weak	LRRC37A3,NS,carcinoma,0,1	LRRC37A3	75	1	NM_199340	exon3	c.C1217A	p.A406D	GGTGAAGCTAAAT	.	scavenged	Atlas-SNP
HLA-DQB2	3120	hgsc.bcm.edu	37	6	32729618	32729618	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	39	86	0	0.438202	0	.	.	none	.	HLA-DQB2	22	.	NM_001198858	exon2	c.C183T	p.N61N	CTCGCGGTTATAG	.	PASS	Atlas-SNP
PNMAL1	55228	hgsc.bcm.edu	37	19	46974003	46974003	+	Missense_Mutation	SNP	C	C	T	rs7248888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	30	53	0	0.555556	0	C|0.924;T|0.076	0.076	strong	.	PNMAL1	87	.	NM_018215	exon2	c.G290A	p.C97Y	TCTCTACAGACCA	.	PASS	Atlas-SNP
FETUB	26998	hgsc.bcm.edu	37	3	186370350	186370350	+	Missense_Mutation	SNP	A	A	G	rs7999	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	34	64	0	0.395349	0	A|0.929;G|0.071	0.071	strong	.	FETUB	53	.	NM_014375	exon7	c.A1079G	p.K360R	TCCCCAAAGAAAA	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169511403	169511403	+	Silent	SNP	G	G	A	rs41272457	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	74	93	2	0.666667	0.0215054	G|0.986;A|0.014	0.014	strong	F5,NS,carcinoma,-2,1	F5	301	1	NM_000130	exon13	c.C2925T	p.P975P	ATTCTGGGGGCTG	.	scavenged	Atlas-SNP
HTT	3064	hgsc.bcm.edu	37	4	3148653	3148653	+	Missense_Mutation	SNP	T	T	G	rs1143646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	84	175	0	0.512195	0	T|0.968;G|0.032	0.032	strong	.	HTT	221	.	NM_002111	exon25	c.T3273G	p.I1091M	TTTGATTTTGGCC	.	PASS	Atlas-SNP
CCL27	10850	hgsc.bcm.edu	37	9	34661994	34661994	+	Missense_Mutation	SNP	G	G	A	rs11575584	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	41	77	0	0.450549	0	G|0.957;A|0.043	0.043	strong	CCL27,lymph_node,lymphoid_neoplasm,0,1	CCL27	6	1	NM_006664	exon3	c.C286T	p.L96F	CATGGAGCTTTCT	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40408821	40408821	+	Missense_Mutation	SNP	C	C	G	rs45613437	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	54	120	0	0.490909	0	.	.	weak	FCGBP,caecum,carcinoma,0,2	FCGBP	416	2	NM_003890	exon8	c.G4018C	p.V1340L	GCACCACGGGCAG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169510380	169510380	+	Silent	SNP	G	G	A	rs9287090	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	341	207	250	0	0.607038	0	G|0.758;A|0.242	0.242	strong	.	F5	301	.	NM_000130	exon13	c.C3948T	p.L1316L	CTGACCGAGGGCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508133	195508133	+	Missense_Mutation	SNP	G	G	A	rs202065387		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	5	92	1	0.0381679	0.0108696	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.C10318T	p.P3440S	GAACAGGGGTGGC	.	scavenged	Atlas-SNP
TMIGD2	126259	hgsc.bcm.edu	37	19	4292597	4292597	+	Silent	SNP	C	C	T	rs888932	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	8	26	0	0.25	0	C|0.569;T|0.431	0.431	strong	.	TMIGD2	38	.	NM_144615	exon5	c.G848A	p.X283X	ATCTCTCACTCCT	.	PASS	Atlas-SNP
TAS2R46	259292	hgsc.bcm.edu	37	12	11214360	11214360	+	Silent	SNP	C	C	T	rs73260771	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	132	126	0	0.90411	0	C|0.833;T|0.167	0.167	strong	.	TAS2R46	43	.	NM_176887	exon1	c.G534A	p.T178T	GGTTACCGTTGTA	.	PASS	Atlas-SNP
DZIP1	22873	hgsc.bcm.edu	37	13	96293631	96293631	+	Missense_Mutation	SNP	G	G	A	rs9561921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	73	214	0	0.41954	0	G|0.895;A|0.105	0.105	strong	.	DZIP1	195	.	NM_014934	exon5	c.C515T	p.T172M	TTGAGCGTCTTGA	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11942362	11942362	+	Missense_Mutation	SNP	A	A	G	rs427880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	99	213	0	0.490099	0	A|0.546;G|0.454	0.454	strong	.	ZNF440	56	.	NM_152357	exon4	c.A371G	p.N124S	ATATGAACATCAG	.	PASS	Atlas-SNP
LSS	4047	hgsc.bcm.edu	37	21	47635627	47635627	+	Silent	SNP	C	C	G	rs9980968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	40	70	0	0.512821	0	C|0.618;G|0.382	0.382	strong	.	LSS	50	.	NM_001001438	exon8	c.G864C	p.P288P	GCTGTGCGGCGTG	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178540975	178540975	+	Missense_Mutation	SNP	G	G	A	rs1054480	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	279	269	316	1	0.964158	0.00316456	G|0.764;N|0.000	.	strong	.	ADAMTS2	190	.	NM_014244	exon22	c.C3529T	p.P1177S	GGTTGGGTGGCTG	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18301693	18301693	+	Missense_Mutation	SNP	T	T	C	rs8135914	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	27	68	0	0.509434	0	T|0.774;C|0.226	0.226	strong	.	MICAL3	53	.	NM_015241	exon26	c.A3734G	p.Q1245R	GGTGGCTGGGGCT	.	PASS	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	37	7	135292080	135292080	+	Silent	SNP	G	G	A	rs61734146	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	45	75	0	0.584416	0	G|0.962;A|0.038	0.038	strong	.	NUP205	198	.	NM_015135	exon22	c.G3156A	p.A1052A	AGTGGCGGTGCGA	.	PASS	Atlas-SNP
PRTG	283659	hgsc.bcm.edu	37	15	56032872	56032872	+	Silent	SNP	G	G	A	rs77118243	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	38	66	0	0.542857	0	G|0.965;A|0.035	0.035	strong	.	PRTG	110	.	NM_173814	exon2	c.C105T	p.C35C	GCTAAAGCACCAC	.	PASS	Atlas-SNP
NASP	4678	hgsc.bcm.edu	37	1	46078854	46078854	+	Silent	SNP	A	A	G	rs2230658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	68	0	1	0	A|0.297;G|0.703	0.703	strong	.	NASP	77	.	NM_002482	exon7	c.A1440G	p.S480S	AGGCTCAGAAGAG	.	PASS	Atlas-SNP
OR5R1	219479	hgsc.bcm.edu	37	11	56185159	56185159	+	Missense_Mutation	SNP	A	A	G	rs7930678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	53	87	0	0.557895	0	A|0.675;G|0.324	0.324	strong	.	OR5R1	83	.	NM_001004744	exon1	c.T550C	p.F184L	CTAAGAAGGGGAG	.	PASS	Atlas-SNP
RAB3C	115827	hgsc.bcm.edu	37	5	58120940	58120940	+	Silent	SNP	C	C	T	rs373970752		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	195	2	228	0	0.0102564	0	.	.	weak	RAB3C,NS,carcinoma,0,1	RAB3C	47	1	NM_138453	exon4	c.C447T	p.D149D	GGAAGACGAGCGG	.	scavenged	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45750145	45750145	+	Missense_Mutation	SNP	T	T	C	rs11552066	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	42	0	0.479167	0	T|0.913;C|0.087	0.087	strong	.	C21orf2	10	.	NM_001271441	exon7	c.A1064G	p.Q355R	GTCTGCTGCACGG	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	998378	998378	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	54	108	0	0.482143	0	.	.	none	.	WNK1	403	.	NM_001184985	exon21	c.T6217A	p.S2073T	GTGACTTCTGCGG	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3224561	3224561	+	Silent	SNP	T	T	C	rs4875703	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	47	78	0	0.52809	0	T|0.701;C|0.299	0.299	strong	.	CSMD1	1469	.	NM_033225	exon20	c.A3108G	p.T1036T	TGAAAATGTGATA	.	PASS	Atlas-SNP
ARSA	410	hgsc.bcm.edu	37	22	51065361	51065361	+	Missense_Mutation	SNP	C	C	A	rs6151415	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	56	67	0	0.622222	0	C|0.958;A|0.042	0.042	strong	.	ARSA	19	.	NM_001085426	exon4	c.G585T	p.W195C	GGGCAGCCAGGGG	.	PASS	Atlas-SNP
DSG1	1828	hgsc.bcm.edu	37	18	28934274	28934274	+	Silent	SNP	C	C	T	rs146192657	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	87	112	0	0.644444	0	C|0.994;T|0.006	0.006	strong	.	DSG1	176	.	NM_001942	exon15	c.C2115T	p.Y705Y	TGCTTACGCAGAT	.	PASS	Atlas-SNP
SLC25A45	283130	hgsc.bcm.edu	37	11	65144331	65144331	+	Missense_Mutation	SNP	C	C	T	rs371949191		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	89	203	0	0.421801	0	.	.	weak	.	SLC25A45	23	.	NM_182556	exon6	c.G556A	p.E186K	GCCCTTCATAGGT	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183226114	183226114	+	Silent	SNP	G	G	T	rs73188786	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	141	121	1	1	0.00826446	G|0.917;T|0.083	0.083	strong	.	KLHL6	100	.	NM_130446	exon3	c.C642A	p.P214P	GTCCACGGGCAGG	.	PASS	Atlas-SNP
APCDD1L	164284	hgsc.bcm.edu	37	20	57045667	57045667	+	Silent	SNP	T	T	C	rs1980576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	53	0	1	0	T|0.564;C|0.436	0.436	strong	.	APCDD1L	48	.	NM_153360	exon2	c.A186G	p.T62T	TTACCCTGTGGAG	.	PASS	Atlas-SNP
ARSB	411	hgsc.bcm.edu	37	5	78135241	78135241	+	Missense_Mutation	SNP	C	C	T	rs25414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	51	119	0	0.472222	0	C|0.963;T|0.037	0.037	strong	.	ARSB	47	.	NM_198709	exon7	c.G1151A	p.S384N	GATGGGCTTCCTT	.	PASS	Atlas-SNP
SLC39A12	221074	hgsc.bcm.edu	37	10	18254595	18254595	+	Missense_Mutation	SNP	C	C	T	rs62619938	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	37	62	0	0.5	0	C|0.956;T|0.044	0.044	strong	SLC39A12,NS,carcinoma,-1,1	SLC39A12	181	1	NM_152725	exon4	c.C727T	p.R243C	TTGAATCGTACGA	.	PASS	Atlas-SNP
SLC22A20	440044	hgsc.bcm.edu	37	11	64981472	64981472	+	Silent	SNP	G	G	C	rs239258	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	26	84	0	0.530612	0	G|0.614;C|0.386	0.386	strong	SLC22A20,NS,carcinoma,0,6	SLC22A20	36	6	NM_001004326	exon1	c.G129C	p.T43T	CTTCACGGCCGCT	.	PASS	Atlas-SNP
PMS2	5395	hgsc.bcm.edu	37	7	6026942	6026942	+	Missense_Mutation	SNP	G	G	T	rs1805323	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	53	46	1	0.595506	0.0217391	G|0.944;T|0.056	0.056	strong	PMS2,NS,carcinoma,+1,2	PMS2	88	2	NM_000535	exon11	c.C1454A	p.T485K	CTGTCCGTAGGGT	.	scavenged	Atlas-SNP
DPPA3	359787	hgsc.bcm.edu	37	12	7864199	7864199	+	Silent	SNP	C	C	T	rs61753205	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	23	60	0	0.534884	0	C|0.993;T|0.007	0.007	strong	.	DPPA3	26	.	NM_199286	exon1	c.C33T	p.I11I	CTACATCCCAGGG	.	PASS	Atlas-SNP
ATXN1	6310	hgsc.bcm.edu	37	6	16327921	16327921	+	Missense_Mutation	SNP	C	C	A	rs201030692		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	3	32	0	0.0789474	0	.	.	weak	ATXN1,NS,carcinoma,0,1	ATXN1	117	1	NM_001128164	exon7	c.G621T	p.Q207H	ATGCTGCTGCTGC	.	scavenged	Atlas-SNP
TAF1C	9013	hgsc.bcm.edu	37	16	84215390	84215390	+	Silent	SNP	T	T	C	rs2230127	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	174	191	0	1	0	T|0.654;C|0.346	0.346	strong	TAF1C,NS,carcinoma,0,1	TAF1C	60	1	NM_005679	exon8	c.A996G	p.A332A	CTGCATTGCCTGC	.	PASS	Atlas-SNP
SLFN14	342618	hgsc.bcm.edu	37	17	33884804	33884804	+	Missense_Mutation	SNP	T	T	C	rs10512472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	63	99	0	0.440559	0	T|0.743;C|0.257	0.257	strong	.	SLFN14	43	.	NM_001129820	exon1	c.A278G	p.Q93R	TATTTCTGTGAAC	.	PASS	Atlas-SNP
OSBPL5	114879	hgsc.bcm.edu	37	11	3111866	3111866	+	Missense_Mutation	SNP	C	C	T	rs2277301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	64	142	0	0.457143	0	C|0.835;T|0.165	0.165	strong	.	OSBPL5	78	.	NM_020896	exon20	c.G2320A	p.A774T	CCGTGGCCTGGCT	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	37	17	8814719	8814719	+	Silent	SNP	G	G	A	rs56121082	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	13	44	0	0.464286	0	G|0.960;A|0.040	0.040	strong	.	PIK3R5	79	.	NM_001142633	exon2	c.C93T	p.T31T	CCAGGAGGTGGAG	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113349030	113349030	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	10	61	0	0.166667	0	.	.	none	.	CSMD3	2325	.	NM_198123	exon44	c.G6870T	p.M2290I	GCCATTCATTGCA	.	PASS	Atlas-SNP
ADAMTS16	170690	hgsc.bcm.edu	37	5	5190182	5190182	+	Silent	SNP	C	C	T	rs34105281	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	44	119	0	0.463158	0	C|0.982;T|0.018	0.018	strong	.	ADAMTS16	543	.	NM_139056	exon7	c.C1146T	p.H382H	TGACCACGCCATC	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	37	9	32457189	32457189	+	Silent	SNP	T	T	C	rs10970987	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	46	103	0	0.46	0	T|0.947;C|0.053	0.053	strong	.	DDX58	82	.	NM_014314	exon18	c.A2709G	p.T903T	GTACAGTGTCTGA	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324128	31324128	+	Silent	SNP	C	C	T	rs1050642	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	38	131	0	0.275362	0	C|0.945;T|0.055	0.055	strong	.	HLA-B	54	.	NM_005514	exon3	c.G435A	p.K145K	GTAATCCTTGCCG	.	PASS	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	37	12	52827818	52827818	+	Missense_Mutation	SNP	T	T	C	rs298109	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	41	95	0	0.5	0	T|0.365;G|0.002	.	strong	.	KRT75	75	.	NM_004693	exon1	c.A271G	p.R91G	CAAACCTGTTGCT	.	PASS	Atlas-SNP
SLC2A13	114134	hgsc.bcm.edu	37	12	40499347	40499347	+	Silent	SNP	G	G	A	rs7305377	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	69	45	0	0.985714	0	G|0.909;A|0.091	0.091	strong	.	SLC2A13	91	.	NM_052885	exon1	c.C264T	p.S88S	CAGCGCGGAGAAG	.	PASS	Atlas-SNP
RIMBP2	23504	hgsc.bcm.edu	37	12	130941150	130941150	+	Silent	SNP	G	G	C	rs2277361	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	14	40	0	0.4375	0	G|0.590;C|0.410	0.410	strong	.	RIMBP2	220	.	NM_015347	exon4	c.C198G	p.G66G	AATCTTGCCAGCG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187629896	187629896	+	Silent	SNP	G	G	A	rs11722204	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	36	75	0	0.5	0	G|0.969;A|0.031	0.031	strong	FAT1,NS,carcinoma,0,2	FAT1	500	2	NM_005245	exon2	c.C1086T	p.A362A	TGGCCCGGCTTTG	.	PASS	Atlas-SNP
RIMBP3C	150221	hgsc.bcm.edu	37	22	21742598	21742598	+	Missense_Mutation	SNP	G	G	A	rs468931	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	652	336	646	3	0.515337	0.00464396	G|0.250;A|0.750	0.750	weak	RIMBP3B,NS,carcinoma,0,3	RIMBP3C	6	3	NM_001128633	exon1	c.G4451A	p.R1484K	AGAAAAGGCAGTT	.	scavenged	Atlas-SNP
FBLN2	2199	hgsc.bcm.edu	37	3	13679203	13679203	+	Silent	SNP	G	G	A	rs1061375	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	123	154	0	0.602941	0	G|0.494;A|0.506	0.506	strong	.	FBLN2	137	.	NM_001004019	exon18	c.G3480A	p.T1160T	CTTCACGGGGGAC	.	PASS	Atlas-SNP
CC2D2A	57545	hgsc.bcm.edu	37	4	15569018	15569018	+	Silent	SNP	G	G	A	rs73125627	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	338	161	325	0	0.476331	0	G|0.819;A|0.181	0.181	strong	CC2D2A,NS,carcinoma,0,1	CC2D2A	158	1	NM_001080522	exon26	c.G3201A	p.S1067S	GCCGTCGAGGTCT	.	PASS	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56539240	56539240	+	Silent	SNP	C	C	T	rs397977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	64	104	0	0.528926	0	C|0.671;N|0.000	.	strong	NLRP5,NS,carcinoma,0,1	NLRP5	217	1	NM_153447	exon7	c.C1641T	p.D547D	GTTTGACGGTGAC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228554725	228554725	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	46	105	0	0.433962	0	.	.	none	.	OBSCN	2142	.	NM_001271223	exon97	c.T22348G	p.L7450V	AAGATCTTGTGCG	.	PASS	Atlas-SNP
PLEK	5341	hgsc.bcm.edu	37	2	68607947	68607947	+	Missense_Mutation	SNP	G	G	T	rs3816281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	26	74	0	0.393939	0	G|0.661;N|0.000	.	strong	.	PLEK	64	.	NM_002664	exon3	c.G291T	p.K97N	TATCAAGAAGGCC	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133755528	133755528	+	Silent	SNP	A	A	G	rs2227985	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	29	79	0	0.439394	0	A|0.898;G|0.102	0.102	strong	.	ABL1	1632	.	NM_007313	exon9	c.A1554G	p.E518E	CCAGGAATCCAGT	.	PASS	Atlas-SNP
TREM1	54210	hgsc.bcm.edu	37	6	41250466	41250466	+	Missense_Mutation	SNP	T	T	A	rs2234237	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	90	143	0	0.573248	0	T|0.853;N|0.000	.	strong	.	TREM1	38	.	NM_001242590	exon2	c.A73T	p.T25S	CCTCAGTTAATTT	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147510866	147510866	+	Silent	SNP	T	T	C	rs2400478	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	74	88	0	1	0	T|0.486;C|0.514	0.514	strong	SPINK5_ENST00000359874,NS,carcinoma,0,2	SPINK5	245	2	NM_001127698	exon32	c.T3099C	p.G1033G	GATAGGTTATCTT	.	PASS	Atlas-SNP
DNAJB13	374407	hgsc.bcm.edu	37	11	73670645	73670645	+	Silent	SNP	T	T	C	rs653263	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	55	53	0	0.491071	0	T|0.418;C|0.582	0.582	strong	.	DNAJB13	28	.	NM_153614	exon3	c.T279C	p.H93H	CTTCCATGGCAAA	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	37	1	22919904	22919904	+	Silent	SNP	C	C	T	rs209696	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	52	112	0	0.38806	0	C|0.706;T|0.294	0.294	strong	.	EPHA8	221	.	NM_020526	exon6	c.C1401T	p.N467N	GCCGAACGGCATC	.	PASS	Atlas-SNP
TMEM206	55248	hgsc.bcm.edu	37	1	212558679	212558679	+	Silent	SNP	C	C	T	rs11556401	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	80	140	0	0.536913	0	C|0.987;T|0.013	0.013	strong	TMEM206,NS,carcinoma,-2,2	TMEM206	41	2	NM_001198862	exon5	c.G615A	p.P205P	GTCACCCGGCTGG	.	PASS	Atlas-SNP
MCTP2	55784	hgsc.bcm.edu	37	15	94884108	94884108	+	Silent	SNP	G	G	C	rs8025851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	37	96	1	0.425287	0.0104167	G|0.505;C|0.495	0.495	strong	MCTP2,NS,carcinoma,0,2	MCTP2	122	2	NM_001159643	exon6	c.G924C	p.V308V	GATCGTGTTAAAT	.	scavenged	Atlas-SNP
SPNS1	83985	hgsc.bcm.edu	37	16	28995145	28995145	+	Silent	SNP	C	C	T	rs4788114	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	11	24	0	0.37931	0	C|0.943;T|0.057	0.057	strong	.	SPNS1	47	.	NM_001142448	exon12	c.C1359T	p.F453F	CTCCTTCTTGTCC	.	PASS	Atlas-SNP
ACTL7B	10880	hgsc.bcm.edu	37	9	111617341	111617341	+	Silent	SNP	A	A	G	rs3750467	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	50	79	0	0.471698	0	A|0.890;G|0.110	0.110	strong	.	ACTL7B	57	.	NM_006686	exon1	c.T870C	p.T290T	GCCAATAGTGATG	.	PASS	Atlas-SNP
KAZALD1	81621	hgsc.bcm.edu	37	10	102824292	102824292	+	Missense_Mutation	SNP	G	G	A	rs11190812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	69	0	0.471698	0	G|0.974;A|0.026	0.026	strong	.	KAZALD1	14	.	NM_030929	exon4	c.G707A	p.G236D	TGACTGGCTGGCT	.	PASS	Atlas-SNP
SLC4A11	83959	hgsc.bcm.edu	37	20	3218563	3218563	+	Missense_Mutation	SNP	T	T	C	rs79057061	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	30	63	0	0.434783	0	T|0.935;C|0.065	0.065	strong	SLC4A11_ENST00000380059,NS,carcinoma,0,1	SLC4A11	188	1	NM_001174090	exon1	c.A148G	p.R50G	TTTTCCTGAGAAA	.	PASS	Atlas-SNP
INVS	27130	hgsc.bcm.edu	37	9	103054951	103054951	+	Silent	SNP	T	T	C	rs2787374	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	61	66	0	0.983871	0	T|0.489;C|0.511	0.511	strong	.	INVS	81	.	NM_014425	exon14	c.T2412C	p.S804S	GTGCTCTCCGGCT	.	PASS	Atlas-SNP
DEDD2	162989	hgsc.bcm.edu	37	19	42703833	42703833	+	Silent	SNP	A	A	G	rs2303652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	33	86	0	0.402439	0	A|0.871;G|0.129	0.129	strong	.	DEDD2	16	.	NM_133328	exon5	c.T738C	p.S246S	AACCACAGAGCCC	.	PASS	Atlas-SNP
DAK	26007	hgsc.bcm.edu	37	11	61111346	61111346	+	Missense_Mutation	SNP	C	C	G	rs35723406	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	30	32	0	0.625	0	C|0.923;G|0.077	0.077	strong	.	DAK	52	.	NM_015533	exon12	c.C1001G	p.A334G	CTGCAGCAGCCTG	.	PASS	Atlas-SNP
CLEC12A	160364	hgsc.bcm.edu	37	12	10131939	10131939	+	Silent	SNP	C	C	T	rs536947	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	32	67	0	0.603774	0	C|0.806;A|0.000	.	strong	.	CLEC12A	65	.	NM_001207010	exon4	c.C225T	p.H75H	AGTTCACGTAACT	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179300979	179300979	+	Missense_Mutation	SNP	A	A	T	rs77419724	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	29	76	0	0.325843	0	A|0.879;T|0.121	0.121	strong	PRKRA,NS,carcinoma,0,1	PRKRA	56	1	NM_003690	exon7	c.T677A	p.I226N	AAGTTGATCTTTT	.	PASS	Atlas-SNP
FAM198A	729085	hgsc.bcm.edu	37	3	43097710	43097710	+	Silent	SNP	A	A	G	rs664628	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	68	106	0	0.535433	0	A|0.589;G|0.411	0.411	strong	.	FAM198A	23	.	NM_001129908	exon5	c.A1560G	p.L520L	GTGTCTACAGAAC	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111966291	111966291	+	Silent	SNP	C	C	T	rs954739	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	53	125	0	0.430894	0	C|0.825;T|0.175	0.175	strong	.	OVGP1	177	.	NM_002557	exon5	c.G357A	p.K119K	AATAAACTTTTCA	.	PASS	Atlas-SNP
SOCS4	122809	hgsc.bcm.edu	37	14	55510110	55510110	+	Silent	SNP	G	G	A	rs17128136	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	38	53	0	0.644068	0	G|0.944;A|0.056	0.056	strong	.	SOCS4	34	.	NM_080867	exon2	c.G351A	p.P117P	GCTTCCGTCTAAA	.	PASS	Atlas-SNP
PDGFRB	5159	hgsc.bcm.edu	37	5	149497228	149497228	+	Silent	SNP	G	G	A	rs2228440	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	26	46	0	0.52	0	G|0.910;A|0.091	0.091	strong	.	PDGFRB	142	.	NM_002609	exon22	c.C3090T	p.P1030P	AACCTCGGGTTTG	.	PASS	Atlas-SNP
MLL4	8085	hgsc.bcm.edu	37	19	36223699	36223699	+	Silent	SNP	G	G	T	rs375564425	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	41	41	0	0.5125	0	.	.	weak	.	MLL4	229	.	NM_014727	exon28	c.G6249T	p.T2083T	GGGCACGCCTCCT	.	PASS	Atlas-SNP
SLC6A19	340024	hgsc.bcm.edu	37	5	1213668	1213668	+	Missense_Mutation	SNP	G	G	A	rs7732589	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	71	114	0	0.507143	0	G|0.808;A|0.192	0.192	strong	.	SLC6A19	99	.	NM_001003841	exon5	c.G754A	p.V252I	GGCATCGTCTTCC	.	PASS	Atlas-SNP
CBFA2T3	863	hgsc.bcm.edu	37	16	88951466	88951466	+	Missense_Mutation	SNP	G	G	A	rs143614023	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	13	10	0	0.481481	0	G|1.000;A|0.000	0.000	strong	.	CBFA2T3	47	.	NM_005187	exon7	c.C1105T	p.H369Y	GCCGATGGCGCTC	.	PASS	Atlas-SNP
MRPL39	54148	hgsc.bcm.edu	37	21	26965148	26965148	+	Silent	SNP	G	G	A	rs1135638	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	53	69	0	0.946429	0	G|0.221;A|0.779	0.779	strong	.	MRPL39	61	.	NM_017446	exon8	c.C897T	p.G299G	AGACACGCCCTGG	.	PASS	Atlas-SNP
ELP5	23587	hgsc.bcm.edu	37	17	7155861	7155861	+	Missense_Mutation	SNP	G	G	A	rs2521988	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	48	83	0	0.539326	0	G|0.906;A|0.094	0.094	strong	.	.	.	.	NM_203414	exon1	c.G40A	p.E14K	GGACGCGAGTTGG	.	PASS	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1565211	1565211	+	Silent	SNP	T	T	C	rs118000367	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	59	91	0	0.561905	0	T|0.983;C|0.017	0.017	strong	.	PRPF8	169	.	NM_006445	exon25	c.A4011G	p.Q1337Q	GTCGGATTGGGGG	.	PASS	Atlas-SNP
SLC22A1	6580	hgsc.bcm.edu	37	6	160560845	160560845	+	Missense_Mutation	SNP	A	A	G	rs628031	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	15	60	0	0.267857	0	A|0.330;G|0.669	0.669	strong	.	SLC22A1	69	.	NM_153187	exon7	c.A1222G	p.M408V	ATGGCCATGTCAA	.	PASS	Atlas-SNP
CHRNA7	1139	hgsc.bcm.edu	37	15	32322929	32322929	+	Silent	SNP	G	G	A	rs2292571	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	7	5	0	0.7	0	G|0.920;A|0.080	0.080	strong	.	CHRNA7	57	.	NM_001190455	exon1	c.G132A	p.A44A	CCCCGCGCCTGGG	.	PASS	Atlas-SNP
CCDC74B	91409	hgsc.bcm.edu	37	2	130897218	130897218	+	Silent	SNP	T	T	C	rs13006246	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	93	229	0	0.455882	0	T|0.826;C|0.174	0.174	strong	.	CCDC74B	27	.	NM_207310	exon8	c.A1053G	p.A351A	CTTCAGTGCGGGC	.	PASS	Atlas-SNP
ATAD3C	219293	hgsc.bcm.edu	37	1	1390875	1390875	+	Silent	SNP	C	C	T	rs1781147	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	40	99	0	0.380952	0	C|0.608;T|0.392	0.392	strong	ATAD3C,NS,carcinoma,+2,1	ATAD3C	23	1	NM_001039211	exon5	c.C414T	p.D138D	CCAGGACGTGCTG	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124267703	124267703	+	Silent	SNP	T	T	C	rs11057355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	53	57	0	0.981481	0	T|0.292;C|0.708	0.708	strong	.	DNAH10	888	.	NM_207437	exon7	c.T708C	p.S236S	GGTGTCTGACCTG	.	PASS	Atlas-SNP
OR56B4	196335	hgsc.bcm.edu	37	11	6129837	6129837	+	Missense_Mutation	SNP	C	C	T	rs1462983	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	90	216	0	0.5	0	C|0.575;T|0.425	0.425	strong	.	OR56B4	50	.	NM_001005181	exon1	c.C829T	p.P277S	CTTATTCCTGTGT	.	PASS	Atlas-SNP
ANKRD65	441869	hgsc.bcm.edu	37	1	1354515	1354515	+	Missense_Mutation	SNP	C	C	G	rs904589	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	87	151	0	0.527273	0	C|0.714;G|0.286	0.286	strong	.	ANKRD65	4	.	NM_001145210	exon4	c.G1165C	p.E389Q	CCTTCTCCCCCCC	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76111994	76111994	+	Silent	SNP	C	C	G	rs75035622	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	70	145	0	0.4375	0	.	.	weak	DTX2,NS,carcinoma,0,1	DTX2	64	1	NM_001102596	exon2	c.C438G	p.A146A	CTTGGCCCCCCTG	.	PASS	Atlas-SNP
VN1R4	317703	hgsc.bcm.edu	37	19	53770746	53770746	+	Missense_Mutation	SNP	C	C	A	rs140031028	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	22	151	1	0.177419	0.00662252	A|0.055;C|0.945;G|0.001	0.055	strong	VN1R4,mouth,carcinoma,0,1	VN1R4	65	1	NM_173857	exon1	c.G173T	p.R58L	TTACAGCGGAGAG	.	scavenged	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	37	16	84209738	84209738	+	Missense_Mutation	SNP	T	T	C	rs2288020	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	53	66	0	0.946429	0	C|0.283;N|0.000	0.283	strong	DNAAF1,NS,carcinoma,0,2	DNAAF1	81	2	NM_178452	exon11	c.T1898C	p.L633S	GGGACTTGGAAAT	.	PASS	Atlas-SNP
TMPRSS5	80975	hgsc.bcm.edu	37	11	113570852	113570852	+	Silent	SNP	C	C	T	rs3802854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	58	0	1	0	C|0.764;T|0.236	0.236	strong	.	TMPRSS5	69	.	NM_030770	exon2	c.G42A	p.Q14Q	TGCATACTGGGCC	.	PASS	Atlas-SNP
WBSCR17	64409	hgsc.bcm.edu	37	7	70800578	70800578	+	Missense_Mutation	SNP	G	G	T	rs145721199	bycluster;byfrequency;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	2	29	0	0.0540541	0	G|0.999;A|0.001	.	alt	WBSCR17,mouth,carcinoma,+1,1	WBSCR17	208	1	NM_022479	exon2	c.G281T	p.R94L	GTGGGCGGGGTAA	.	scavenged	Atlas-SNP
PTPN3	5774	hgsc.bcm.edu	37	9	112219474	112219474	+	Missense_Mutation	SNP	C	C	G	rs3793524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	100	105	0	0.961538	0	C|0.619;G|0.380	0.380	strong	.	PTPN3	106	.	NM_001145368	exon4	c.G268C	p.A90P	TGATGGCTTTGCT	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81242102	81242102	+	Missense_Mutation	SNP	G	G	A	rs6420424	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	9	47	0	0.45	0	G|0.437;A|0.563	0.563	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.C754T	p.R252W	CTTCCCGGCACTG	.	PASS	Atlas-SNP
DNTTIP2	30836	hgsc.bcm.edu	37	1	94342564	94342564	+	Missense_Mutation	SNP	C	C	A	rs3747965	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	43	111	0	0.518072	0	C|0.661;A|0.339	0.339	strong	.	DNTTIP2	59	.	NM_014597	exon2	c.G927T	p.E309D	TTTCCCCTCATCT	.	PASS	Atlas-SNP
CLRN3	119467	hgsc.bcm.edu	37	10	129690826	129690826	+	Missense_Mutation	SNP	A	A	T	rs35070529	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	29	55	0	0.460317	0	A|0.944;T|0.056	0.056	strong	.	CLRN3	27	.	NM_152311	exon1	c.T223A	p.F75I	CTGCAAACTTTTT	.	PASS	Atlas-SNP
PCDHB12	56124	hgsc.bcm.edu	37	5	140589738	140589738	+	Missense_Mutation	SNP	C	C	T	rs2910327	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	47	85	0	0.479592	0	C|0.860;T|0.140	0.140	strong	.	PCDHB12	179	.	NM_018932	exon1	c.C1259T	p.T420I	ACATCACCATCAC	.	PASS	Atlas-SNP
COL5A3	50509	hgsc.bcm.edu	37	19	10079093	10079093	+	Missense_Mutation	SNP	C	C	T	rs3815746	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	30	82	0	0.4	0	C|0.783;T|0.216	0.216	strong	.	COL5A3	243	.	NM_015719	exon59	c.G4282A	p.V1428M	CCTGCACGCCTGG	.	PASS	Atlas-SNP
AMBN	258	hgsc.bcm.edu	37	4	71472426	71472426	+	Silent	SNP	A	A	G	rs7680880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	112	182	1	0.57732	0.00549451	A|0.762;G|0.238	0.238	strong	.	AMBN	73	.	NM_016519	exon13	c.A1323G	p.A441A	TGACGCATGGCAT	.	PASS	Atlas-SNP
DSG1	1828	hgsc.bcm.edu	37	18	28913599	28913599	+	Silent	SNP	C	C	T	rs12967407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	58	128	1	0.414286	0.0078125	C|0.616;T|0.384	0.384	strong	DSG1,colon,carcinoma,+2,1	DSG1	176	1	NM_001942	exon7	c.C732T	p.G244G	AGATGGCGGGGCA	.	scavenged	Atlas-SNP
FOXI1	2299	hgsc.bcm.edu	37	5	169533240	169533240	+	Silent	SNP	G	G	A	rs2277944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	54	66	0	0.524272	0	G|0.676;A|0.324	0.324	strong	.	FOXI1	70	.	NM_012188	exon1	c.G279A	p.R93R	GCAGAGGCCGCTG	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88787673	88787673	+	Missense_Mutation	SNP	G	G	A	rs35159887	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	24	57	0	0.489796	0	G|0.825;A|0.175	0.175	strong	PIEZO1,NS,carcinoma,0,1	PIEZO1	79	1	NM_001142864	exon39	c.C5569T	p.P1857S	CTTGGGGTTCTGG	.	PASS	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	37	10	135012162	135012162	+	Missense_Mutation	SNP	T	T	C	rs2998139	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	110	105	0	0.982143	0	T|0.452;C|0.548	0.548	strong	KNDC1,NS,carcinoma,0,1	KNDC1	155	1	NM_152643	exon14	c.T2150C	p.L717P	TCTCCCTGGAGGC	.	PASS	Atlas-SNP
ZNF772	400720	hgsc.bcm.edu	37	19	57984918	57984918	+	Silent	SNP	A	A	G	rs2074058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	13	37	0	0.481481	0	A|0.659;G|0.341	0.341	strong	.	ZNF772	42	.	NM_001024596	exon5	c.T1194C	p.S398S	ATGAACACTCCAA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134736052	134736052	+	Missense_Mutation	SNP	G	G	T	rs4880287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	89	80	0	0.988889	0	G|0.640;T|0.360	0.360	strong	.	TTC40	100	.	NM_001200049	exon12	c.C1417A	p.R473S	ACAGACGCAGCCG	.	PASS	Atlas-SNP
SELP	6403	hgsc.bcm.edu	37	1	169565346	169565346	+	Missense_Mutation	SNP	C	C	A	rs6133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	82	128	0	0.405941	0	C|0.768;A|0.232	0.232	strong	.	SELP	132	.	NM_003005	exon12	c.G1918T	p.V640L	ATTGCACCCCTGG	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207646923	207646923	+	Missense_Mutation	SNP	G	G	A	rs17616	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	210	94	190	0	0.447619	0	G|0.694;A|0.306	0.306	strong	CR2,NS,carcinoma,+1,1	CR2	164	1	NM_001006658	exon11	c.G2012A	p.R671H	ATGGTCGTCATAC	.	PASS	Atlas-SNP
NPEPPS	9520	hgsc.bcm.edu	37	17	45669878	45669878	+	Silent	SNP	T	T	C	rs148379754	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	420	203	356	1	0.483333	0.00280899	T|0.963;C|0.037	0.037	strong	.	NPEPPS	59	.	NM_006310	exon12	c.T1393C	p.L465L	ATGTATTTAACCA	.	PASS	Atlas-SNP
RBM33	155435	hgsc.bcm.edu	37	7	155531080	155531080	+	Missense_Mutation	SNP	A	A	G	rs3735576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	21	47	0	0.411765	0	A|0.633;G|0.367	0.367	strong	.	RBM33	157	.	NM_053043	exon11	c.A1720G	p.T574A	ACACACACACAGC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9065632	9065632	+	Missense_Mutation	SNP	T	T	C	rs1867691	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	28	60	0	0.4375	0	T|0.778;C|0.222	0.222	strong	.	MUC16	4315	.	NM_024690	exon3	c.A21814G	p.I7272V	CACCAATGGACAC	.	PASS	Atlas-SNP
KRT14	3861	hgsc.bcm.edu	37	17	39738752	39738752	+	Missense_Mutation	SNP	C	C	T	rs11551760	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	20	68	0	0.344828	0	C|0.985;T|0.015	0.015	strong	KRT14,caecum,carcinoma,+1,1	KRT14	65	1	NM_000526	exon8	c.G1354A	p.V452I	CCATGACCTTGGT	.	PASS	Atlas-SNP
OR2J3	442186	hgsc.bcm.edu	37	6	29080004	29080004	+	Missense_Mutation	SNP	A	A	G	rs28757581	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	242	110	195	1	0.454545	0.00512821	A|0.839;G|0.161	0.161	strong	OR2J3,NS,carcinoma,0,1	OR2J3	53	1	NM_001005216	exon1	c.A337G	p.T113A	GGAACCACAGAGT	.	scavenged	Atlas-SNP
UMPS	7372	hgsc.bcm.edu	37	3	124456742	124456742	+	Missense_Mutation	SNP	G	G	C	rs1801019	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	49	71	0	0.4375	0	G|0.832;C|0.168	0.168	strong	.	UMPS	43	.	NM_000373	exon3	c.G638C	p.G213A	ATAATGGTTCTCC	.	PASS	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	37	5	33576803	33576803	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	49	83	0	0.441441	0	.	.	none	.	ADAMTS12	464	.	NM_030955	exon19	c.G3328A	p.D1110N	CAGTATCTGAACT	.	PASS	Atlas-SNP
CTBS	1486	hgsc.bcm.edu	37	1	85029077	85029077	+	Missense_Mutation	SNP	C	C	T	rs15911	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	47	67	0	0.431193	0	C|0.831;T|0.169	0.169	strong	.	CTBS	24	.	NM_004388	exon6	c.G820A	p.V274I	AAGGGACTTTTGC	.	PASS	Atlas-SNP
HPS1	3257	hgsc.bcm.edu	37	10	100185638	100185638	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	59	112	0	0.546296	0	.	.	none	.	HPS1	65	.	NM_000195	exon12	c.A1092G	p.L364L	GGGCACTAGGGGG	.	PASS	Atlas-SNP
ROS1	6098	hgsc.bcm.edu	37	6	117631431	117631431	+	Silent	SNP	T	T	G	rs552183	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	22	30	0	0.431373	0	T|0.864;G|0.136	0.136	strong	.	ROS1	728	.	NM_002944	exon40	c.A6247C	p.R2083R	AATTTCTAGCTGC	.	PASS	Atlas-SNP
ATXN7	6314	hgsc.bcm.edu	37	3	63982082	63982082	+	Missense_Mutation	SNP	G	G	A	rs3774729	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	284	106	249	1	0.373239	0.00401606	G|0.550;A|0.450	0.450	strong	ATXN7_ENST00000398590,rectum,carcinoma,0,2	ATXN7	126	2	NM_000333	exon12	c.G2584A	p.V862M	CCAGCCGTGAACA	.	scavenged	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	37	15	52664408	52664408	+	Silent	SNP	G	G	A	rs11637651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	42	98	0	0.494118	0	G|0.944;A|0.056	0.056	strong	.	MYO5A	145	.	NM_000259	exon21	c.C2730T	p.I910I	AGCCTCGATTTTG	.	PASS	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058743	19058743	+	Missense_Mutation	SNP	G	G	C	rs41319051	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	270	115	296	0	0.425926	0	G|1.000;|0.000	.	weak	.	HAUS6	66	.	NM_017645	exon16	c.C2022G	p.H674Q	ATCTATGTGACTG	.	PASS	Atlas-SNP
CHD3	1107	hgsc.bcm.edu	37	17	7796805	7796805	+	Silent	SNP	C	C	G	rs199898244	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	46	130	0	0.438095	0	C|0.999;G|0.001	0.001	strong	.	CHD3	169	.	NM_001005271	exon5	c.C888G	p.S296S	ACCCTCCGGACCC	.	PASS	Atlas-SNP
LAMP5	24141	hgsc.bcm.edu	37	20	9496716	9496716	+	Missense_Mutation	SNP	C	C	G	rs2232264	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	38	111	2	0.417582	0.018018	C|0.731;G|0.269	0.269	strong	C20orf103,colon,carcinoma,0,1	.	.	1	NM_012261	exon3	c.C307G	p.Q103E	CACAGCCAGTCGG	.	scavenged	Atlas-SNP
LSP1	4046	hgsc.bcm.edu	37	11	1902768	1902768	+	Missense_Mutation	SNP	G	G	A	rs621679	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	67	90	0	0.536	0	G|0.638;A|0.362	0.362	strong	.	LSP1	59	.	NM_001242932	exon4	c.G682A	p.A228T	CAGGGCGCCTTGG	.	PASS	Atlas-SNP
COL25A1	84570	hgsc.bcm.edu	37	4	109863370	109863370	+	Missense_Mutation	SNP	C	C	T	rs17531474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	128	123	1	0.992248	0.00813008	C|0.939;T|0.061	0.061	strong	.	COL25A1	178	.	NM_001256074	exon7	c.G547A	p.V183I	CCTTGACGGTGAG	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20762646	20762646	+	Missense_Mutation	SNP	G	G	T	rs62453384	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	27	78	1	0.232759	0.0128205	G|0.714;T|0.286	0.286	strong	ABCB5,NS,carcinoma,+1,1	ABCB5	357	1	NM_001163941	exon21	c.G2429T	p.G810V	CAACAGGTTCCAG	.	scavenged	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	37	9	123929770	123929770	+	Silent	SNP	C	C	T	rs61745682	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	78	138	0	0.52349	0	C|0.881;T|0.119	0.119	strong	.	CNTRL	161	.	NM_007018	exon35	c.C5659T	p.L1887L	AAGGACCTGCTTC	.	PASS	Atlas-SNP
DPYD	1806	hgsc.bcm.edu	37	1	97981395	97981395	+	Missense_Mutation	SNP	T	T	C	rs1801159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	41	71	0	0.482353	0	T|0.802;C|0.198	0.198	strong	.	DPYD	219	.	NM_000110	exon13	c.A1627G	p.I543V	GATTTATAAACTT	.	PASS	Atlas-SNP
HIF3A	64344	hgsc.bcm.edu	37	19	46823751	46823751	+	Silent	SNP	C	C	T	rs3764610	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	34	39	0	0.586207	0	C|0.840;N|0.000	.	strong	HIF3A_ENST00000377670,NS,carcinoma,+1,2	HIF3A	154	2	NM_152795	exon9	c.C1077T	p.H359H	GCAACACTCTCGC	.	PASS	Atlas-SNP
LRRC33	375387	hgsc.bcm.edu	37	3	196388023	196388023	+	Silent	SNP	C	C	G	rs62636585	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	109	115	0	0.652695	0	C|0.984;G|0.016	0.016	strong	.	LRRC33	91	.	NM_198565	exon3	c.C1509G	p.L503L	GAGCCTCGCCCCA	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62595547	62595547	+	Missense_Mutation	SNP	C	C	T	rs6062599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	23	51	0	0.433962	0	C|0.882;T|0.118	0.118	strong	ZNF512B,caecum,carcinoma,0,1	ZNF512B	72	1	NM_020713	exon8	c.G1357A	p.A453T	CTCGGGCCTTGTC	.	PASS	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41069852	41069852	+	Missense_Mutation	SNP	T	T	C	rs13174484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	53	142	0	0.395522	0	T|0.743;C|0.257	0.257	strong	.	.	.	.	NM_173489	exon2	c.A31G	p.M11V	CAAACATCTCTAA	.	PASS	Atlas-SNP
GCA	25801	hgsc.bcm.edu	37	2	163208893	163208893	+	Missense_Mutation	SNP	T	T	G	rs17783344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	79	134	0	0.568345	0	T|0.908;G|0.092	0.092	strong	.	GCA	15	.	NM_012198	exon3	c.T238G	p.S80A	ACACAGTCTGGAA	.	PASS	Atlas-SNP
KRTAP5-10	387273	hgsc.bcm.edu	37	11	71276888	71276888	+	Silent	SNP	T	T	C	rs12793134	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	5	66	2	0.0961538	0.030303	T|0.998;C|0.002	0.002	weak	KRTAP5-10,NS,neuroblastoma,0,1	KRTAP5-10	37	1	NM_001012710	exon1	c.T255C	p.G85G	CTGTGGTTCCTGT	.	scavenged	Atlas-SNP
SPAG16	79582	hgsc.bcm.edu	37	2	214727221	214727221	+	Missense_Mutation	SNP	A	A	C	rs2042791	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	60	97	2	0.495868	0.0206186	A|0.653;C|0.347	0.347	strong	SPAG16,NS,carcinoma,0,1	SPAG16	134	1	NM_024532	exon11	c.A1083C	p.Q361H	CATGCAACCCCAC	.	scavenged	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	37	3	108754214	108754214	+	Missense_Mutation	SNP	T	T	C	rs3762697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	42	82	0	0.341463	0	T|0.839;C|0.161	0.161	strong	.	MORC1	211	.	NM_014429	exon15	c.A1432G	p.M478V	TACCCATGGCTTG	.	PASS	Atlas-SNP
ASIC2	40	hgsc.bcm.edu	37	17	32483270	32483270	+	Silent	SNP	C	C	G	rs2228989	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	74	89	0	1	0	C|0.782;G|0.218	0.218	strong	.	.	.	.	NM_001094	exon1	c.G282C	p.L94L	GCCATTCAGGTTA	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371075	240371075	+	Missense_Mutation	SNP	C	C	T	rs71646825	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	12	53	0	0.164384	0	C|0.820;T|0.180	0.180	strong	.	FMN2	451	.	NM_020066	exon5	c.C2963T	p.P988L	TACCCCCTCCTCC	.	PASS	Atlas-SNP
CUL2	8453	hgsc.bcm.edu	37	10	35302705	35302705	+	Silent	SNP	C	C	T	rs12830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	13	5	25	0	0.384615	0	T|0.272;G|0.012	0.272	strong	CUL2,colon,carcinoma,-1,1	CUL2	63	1	NM_001198778	exon19	c.G1968A	p.S656S	TGAAAACGAAGAT	.	scavenged	Atlas-SNP
CXorf65	158830	hgsc.bcm.edu	37	X	70324157	70324157	+	Silent	SNP	C	C	T	rs1130009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	63	49	0	1	0	0|0.002;T|0.182	0.182	strong	.	CXorf65	23	.	NM_001025265	exon5	c.G417A	p.A139A	GACACTCGCAGGG	.	PASS	Atlas-SNP
CNOT1	23019	hgsc.bcm.edu	37	16	58616984	58616984	+	Silent	SNP	T	T	C	rs17854029	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	74	142	0	0.465409	0	T|0.709;C|0.291	0.291	strong	CNOT1_ENST00000441024,NS,carcinoma,0,2	CNOT1	359	2	NM_206999	exon9	c.A909G	p.G303G	TGTTAATCCTGAA	.	PASS	Atlas-SNP
TEX2	55852	hgsc.bcm.edu	37	17	62270941	62270941	+	Silent	SNP	C	C	T	rs34343500	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	71	134	0	0.470199	0	C|0.874;T|0.126	0.126	strong	.	TEX2	89	.	NM_018469	exon4	c.G2154A	p.S718S	GACACCCGATGAC	.	PASS	Atlas-SNP
HSD17B1	3292	hgsc.bcm.edu	37	17	40706596	40706596	+	Missense_Mutation	SNP	C	C	T	rs147402365	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	28	24	0	0.651163	0	C|0.996;T|0.004	0.004	strong	.	HSD17B1	24	.	NM_000413	exon5	c.C713T	p.A238V	AGGTGGCGGAGGT	.	PASS	Atlas-SNP
PRODH2	58510	hgsc.bcm.edu	37	19	36298022	36298022	+	Missense_Mutation	SNP	T	T	C	rs73594420	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	29	53	0	0.491525	0	T|0.889;C|0.111	0.111	strong	PRODH2,NS,carcinoma,0,1	PRODH2	68	1	NM_021232	exon6	c.A827G	p.N276S	TGGAGGTTCTAGG	.	PASS	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4797457	4797457	+	Missense_Mutation	SNP	C	C	T	rs17853375	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	55	101	0	0.474138	0	C|0.555;G|0.000;T|0.445	0.445	strong	.	C16orf71	46	.	NM_139170	exon9	c.C1394T	p.P465L	AGGCCCCTGAAGA	.	PASS	Atlas-SNP
C14orf37	145407	hgsc.bcm.edu	37	14	58605790	58605790	+	Missense_Mutation	SNP	G	G	A	rs3829765	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	88	157	0	0.564103	0	G|0.593;A|0.407	0.407	strong	.	C14orf37	87	.	NM_001001872	exon2	c.C287T	p.T96I	GGCTGGGTTTCTT	.	PASS	Atlas-SNP
PRB3	5544	hgsc.bcm.edu	37	12	11420941	11420941	+	Missense_Mutation	SNP	G	G	T	rs61737269	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	19	43	0	0.452381	0	G|0.961;T|0.039	0.039	strong	PRB3_ENST00000538488,NS,carcinoma,0,2	PRB3	84	2	NM_006249	exon3	c.C242A	p.P81Q	GGGGGTGGTCCTT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152279729	152279729	+	Missense_Mutation	SNP	C	C	T	rs3126072	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	225	153	175	0	0.68	0	C|0.682;T|0.318	0.318	strong	FLG,NS,carcinoma,+1,1	FLG	900	1	NM_002016	exon3	c.G7633A	p.G2545R	AGTGTCCAGAGCT	.	PASS	Atlas-SNP
ZNF354A	6940	hgsc.bcm.edu	37	5	178139442	178139442	+	Silent	SNP	T	T	G	rs76562034		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	28	60	1	0.474576	0.0166667	.	.	weak	ZNF354A,NS,carcinoma,0,1	ZNF354A	74	1	NM_005649	exon5	c.A1437C	p.S479S	GAGAGCTGAACTC	.	scavenged	Atlas-SNP
FAM221B	392307	hgsc.bcm.edu	37	9	35826058	35826058	+	Missense_Mutation	SNP	T	T	C	rs13294256	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	29	76	0	0.39726	0	T|0.764;C|0.236	0.236	strong	.	FAM221B	38	.	NM_001012446	exon2	c.A101G	p.H34R	GAGATATGGTTCT	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56437729	56437729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	314	4	334	2	0.0127389	0.00598802	.	.	none	DST_ENST00000370769,NS,carcinoma,0,2	DST	1427	2	NM_015548	exon33	c.G5501A	p.R1834Q	GAAAACCGAGCAG	.	scavenged	Atlas-SNP
SLC22A12	116085	hgsc.bcm.edu	37	11	64359286	64359286	+	Silent	SNP	C	C	T	rs3825016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	33	30	0	0.970588	0	C|0.512;T|0.488	0.488	strong	.	SLC22A12	68	.	NM_144585	exon1	c.C258T	p.H86H	GCCCCACCAGTGC	.	PASS	Atlas-SNP
SLCO5A1	81796	hgsc.bcm.edu	37	8	70588878	70588878	+	Silent	SNP	T	T	C	rs10448034	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	44	111	0	0.556962	0	T|0.864;C|0.136	0.136	strong	.	SLCO5A1	142	.	NM_030958	exon9	c.A2055G	p.A685A	TCCCAGTGCAAAA	.	PASS	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	37	12	52825363	52825363	+	Silent	SNP	G	G	A	rs1798640	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	47	115	0	0.38843	0	G|0.370;A|0.630	0.630	strong	.	KRT75	75	.	NM_004693	exon4	c.C834T	p.P278P	CTCCTCGGGCAGA	.	PASS	Atlas-SNP
TMEM186	25880	hgsc.bcm.edu	37	16	8890322	8890322	+	Silent	SNP	G	G	A	rs74689268	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	29	82	0	0.408451	0	G|0.986;A|0.014	0.014	strong	.	TMEM186	21	.	NM_015421	exon2	c.C129T	p.I43I	CTTCGAGATGGGT	.	PASS	Atlas-SNP
UGT1A3	54659	hgsc.bcm.edu	37	2	234637803	234637803	+	Missense_Mutation	SNP	T	T	C	rs3821242	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	76	156	0	0.503311	0	T|0.511;C|0.489	0.489	strong	UGT1A3,colon,carcinoma,0,1	UGT1A3	91	1	NM_019093	exon1	c.T31C	p.W11R	CTGCCGTGGCTGG	.	PASS	Atlas-SNP
TAS2R13	50838	hgsc.bcm.edu	37	12	11061122	11061122	+	Missense_Mutation	SNP	T	T	C	rs1015443	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	95	0	1	0	T|0.499;C|0.501	0.501	strong	.	TAS2R13	29	.	NM_023920	exon1	c.A776G	p.N259S	ACTGTGTTCTGAT	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84607492	84607492	+	Missense_Mutation	SNP	C	C	T	rs190878253	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	272	62	227	0	0.227941	0	C|0.999;T|0.001	0.001	strong	.	.	.	.	NM_001001670	exon4	c.C2107T	p.P703S	GGCCTGCCCCGCA	.	PASS	Atlas-SNP
CBL	867	hgsc.bcm.edu	37	11	119168130	119168130	+	Silent	SNP	G	G	C	rs143840974	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	39	95	0	0.464286	0	G|0.997;C|0.003	0.003	strong	CBL,NS,haematopoietic_neoplasm,0,1	CBL	408	1	NM_005188	exon14	c.G2190C	p.T730T	CTGTACGTATGAA	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134351500	134351500	+	Silent	SNP	C	C	T	rs113338693	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	14	17	0	0.451613	0	C|0.943;T|0.057	0.057	strong	.	PRRC2B	266	.	NM_013318	exon15	c.C3984T	p.P1328P	GGGACCCGAGGAG	.	PASS	Atlas-SNP
TSPO	706	hgsc.bcm.edu	37	22	43558972	43558972	+	Missense_Mutation	SNP	G	G	A	rs6972	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	48	81	0	0.484848	0	G|0.812;A|0.188	0.188	strong	.	TSPO	6	.	NM_001256531	exon4	c.G485A	p.R162H	GCTGGCGTGGGGG	.	PASS	Atlas-SNP
PTPN21	11099	hgsc.bcm.edu	37	14	88935925	88935925	+	Silent	SNP	A	A	G	rs2297129	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	49	141	0	0.441441	0	A|0.610;G|0.390	0.390	strong	.	PTPN21	113	.	NM_007039	exon17	c.T3153C	p.T1051T	TTGCCCAGTAAGG	.	PASS	Atlas-SNP
ANKRD18A	253650	hgsc.bcm.edu	37	9	38577092	38577092	+	Missense_Mutation	SNP	C	C	G	rs2993206	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	41	135	0	0.356522	0	C|0.968;G|0.032	0.032	strong	.	ANKRD18A	49	.	NM_147195	exon14	c.G2699C	p.G900A	ACTGCTCCTGCAA	.	PASS	Atlas-SNP
CACHD1	57685	hgsc.bcm.edu	37	1	65098309	65098309	+	Silent	SNP	G	G	A	rs61731122	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	46	94	0	0.5	0	G|0.983;A|0.017	0.017	strong	.	CACHD1	125	.	NM_020925	exon6	c.G519A	p.P173P	CCGGCCGCAGTCA	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56390237	56390237	+	Missense_Mutation	SNP	A	A	T	rs302453	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	82	172	0	0.479532	0	A|0.823;T|0.177	0.177	strong	.	NLRP4	331	.	NM_134444	exon9	c.A2774T	p.Q925L	TGCAGCAGCTCAA	.	PASS	Atlas-SNP
RASA3	22821	hgsc.bcm.edu	37	13	114780764	114780764	+	Silent	SNP	A	A	G	rs2274717	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	54	43	0	1	0	A|0.286;G|0.714	0.714	strong	.	RASA3	83	.	NM_007368	exon14	c.T1326C	p.T442T	AGACTCAGTGATG	.	PASS	Atlas-SNP
CARD16	114769	hgsc.bcm.edu	37	11	104912221	104912221	+	Missense_Mutation	SNP	T	T	A	rs542571	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	47	80	0	0.734375	0	T|0.776;A|0.224	0.224	strong	.	CARD16	29	.	NM_001017534	exon3	c.A500T	p.N167I	AGTATGTTCCTCC	.	PASS	Atlas-SNP
PAPSS1	9061	hgsc.bcm.edu	37	4	108575955	108575955	+	Missense_Mutation	SNP	G	G	A	rs35176475	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	60	158	0	0.425532	0	G|0.986;A|0.014	0.014	strong	PAPSS1,colon,carcinoma,+1,1	PAPSS1	57	1	NM_005443	exon8	c.C997T	p.R333C	CACGGCGGCCCTC	.	PASS	Atlas-SNP
TCEA3	6920	hgsc.bcm.edu	37	1	23743859	23743859	+	Missense_Mutation	SNP	T	T	C	rs192746462	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	71	131	0	0.496504	0	T|0.998;C|0.002	0.002	strong	.	TCEA3	20	.	NM_003196	exon4	c.A263G	p.E88G	CCTTTTTCTCCTT	.	PASS	Atlas-SNP
SPSB4	92369	hgsc.bcm.edu	37	3	140785175	140785175	+	Silent	SNP	C	C	A	rs890529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	15	5	0	0.483871	0	C|0.613;A|0.387	0.387	strong	.	SPSB4	19	.	NM_080862	exon2	c.C229A	p.R77R	TTCCACCGGCACC	.	PASS	Atlas-SNP
CAMK2D	817	hgsc.bcm.edu	37	4	114429407	114429407	+	Silent	SNP	C	C	T	rs11098193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	57	148	0	0.463415	0	C|0.853;T|0.147	0.147	strong	.	CAMK2D	55	.	NM_172129	exon14	c.G1002A	p.S334S	AACACTCGAACTG	.	PASS	Atlas-SNP
CUL3	8452	hgsc.bcm.edu	37	2	225346646	225346646	+	Silent	SNP	T	T	C	rs2070127	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	29	52	0	0.432836	0	T|0.816;C|0.184	0.184	strong	.	CUL3	96	.	NM_001257198	exon14	c.A2010G	p.Q670Q	TGTGAATTGATCA	.	PASS	Atlas-SNP
PUS3	83480	hgsc.bcm.edu	37	11	125766044	125766044	+	Missense_Mutation	SNP	C	C	A	rs549990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	291	156	269	1	0.536082	0.00371747	C|0.337;A|0.663	0.663	strong	PUS3,NS,carcinoma,0,1	PUS3	33	1	NM_031307	exon2	c.G136T	p.A46S	CTCCTGCTGAATT	.	PASS	Atlas-SNP
ARFGEF1	10565	hgsc.bcm.edu	37	8	68130065	68130065	+	Missense_Mutation	SNP	T	T	C	rs200528352		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	65	114	0	0.488722	0	.	.	weak	.	ARFGEF1	196	.	NM_006421	exon32	c.A4565G	p.K1522R	CAAGTTTTATCCC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230399	23230399	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	35	124	0	0.324074	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.G166C	p.V56L	GCCTCAGTTGGAA	.	PASS	Atlas-SNP
CABS1	85438	hgsc.bcm.edu	37	4	71201943	71201943	+	Silent	SNP	A	A	G	rs13039	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	55	68	0	0.578947	0	A|0.812;G|0.188	0.188	strong	.	CABS1	75	.	NM_033122	exon1	c.A1187G	p.X396X	TGATTTAAAAGCA	.	PASS	Atlas-SNP
VWA3A	146177	hgsc.bcm.edu	37	16	22144318	22144318	+	Missense_Mutation	SNP	C	C	T	rs1105929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	21	54	0	0.396226	0	C|0.477;T|0.523	0.523	strong	.	VWA3A	115	.	NM_173615	exon20	c.C1970T	p.T657I	ACACCACACCCCC	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5749904	5749904	+	Silent	SNP	T	T	C	rs4688963	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	36	81	0	0.45	0	T|0.559;C|0.441	0.441	strong	.	EVC	90	.	NM_153717	exon8	c.T969C	p.N323N	GGCAAATATCCAG	.	PASS	Atlas-SNP
C1orf87	127795	hgsc.bcm.edu	37	1	60506762	60506762	+	Silent	SNP	G	G	A	rs74843231	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	93	197	0	0.547059	0	G|0.938;A|0.062	0.062	strong	C1orf87,NS,carcinoma,0,1	C1orf87	55	1	NM_152377	exon4	c.C384T	p.T128T	GTCTCCGGTTGGT	.	PASS	Atlas-SNP
RFPL4A	342931	hgsc.bcm.edu	37	19	56274453	56274453	+	Missense_Mutation	SNP	G	G	A	rs75239380	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	16	144	0	0.10596	0	G|0.760;A|0.240	0.240	strong	ENSG00000188683,NS,carcinoma,0,1	RFPL4A	8	1	NM_001145014	exon3	c.G776A	p.G259E	AACGTGGAAGTCA	.	scavenged	Atlas-SNP
TMPRSS9	360200	hgsc.bcm.edu	37	19	2421857	2421857	+	Silent	SNP	C	C	T	rs72971482	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	38	64	0	0.469136	0	C|0.993;T|0.007	0.007	strong	.	TMPRSS9	79	.	NM_182973	exon13	c.C2058T	p.D686D	GGGTGACTCTGGG	.	PASS	Atlas-SNP
BAIAP3	8938	hgsc.bcm.edu	37	16	1397815	1397815	+	Silent	SNP	C	C	T	rs1132358	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	17	13	0	0.653846	0	C|0.656;T|0.344	0.344	strong	BAIAP3,NS,carcinoma,0,1	BAIAP3	88	1	NM_003933	exon31	c.C3123T	p.D1041D	CCTGGACGCCAAC	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	37	9	5050706	5050706	+	Silent	SNP	C	C	T	rs2230722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	34	64	0	0.53125	0	C|0.647;T|0.353	0.353	strong	.	JAK2	35466	.	NM_004972	exon6	c.C489T	p.H163H	TGTGCACGGATGG	.	PASS	Atlas-SNP
GPR55	9290	hgsc.bcm.edu	37	2	231775297	231775297	+	Silent	SNP	T	T	G	rs1992186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	27	63	0	0.5	0	T|0.502;G|0.498	0.498	strong	.	GPR55	46	.	NM_005683	exon2	c.A381C	p.L127L	CACCAGTAGCGGG	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240256668	240256668	+	Missense_Mutation	SNP	A	A	C	rs146681532	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	55	108	0	0.45082	0	A|0.997;C|0.003	0.003	strong	.	FMN2	451	.	NM_020066	exon1	c.A1259C	p.K420T	ACATCAAGACCAC	.	PASS	Atlas-SNP
HINFP	25988	hgsc.bcm.edu	37	11	119005132	119005132	+	Missense_Mutation	SNP	C	C	T	rs100803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	33	55	0	0.5	0	C|0.611;T|0.389	0.389	strong	.	HINFP	50	.	NM_015517	exon11	c.C1478T	p.A493V	CCCCAGCCCCTGA	.	PASS	Atlas-SNP
PTPN3	5774	hgsc.bcm.edu	37	9	112172674	112172674	+	Silent	SNP	C	C	T	rs17803052	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	300	126	296	0	0.42	0	C|0.946;T|0.054	0.054	strong	.	PTPN3	106	.	NM_002829	exon15	c.G1335A	p.P445P	TTGTGCCGGATTG	.	PASS	Atlas-SNP
CCDC152	100129792	hgsc.bcm.edu	37	5	42759295	42759295	+	Silent	SNP	C	C	T	rs200364347	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	65	160	0	0.477941	0	C|0.995;T|0.005	0.005	strong	CCDC152,NS,carcinoma,0,1	CCDC152	10	1	NM_001134848	exon2	c.C72T	p.F24F	TGACTTCTCACAG	.	PASS	Atlas-SNP
GEM	2669	hgsc.bcm.edu	37	8	95272605	95272605	+	Missense_Mutation	SNP	G	G	C	rs2170363	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	54	96	0	0.524272	0	A|0.009;C|0.090;G|0.902;N|0.000	0.090	strong	GEM,colon,carcinoma,+1,1	GEM	40	1	NM_181702	exon2	c.C127G	p.R43G	GGTTGCGGTGGCT	.	PASS	Atlas-SNP
PPAT	5471	hgsc.bcm.edu	37	4	57273840	57273840	+	Silent	SNP	C	C	G	rs11538098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	28	95	0	0.383562	0	C|0.671;G|0.329	0.329	strong	PPAT,NS,carcinoma,0,2	PPAT	41	2	NM_002703	exon2	c.G171C	p.S57S	TGGCACCGAACTC	.	PASS	Atlas-SNP
GLRA4	441509	hgsc.bcm.edu	37	X	102978806	102978806	+	Silent	SNP	G	G	C	rs5945807	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	187	206	0	1	0	0|0.009;C|0.169	0.169	strong	.	GLRA4	86	.	NM_001024452	exon5	c.C555G	p.T185T	CGTGCAGGTCTGG	.	PASS	Atlas-SNP
PRDM5	11107	hgsc.bcm.edu	37	4	121719544	121719544	+	Missense_Mutation	SNP	A	A	T	rs140634372	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	39	79	0	0.371429	0	A|0.982;T|0.018	0.018	strong	PRDM5,NS,carcinoma,0,1	PRDM5	76	1	NM_018699	exon10	c.T1066A	p.S356T	TGAAAGACTTATT	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	708275	708275	+	Missense_Mutation	SNP	C	C	A	rs45613635	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	58	97	0	0.522523	0	C|0.694;A|0.306	0.306	strong	.	WDR90	107	.	NM_145294	exon22	c.C2697A	p.H899Q	GGGCCACCTGCTG	.	PASS	Atlas-SNP
CDC37L1	55664	hgsc.bcm.edu	37	9	4685008	4685008	+	Silent	SNP	C	C	T	rs2295967	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	58	129	0	0.552381	0	C|0.893;T|0.107	0.107	strong	.	CDC37L1	19	.	NM_017913	exon2	c.C264T	p.S88S	TGAGTCCTTGGAT	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17084510	17084510	+	Silent	SNP	G	G	A	rs61769731	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	385	42	291	0	0.109091	0	G|0.981;A|0.019	0.019	strong	Q13209_HUMAN,NS,carcinoma,0,14	.	.	14	NM_001271733	exon12	c.C1588T	p.L530L	GCTGTAGGCCTGG	.	PASS	Atlas-SNP
SLC27A1	376497	hgsc.bcm.edu	37	19	17608183	17608183	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	4	126	0	0.0236686	0	.	.	none	SLC27A1,NS,carcinoma,0,1	SLC27A1	97	1	NM_198580	exon7	c.G1116A	p.E372E	CTGGGAGGAGTTC	.	scavenged	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122386948	122386948	+	Missense_Mutation	SNP	G	G	A	rs78910014	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	70	0	1	0	G|0.956;A|0.044	0.044	strong	WDR66,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	WDR66	143	1	NM_001178003	exon8	c.G1250A	p.R417Q	AAACACGGGCAAT	.	PASS	Atlas-SNP
SLC35G3	146861	hgsc.bcm.edu	37	17	33520965	33520965	+	Missense_Mutation	SNP	G	G	A	rs8079507	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	64	123	0	0.5	0	G|0.925;A|0.075	0.075	strong	AMAC1,NS,carcinoma,0,2	.	.	2	NM_152462	exon1	c.C362T	p.A121V	TGAACCGCACTGT	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17612694	17612694	+	Missense_Mutation	SNP	C	C	G	rs73206291	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	45	86	0	0.576923	0	C|0.943;G|0.057	0.057	strong	.	MTUS1	144	.	NM_001001924	exon2	c.G623C	p.W208S	GATGTCCAAGTGG	.	PASS	Atlas-SNP
SEMA4B	10509	hgsc.bcm.edu	37	15	90768320	90768320	+	Silent	SNP	C	C	T	rs11073918	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	44	81	0	0.483516	0	C|0.755;T|0.245	0.245	strong	.	SEMA4B	51	.	NM_020210	exon11	c.C1315T	p.L439L	ATGCTGCTGCTGC	.	PASS	Atlas-SNP
SRMS	6725	hgsc.bcm.edu	37	20	62173817	62173817	+	Missense_Mutation	SNP	C	C	T	rs34969822	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	100	144	0	0.578035	0	C|0.957;T|0.043	0.043	strong	.	SRMS	48	.	NM_080823	exon4	c.G763A	p.V255M	TCGCCACGGGCAG	.	PASS	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	37	4	2306053	2306053	+	Missense_Mutation	SNP	A	A	G	rs661301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	64	41	1	1	0.0243902	A|0.238;G|0.762	0.762	strong	ZFYVE28,NS,carcinoma,+1,2	ZFYVE28	79	2	NM_020972	exon8	c.T2014C	p.S672P	GAGCCGAGGGGCT	.	scavenged	Atlas-SNP
ZNF695	57116	hgsc.bcm.edu	37	1	247150740	247150740	+	Silent	SNP	T	T	C	rs3749427	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	51	36	0	1	0	T|0.388;C|0.612	0.612	strong	.	ZNF695	55	.	NM_020394	exon4	c.A1077G	p.K359K	AAAGGCTTTTCCA	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42522613	42522613	+	Missense_Mutation	SNP	G	G	C	rs1135840	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	60	95	0	0.560748	0	G|0.600;C|0.400	0.400	strong	CYP2D6_ENST00000360608,brain,glioma,0,2	CYP2D6	104	2	NM_000106	exon9	c.C1457G	p.T486S	GATGGGGTCACCA	.	PASS	Atlas-SNP
EID2	163126	hgsc.bcm.edu	37	19	40030654	40030654	+	Silent	SNP	G	G	C	rs76765165	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	7	27	0	0.35	0	G|0.786;C|0.214	0.214	strong	EID2,NS,carcinoma,0,1	EID2	14	1	NM_153232	exon1	c.C66G	p.V22V	CTGCGGGACGTCT	.	scavenged	Atlas-SNP
CRYM	1428	hgsc.bcm.edu	37	16	21272591	21272591	+	Silent	SNP	G	G	C	rs14122	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	89	169	1	0.609589	0.00591716	G|0.488;C|0.512	0.512	strong	.	CRYM	13	.	NM_001888	exon9	c.C864G	p.T288T	GAACACGGTGGTC	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62193445	62193445	+	Missense_Mutation	SNP	G	G	A	rs3810481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	33	82	0	0.445946	0	G|0.836;A|0.164	0.164	strong	.	.	.	.	NM_001037335	exon11	c.C6509T	p.T2170M	ATGACCGTGAAAG	.	PASS	Atlas-SNP
ADCK2	90956	hgsc.bcm.edu	37	7	140394587	140394587	+	Missense_Mutation	SNP	C	C	T	rs1046515	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	23	65	0	0.511111	0	C|0.890;T|0.110	0.110	strong	.	ADCK2	37	.	NM_052853	exon8	c.C1865T	p.P622L	CGGGCCCAGTGTG	.	PASS	Atlas-SNP
SDK2	54549	hgsc.bcm.edu	37	17	71398170	71398170	+	Silent	SNP	G	G	C	rs9302962	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	31	53	1	0.553571	0.0188679	G|0.547;C|0.453	0.453	strong	SDK2,NS,carcinoma,0,2	SDK2	219	2	NM_001144952	exon19	c.C2595G	p.T865T	GTACTCGGTGAAC	.	scavenged	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86913265	86913265	+	Silent	SNP	C	C	T	rs2275001	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	56	90	0	0.57732	0	C|0.765;T|0.235	0.235	strong	.	CLCA2	102	.	NM_006536	exon11	c.C1788T	p.R596R	CTCTCGCGCCTCC	.	PASS	Atlas-SNP
C7orf62	219557	hgsc.bcm.edu	37	7	88423881	88423881	+	Missense_Mutation	SNP	T	T	C	rs2293583	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	54	101	0	0.5625	0	T|0.902;C|0.098	0.098	strong	.	C7orf62	63	.	NM_152706	exon2	c.A376G	p.I126V	GTTGAATAAAAAA	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46657913	46657913	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	3	168	1	0.0188679	0.00595238	.	.	none	PKDREJ,NS,carcinoma,-1,2	PKDREJ	195	2	NM_006071	exon1	c.G1307A	p.R436Q	TCCTTCCGAATCA	.	scavenged	Atlas-SNP
HFM1	164045	hgsc.bcm.edu	37	1	91851193	91851193	+	Silent	SNP	G	G	A	rs12144808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	51	121	0	0.421488	0	G|0.898;A|0.102	0.102	strong	.	HFM1	188	.	NM_001017975	exon5	c.C693T	p.I231I	TTCTCCGATTTCA	.	PASS	Atlas-SNP
PRODH2	58510	hgsc.bcm.edu	37	19	36303664	36303664	+	Missense_Mutation	SNP	G	G	C	rs3848666	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	31	98	0	0.326316	0	G|0.901;C|0.099	0.099	strong	.	PRODH2	68	.	NM_021232	exon2	c.C272G	p.P91R	CTGGAGGGGGGAC	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208390155	208390155	+	Silent	SNP	C	C	T	rs4844657	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	26	50	0	0.52	0	C|0.856;T|0.144	0.144	strong	.	PLXNA2	178	.	NM_025179	exon2	c.G1113A	p.L371L	GGACTGCAGGCGC	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90079820	90079820	+	Silent	SNP	A	A	G	rs17554631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	61	91	0	0.491935	0	A|0.881;G|0.119	0.119	strong	.	GPR98	605	.	NM_032119	exon67	c.A13599G	p.T4533T	TTCCACAATGATT	.	PASS	Atlas-SNP
LDHA	3939	hgsc.bcm.edu	37	11	18427072	18427072	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	4	71	0	0.043956	0	.	.	none	.	LDHA	118	.	NM_001165414	exon7	c.A874G	p.I292V	GAGAGTATAATGA	.	PASS	Atlas-SNP
PIGX	54965	hgsc.bcm.edu	37	3	196460680	196460680	+	Silent	SNP	C	C	T	rs34830136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	99	151	0	0.572254	0	C|0.811;T|0.189	0.189	strong	.	PIGX	16	.	NM_001166304	exon7	c.C738T	p.T246T	ACATACCTCTCTA	.	PASS	Atlas-SNP
SLC4A2	6522	hgsc.bcm.edu	37	7	150761680	150761680	+	Silent	SNP	C	C	A	rs1050702	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	55	115	0	0.474138	0	C|0.839;A|0.161	0.161	strong	SLC4A2,NS,carcinoma,+1,1	SLC4A2	98	1	NM_003040	exon4	c.C285A	p.R95R	ACGCCGCCGCAAG	.	PASS	Atlas-SNP
MMP10	4319	hgsc.bcm.edu	37	11	102650424	102650424	+	Missense_Mutation	SNP	C	C	T	rs486055	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	91	103	0	1	0	C|0.916;T|0.084	0.084	strong	.	MMP10	44	.	NM_002425	exon2	c.G158A	p.R53K	TCCTTTCTTCTAA	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103388370	103388370	+	Missense_Mutation	SNP	C	C	T	rs9518825	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	88	140	3	0.52381	0.0214286	C|0.737;T|0.263	0.263	strong	Q8N800_HUMAN,NS,carcinoma,0,2	.	.	2	NM_001146197	exon4	c.G14677A	p.G4893S	TTCTACCTTCCCT	.	scavenged	Atlas-SNP
SLC36A3	285641	hgsc.bcm.edu	37	5	150663655	150663655	+	Silent	SNP	C	C	T	rs17660011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	53	69	0	0.609195	0	C|0.976;T|0.024	0.024	strong	.	SLC36A3	54	.	NM_001145017	exon9	c.G1047A	p.K349K	CCCAAACTTCATG	.	PASS	Atlas-SNP
ADAMTS16	170690	hgsc.bcm.edu	37	5	5239921	5239921	+	Silent	SNP	C	C	T	rs11742341	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	44	71	0	0.488889	0	C|0.865;T|0.135	0.135	strong	.	ADAMTS16	543	.	NM_139056	exon16	c.C2406T	p.T802T	CTGGACCGTGGAC	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77920863	77920863	+	Silent	SNP	C	C	A	rs2512527	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	65	93	0	0.507812	0	C|0.808;A|0.192	0.192	strong	.	USP35	179	.	NM_020798	exon10	c.C1962A	p.P654P	CCCCCCCACCAGC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9077436	9077436	+	Missense_Mutation	SNP	G	G	A	rs1862462	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	87	179	0	0.450777	0	G|0.749;A|0.251	0.251	strong	.	MUC16	4315	.	NM_024690	exon3	c.C10010T	p.S3337L	GTCTTTGAAACCA	.	PASS	Atlas-SNP
HLA-DQA2	3118	hgsc.bcm.edu	37	6	32713821	32713821	+	Silent	SNP	C	C	A	rs34005994	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	408	19	323	0	0.0465686	0	C|0.778;A|0.222	0.222	strong	HLA-DQA2,NS,carcinoma,+2,1	HLA-DQA2	27	1	NM_020056	exon3	c.C585A	p.G195G	CTGGGGCCTGGAC	.	scavenged	Atlas-SNP
RCC2	55920	hgsc.bcm.edu	37	1	17739586	17739586	+	Silent	SNP	G	G	A	rs942457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	52	125	0	0.464286	0	G|0.657;A|0.343	0.343	strong	.	RCC2	46	.	NM_001136204	exon9	c.C1296T	p.I432I	GCTCCGGATTCTC	.	PASS	Atlas-SNP
INPP4A	3631	hgsc.bcm.edu	37	2	99179971	99179971	+	Silent	SNP	C	C	G	rs61748143	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	62	113	0	0.469697	0	C|0.994;G|0.006	0.006	strong	INPP4A_ENST00000409540,caecum,carcinoma,+2,3	INPP4A	205	3	NM_001134224	exon19	c.C1914G	p.T638T	TCTCACCGACTGC	.	PASS	Atlas-SNP
LRRC16B	90668	hgsc.bcm.edu	37	14	24534270	24534270	+	Missense_Mutation	SNP	C	C	T	rs117833529	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	19	21	0	0.463415	0	C|0.976;T|0.024	0.024	strong	.	LRRC16B	120	.	NM_138360	exon33	c.C3184T	p.R1062W	CGGCCCCGGAGCT	.	PASS	Atlas-SNP
MYO1H	283446	hgsc.bcm.edu	37	12	109853349	109853349	+	Silent	SNP	A	A	G	rs73194218	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	30	74	0	0.491803	0	A|0.958;G|0.042	0.042	strong	.	MYO1H	98	.	NM_001101421	exon14	c.A1473G	p.P491P	TGGTCCAAAGGGC	.	PASS	Atlas-SNP
ANKRD2	26287	hgsc.bcm.edu	37	10	99332488	99332488	+	Silent	SNP	A	A	C	rs12221474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	86	134	0	0.534162	0	A|0.721;C|0.279	0.279	strong	.	ANKRD2	27	.	NM_001129981	exon1	c.A24C	p.A8A	CTGGGCAGGGGTG	.	PASS	Atlas-SNP
SELP	6403	hgsc.bcm.edu	37	1	169566313	169566313	+	Missense_Mutation	SNP	C	C	T	rs6127	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	175	119	0	0.994318	0	C|0.306;T|0.694	0.694	strong	.	SELP	132	.	NM_003005	exon11	c.G1807A	p.D603N	CGTTGTCACAAGA	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77909014	77909014	+	Missense_Mutation	SNP	G	G	A	rs2510044	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	35	72	0	0.411765	0	G|0.802;A|0.198	0.198	strong	.	USP35	179	.	NM_020798	exon3	c.G706A	p.V236M	GCCAGCGTGGTCC	.	PASS	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	37	11	6648424	6648424	+	Missense_Mutation	SNP	G	G	A	rs4758443	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	55	104	0	0.5	0	G|0.687;A|0.313	0.313	strong	DCHS1,colon,carcinoma,0,1	DCHS1	277	1	NM_003737	exon14	c.C5846T	p.T1949M	CGCACCGTGATGG	.	PASS	Atlas-SNP
YWHAB	7529	hgsc.bcm.edu	37	20	43530234	43530234	+	Silent	SNP	A	A	C	rs4931	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	47	110	0	0.401709	0	A|0.659;C|0.340;G|0.000;T|0.000	0.340	strong	.	YWHAB	24	.	NM_003404	exon3	c.A60C	p.R20R	TGAGCGATATGAT	.	PASS	Atlas-SNP
TNIP1	10318	hgsc.bcm.edu	37	5	150425467	150425467	+	Silent	SNP	G	G	A	rs2233299	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	12	54	0	0.387097	0	G|0.803;A|0.197	0.197	strong	.	TNIP1	51	.	NM_001252385	exon9	c.C891T	p.G297G	GGCTGCGCCCAAG	.	PASS	Atlas-SNP
SLC25A46	91137	hgsc.bcm.edu	37	5	110074967	110074967	+	Silent	SNP	C	C	T	rs145421520	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	54	121	0	0.509434	0	C|0.982;T|0.018	0.018	strong	.	SLC25A46	33	.	NM_138773	exon1	c.C147T	p.I49I	AGATATCCCCGGC	.	PASS	Atlas-SNP
FBLN5	10516	hgsc.bcm.edu	37	14	92347680	92347680	+	Silent	SNP	A	A	G	rs2430347	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	107	141	0	0.990741	0	A|0.229;G|0.771	0.771	strong	.	FBLN5	60	.	NM_006329	exon9	c.T945C	p.I315I	GGGGTCAATGCAT	.	PASS	Atlas-SNP
APOBEC3B	9582	hgsc.bcm.edu	37	22	39387558	39387558	+	Silent	SNP	C	C	T	rs57217289	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	69	73	0	0.676471	0	C|0.333;T|0.667	0.667	strong	.	APOBEC3B	32	.	NM_004900	exon6	c.C945T	p.Y315Y	TGATTACGACCCC	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1988167	1988167	+	Silent	SNP	T	T	C	rs7966806	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	17	31	0	0.586207	0	T|0.874;C|0.126	0.126	strong	CACNA2D4_ENST00000382722,NS,carcinoma,0,1	CACNA2D4	220	1	NM_172364	exon15	c.A1599G	p.S533S	CACATCTGAGCCC	.	PASS	Atlas-SNP
TMEM156	80008	hgsc.bcm.edu	37	4	38987965	38987965	+	Missense_Mutation	SNP	C	C	T	rs75988651	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	32	72	0	0.432432	0	C|0.965;T|0.035	0.035	strong	.	TMEM156	31	.	NM_024943	exon5	c.G814A	p.V272I	AAAGAACCTGCAC	.	PASS	Atlas-SNP
XRCC1	7515	hgsc.bcm.edu	37	19	44057227	44057227	+	Silent	SNP	T	T	C	rs915927	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	11	46	0	0.44	0	T|0.645;G|0.000;C|0.355;A|0.000	0.355	strong	.	XRCC1	47	.	NM_006297	exon7	c.A618G	p.P206P	TCCTGCTGGGTCG	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232596728	232596728	+	Silent	SNP	G	G	A	rs74807360	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	44	99	0	0.483516	0	G|0.947;A|0.053	0.053	strong	.	SIPA1L2	218	.	NM_020808	exon8	c.C3000T	p.A1000A	CAGAGTGGCCACG	.	PASS	Atlas-SNP
RNF19A	25897	hgsc.bcm.edu	37	8	101299859	101299859	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	2	88	0	0.0144928	0	.	.	none	RNF19A,NS,carcinoma,+2,1	RNF19A	67	1	NM_015435	exon3	c.C544T	p.R182W	TAAACCGTTCAGT	.	scavenged	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	37	6	79657391	79657391	+	Silent	SNP	G	G	A	rs1984195	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	40	107	0	0.425532	0	G|0.542;A|0.458	0.458	strong	.	PHIP	177	.	NM_017934	exon36	c.C4155T	p.V1385V	AAGTCTGACATCT	.	PASS	Atlas-SNP
EFCAB11	90141	hgsc.bcm.edu	37	14	90398907	90398907	+	Silent	SNP	G	G	A	rs8778	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	21	79	0	0.323077	0	G|0.806;A|0.194	0.194	strong	.	EFCAB11	12	.	NM_145231	exon4	c.C282T	p.N94N	TACTTCGTTCCGA	.	PASS	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	37	4	8594616	8594616	+	Missense_Mutation	SNP	G	G	C	rs79736750	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	11	15	0	0.366667	0	G|0.910;C|0.090	0.090	strong	.	CPZ	95	.	NM_003652	exon1	c.G56C	p.R19P	CTGCCCGGCCGGG	.	PASS	Atlas-SNP
CEP128	145508	hgsc.bcm.edu	37	14	81244337	81244337	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	2	102	0	0.0181818	0	.	.	none	CEP128,NS,carcinoma,-2,1	CEP128	146	1	NM_152446	exon15	c.G2265A	p.E755E	CAACTTCTCCAGC	.	scavenged	Atlas-SNP
PDIA2	64714	hgsc.bcm.edu	37	16	336660	336660	+	Silent	SNP	G	G	A	rs11647490	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	61	75	0	0.968254	0	G|0.400;A|0.600	0.600	strong	PDIA2,NS,carcinoma,0,1	PDIA2	51	1	NM_006849	exon9	c.G1347A	p.T449T	TGCCACGGCCAAC	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52509063	52509063	+	Missense_Mutation	SNP	G	G	A	rs17831525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	27	64	0	0.586957	0	G|0.978;A|0.022	0.022	strong	.	NID2	201	.	NM_007361	exon7	c.C1585T	p.P529S	GGTGAGGTGCCCC	.	PASS	Atlas-SNP
TBK1	29110	hgsc.bcm.edu	37	12	64875787	64875787	+	Silent	SNP	T	T	A	rs7486100	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	44	50	0	0.977778	0	T|0.570;A|0.430	0.430	strong	.	TBK1	149	.	NM_013254	exon8	c.T978A	p.I326I	TTATATTCATAGC	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13364876	13364876	+	Silent	SNP	G	G	T	rs514084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	75	53	0	0.986842	0	G|0.517;T|0.483	0.483	strong	.	NUP210	182	.	NM_024923	exon34	c.C4701A	p.T1567T	GAAGCTGGTCTGG	.	PASS	Atlas-SNP
TOPORS	10210	hgsc.bcm.edu	37	9	32542793	32542793	+	Missense_Mutation	SNP	G	G	T	rs79708790	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	77	137	0	0.458333	0	G|0.998;T|0.002	0.002	strong	.	TOPORS	127	.	NM_005802	exon3	c.C1730A	p.S577Y	CTTACAGATGAGT	.	PASS	Atlas-SNP
KIR2DL1	3802	hgsc.bcm.edu	37	19	55281315	55281315	+	Missense_Mutation	SNP	G	G	T	rs2304224	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	51	72	0	0.980769	0	G|0.886;T|0.114	0.114	strong	KIR2DL1,NS,carcinoma,0,1	KIR2DL1	46	1	NM_014218	exon1	c.G13T	p.V5F	CTCTTGGTCGTCA	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126336703	126336703	+	Silent	SNP	T	T	C	rs17009618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	52	105	0	0.45614	0	T|0.848;C|0.152	0.152	strong	FAT4_ENST00000394329,colon,carcinoma,0,2	FAT4	1752	2	NM_024582	exon5	c.T6585C	p.N2195N	TGTTAATGGTAAT	.	PASS	Atlas-SNP
SART1	9092	hgsc.bcm.edu	37	11	65733393	65733393	+	Silent	SNP	C	C	T	rs688862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	44	70	0	0.556962	0	C|0.595;T|0.405	0.405	strong	SART1,NS,carcinoma,0,1	SART1	41	1	NM_005146	exon7	c.C774T	p.T258T	CCTCACCGTGGAG	.	PASS	Atlas-SNP
TPTE2	93492	hgsc.bcm.edu	37	13	20006620	20006620	+	Silent	SNP	C	C	T	rs76525011		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	37	119	1	0.226994	0.00840336	.	.	weak	TPTE2_ENST00000400230,NS,carcinoma,0,6	TPTE2	225	6	NM_199254	exon17	c.G1215A	p.S405S	ACGAATCGAATAA	.	scavenged	Atlas-SNP
IL1RL2	8808	hgsc.bcm.edu	37	2	102842467	102842467	+	Silent	SNP	T	T	C	rs2302620	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	41	101	0	0.450549	0	T|0.845;C|0.155	0.155	strong	.	IL1RL2	118	.	NM_003854	exon9	c.T1101C	p.Y367Y	TTGGTATCGAAGT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093452	1093452	+	Silent	SNP	G	G	A	rs34136803	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	19	49	6	0.358491	0.122449	A|1.000;|0.000	1.000	weak	MUC2_ENST00000441003,NS,carcinoma,0,2	MUC2	614	2	NM_002457	exon30	c.G5271A	p.P1757P	AACCCCGACACCC	.	scavenged	Atlas-SNP
ZNF264	9422	hgsc.bcm.edu	37	19	57723013	57723013	+	Missense_Mutation	SNP	G	G	A	rs917340	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	71	87	0	0.986111	0	G|0.358;A|0.642	0.642	strong	.	ZNF264	65	.	NM_003417	exon4	c.G548A	p.R183H	GAGTCCGTAGCCA	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497962	32497962	+	Missense_Mutation	SNP	T	T	C	rs701884	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	83	113	12	0.988095	0.106195	G|0.542;C|0.051;A|0.407	0.051	strong	HLA-DRB5,colon,carcinoma,0,2	HLA-DRB5	31	2	NM_002125	exon1	c.A40G	p.K14E	TCAGCTTTGCCAT	.	scavenged	Atlas-SNP
GREB1	9687	hgsc.bcm.edu	37	2	11750985	11750985	+	Silent	SNP	C	C	T	rs374277928		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	46	60	0	0.582278	0	.	.	weak	.	GREB1	308	.	NM_014668	exon18	c.C2838T	p.H946H	CGGCCACGGGCTC	.	PASS	Atlas-SNP
C6orf1	221491	hgsc.bcm.edu	37	6	34214525	34214525	+	Silent	SNP	G	G	A	rs141610597	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	39	74	0	0.573529	0	G|0.996;A|0.004	0.004	strong	.	C6orf1	6	.	NM_001008704	exon5	c.C246T	p.P82P	ATGGCAGGGCCCC	.	PASS	Atlas-SNP
ABCC8	6833	hgsc.bcm.edu	37	11	17452492	17452492	+	Silent	SNP	G	G	A	rs1799857	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	20	39	0	0.512821	0	G|0.566;A|0.434	0.434	strong	.	ABCC8	170	.	NM_000352	exon12	c.C1686T	p.H562H	GCTGACGTGGCCC	.	PASS	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	37	5	115298977	115298977	+	Silent	SNP	C	C	T	rs1445708	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	40	56	0	0.597015	0	C|0.644;T|0.356	0.356	strong	FLJ90650,NS,carcinoma,0,1	.	.	1	NM_173800	exon1	c.C663T	p.F221F	ACTCTTCCTCAAC	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44143153	44143153	+	Missense_Mutation	SNP	C	C	T	rs36086089	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	45	67	0	1	0	C|0.919;T|0.081	0.081	strong	.	LOXHD1	367	.	NM_144612	exon18	c.G2473A	p.V825M	CACCCACATCTCC	.	PASS	Atlas-SNP
DENND2A	27147	hgsc.bcm.edu	37	7	140244560	140244560	+	Missense_Mutation	SNP	C	C	T	rs2293177	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	20	52	0	0.425532	0	C|0.758;T|0.242	0.242	strong	.	DENND2A	132	.	NM_015689	exon12	c.G2185A	p.E729K	ACAGTTCGATCAC	.	PASS	Atlas-SNP
SLC14A2	8170	hgsc.bcm.edu	37	18	43204739	43204739	+	Missense_Mutation	SNP	C	C	T	rs34461862	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	46	57	0	0.560976	0	C|0.973;T|0.027	0.027	strong	.	SLC14A2	121	.	NM_001242692	exon3	c.C110T	p.T37I	CGGATACTCACCC	.	PASS	Atlas-SNP
SFXN5	94097	hgsc.bcm.edu	37	2	73226090	73226090	+	Silent	SNP	G	G	A	rs12233055	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	35	50	0	0.472973	0	G|0.682;A|0.318	0.318	strong	SFXN5,NS,carcinoma,-2,1	SFXN5	31	1	NM_144579	exon9	c.C522T	p.A174A	GGAGACGGCGCTG	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84792371	84792371	+	Silent	SNP	C	C	G	rs71386866	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	62	106	0	0.492063	0	C|0.964;G|0.036	0.036	strong	.	USP10	51	.	NM_001272075	exon6	c.C1254G	p.P418P	GCAACCCCGTGGG	.	PASS	Atlas-SNP
HIPK2	28996	hgsc.bcm.edu	37	7	139415943	139415943	+	Silent	SNP	G	G	A	rs4074826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	195	98	196	0	0.502564	0	G|0.847;A|0.153	0.153	strong	.	HIPK2	192	.	NM_022740	exon2	c.C891T	p.P297P	TTTGAGGGGCAAG	.	PASS	Atlas-SNP
GZF1	64412	hgsc.bcm.edu	37	20	23350790	23350790	+	Silent	SNP	C	C	T	rs10485644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	84	154	0	0.48	0	C|0.893;T|0.107	0.107	strong	.	GZF1	61	.	NM_022482	exon5	c.C1848T	p.N616N	CAAGAACGATGAC	.	PASS	Atlas-SNP
HOXD12	3238	hgsc.bcm.edu	37	2	176965086	176965086	+	Missense_Mutation	SNP	G	G	A	rs35817516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	88	167	0	0.488889	0	G|0.928;A|0.072	0.072	strong	.	HOXD12	25	.	NM_021193	exon1	c.G557A	p.R186Q	GCCTGCGACCTTC	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48164777	48164777	+	Silent	SNP	T	T	C	rs12149826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	38	68	0	0.520548	0	T|0.827;C|0.173	0.173	strong	.	ABCC12	190	.	NM_033226	exon8	c.A1158G	p.V386V	CTTCATTACATTA	.	PASS	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	37	4	47578971	47578971	+	Missense_Mutation	SNP	G	G	A	rs16851681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	210	225	0	0.995261	0	G|0.728;A|0.272	0.272	strong	.	ATP10D	168	.	NM_020453	exon19	c.G3548A	p.R1183K	TTTACAGAAGTGG	.	PASS	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162902516	162902516	+	Missense_Mutation	SNP	T	T	C	rs299290	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	46	75	0	0.474227	0	C|0.290;N|0.000	0.290	strong	HMMR,NS,carcinoma,0,1	HMMR	64	1	NM_001142556	exon11	c.T1106C	p.V369A	AAATGGTTAAAGA	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22847072	22847072	+	Missense_Mutation	SNP	G	G	C	rs71236900	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	67	234	0	0.340102	0	G|0.500;C|0.500	0.500	strong	ZNF492_ENST00000456783,NS,carcinoma,0,1	ZNF492	129	1	NM_020855	exon4	c.G601C	p.E201Q	TGCGAAGAGTGTG	.	scavenged	Atlas-SNP
TRIM49	57093	hgsc.bcm.edu	37	11	89531540	89531540	+	Missense_Mutation	SNP	C	C	T	rs12417980	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	289	84	162	2	0.290657	0.0123457	C|0.707;T|0.293	0.293	strong	TRIM49,NS,carcinoma,0,1	TRIM49	45	1	NM_020358	exon8	c.G1117A	p.G373R	CCTTTCCATCTAT	.	scavenged	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49208267	49208267	+	Missense_Mutation	SNP	G	G	A	rs75940285	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	336	60	273	0	0.178571	0	G|0.877;A|0.123	0.123	strong	FOLH1,NS,carcinoma,+1,2	FOLH1	141	2	NM_004476	exon5	c.C568T	p.R190W	TGTCCCGTTCCAA	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3977532	3977532	+	Silent	SNP	G	G	A	rs34760976	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	20	35	0	0.4	0	G|0.893;A|0.107	0.107	strong	.	ZZEF1	195	.	NM_015113	exon24	c.C3597T	p.A1199A	AGACACGGCAACA	.	PASS	Atlas-SNP
ERBB2IP	55914	hgsc.bcm.edu	37	5	65350374	65350374	+	Silent	SNP	A	A	G	rs36303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	39	101	0	0.40625	0	A|0.830;G|0.170	0.170	strong	.	ERBB2IP	120	.	NM_001253699	exon21	c.A3228G	p.R1076R	CCAGCGACAAAGT	.	PASS	Atlas-SNP
CCDC154	645811	hgsc.bcm.edu	37	16	1484455	1484455	+	Missense_Mutation	SNP	T	T	C	rs61743495	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	36	97	0	0.45	0	T|0.943;C|0.057	0.057	strong	.	CCDC154	27	.	NM_001143980	exon17	c.A1958G	p.Q653R	TGCTCCTGGCTGT	.	PASS	Atlas-SNP
ITGAE	3682	hgsc.bcm.edu	37	17	3635740	3635740	+	Missense_Mutation	SNP	C	C	G	rs3744679	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	57	121	0	0.558824	0	C|0.920;G|0.080	0.080	strong	ITGAE,NS,carcinoma,0,1	ITGAE	96	1	NM_002208	exon22	c.G2676C	p.Q892H	ATCACACTGAATG	.	PASS	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5841701	5841701	+	Missense_Mutation	SNP	G	G	A	rs73394370	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	81	155	0	0.5	0	G|0.939;A|0.061	0.061	strong	.	OR52N2	58	.	NM_001005174	exon1	c.G136A	p.G46R	AACTGTGGGCTCA	.	PASS	Atlas-SNP
FOXN1	8456	hgsc.bcm.edu	37	17	26857788	26857788	+	Silent	SNP	T	T	C	rs12449554	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	54	128	0	0.442623	0	T|0.896;C|0.104	0.104	strong	FOXN1,NS,carcinoma,0,1	FOXN1	51	1	NM_003593	exon5	c.T852C	p.L284L	GGCCCTTAAGAAC	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43484310	43484310	+	Silent	SNP	T	T	C	rs73098706	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	117	87	0	0.991525	0	T|0.710;C|0.290	0.290	strong	.	HECW1	540	.	NM_015052	exon11	c.T1539C	p.S513S	TGTGTCTACCCTG	.	PASS	Atlas-SNP
GPR125	166647	hgsc.bcm.edu	37	4	22390167	22390167	+	Missense_Mutation	SNP	C	C	T	rs9002	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	54	85	0	0.469565	0	C|0.755;T|0.245	0.245	strong	GPR125,NS,carcinoma,0,1	GPR125	118	1	NM_145290	exon19	c.G3127A	p.V1043M	GGACCACGAAGAA	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32610495	32610495	+	Missense_Mutation	SNP	A	A	G	rs9272793	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	109	323	0	0.990909	0	A|0.444;G|0.556	0.556	strong	.	HLA-DQA1	52	.	NM_002122	exon4	c.A722G	p.Q241R	TCATCCAAGGCCT	.	PASS	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	37	11	65351074	65351074	+	Silent	SNP	G	G	A	rs10896018	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	41	70	0	0.431579	0	G|0.705;A|0.295	0.295	strong	.	EHBP1L1	64	.	NM_001099409	exon9	c.G2931A	p.A977A	GGAAGCGGAGGCT	.	PASS	Atlas-SNP
SLC26A8	116369	hgsc.bcm.edu	37	6	35967772	35967772	+	Missense_Mutation	SNP	T	T	C	rs17713154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	28	35	0	0.595745	0	T|0.887;C|0.113	0.113	strong	SLC26A8,colon,carcinoma,+2,1	SLC26A8	95	1	NM_052961	exon4	c.A442G	p.I148V	CACCAATGGACAT	.	PASS	Atlas-SNP
HAND1	9421	hgsc.bcm.edu	37	5	153857101	153857101	+	Silent	SNP	A	A	C	rs34402828	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	80	119	0	0.57971	0	A|0.958;C|0.042	0.042	strong	.	HAND1	21	.	NM_004821	exon1	c.T468G	p.S156S	ATCGCCAGACTGT	.	PASS	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	37	13	76409436	76409436	+	Silent	SNP	A	A	G	rs2273997	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	92	94	0	1	0	G|0.263;N|0.000	0.263	strong	LMO7_ENST00000465261,NS,carcinoma,0,3	LMO7	334	3	NM_015842	exon15	c.A2595G	p.L865L	AAATCTATCTGTA	.	PASS	Atlas-SNP
MCM3AP	8888	hgsc.bcm.edu	37	21	47664746	47664746	+	Silent	SNP	C	C	A	rs17183255	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	20	46	0	0.37037	0	C|0.997;T|0.003	.	alt	.	MCM3AP	146	.	NM_003906	exon23	c.G5013T	p.P1671P	CATCTGCGGAAGC	.	PASS	Atlas-SNP
CDH15	1013	hgsc.bcm.edu	37	16	89256695	89256695	+	Silent	SNP	G	G	A	rs72819366	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	46	114	0	0.38983	0	G|0.840;A|0.160	0.160	strong	.	CDH15	54	.	NM_004933	exon8	c.G1023A	p.S341S	AGTGTCGGTGCAG	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42872719	42872719	+	Silent	SNP	A	A	G	rs2273952	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	59	94	0	0.59596	0	A|0.882;G|0.118	0.118	strong	.	AKAP11	146	.	NM_016248	exon7	c.A402G	p.P134P	ATCACCAAGACTT	.	PASS	Atlas-SNP
ZSCAN1	284312	hgsc.bcm.edu	37	19	58565233	58565233	+	Silent	SNP	G	G	A	rs73071865	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	33	99	0	0.445946	0	G|0.963;A|0.037	0.037	strong	.	ZSCAN1	102	.	NM_182572	exon6	c.G1041A	p.P347P	GCCACCGAGGAAG	.	PASS	Atlas-SNP
VNN1	8876	hgsc.bcm.edu	37	6	133013544	133013544	+	Missense_Mutation	SNP	T	T	C	rs45562238	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	30	77	0	0.410959	0	T|0.976;C|0.024	0.024	strong	.	VNN1	69	.	NM_004666	exon5	c.A1006G	p.T336A	AGACAGTGCCTTT	.	PASS	Atlas-SNP
UBQLN1	29979	hgsc.bcm.edu	37	9	86278817	86278817	+	Silent	SNP	C	C	A	rs7866234	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	51	100	0	0.463636	0	C|0.700;A|0.300	0.300	strong	.	UBQLN1	49	.	NM_013438	exon10	c.G1590T	p.L530L	AGCCTGCAGCATC	.	PASS	Atlas-SNP
MYLK4	340156	hgsc.bcm.edu	37	6	2749381	2749381	+	Missense_Mutation	SNP	C	C	T	rs2296356	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	46	123	0	0.45098	0	C|0.865;T|0.135	0.135	strong	.	MYLK4	74	.	NM_001012418	exon2	c.G148A	p.G50R	TATGTCCAGATCT	.	PASS	Atlas-SNP
LIG4	3981	hgsc.bcm.edu	37	13	108863609	108863609	+	Missense_Mutation	SNP	G	G	A	rs1805389	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	38	64	0	0.550725	0	G|0.955;A|0.045	0.045	strong	.	LIG4	91	.	NM_206937	exon3	c.C8T	p.A3V	TGTGAGGCAGCCA	.	PASS	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	37	10	108339209	108339209	+	Missense_Mutation	SNP	T	T	C	rs187136160	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	16	62	0	0.484848	0	T|0.999;C|0.001	0.001	strong	SORCS1_ENST00000344440,NS,carcinoma,+2,4	SORCS1	534	4	NM_001206572	exon25	c.A3289G	p.T1097A	TGTGGGTTGGAGT	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21225281	21225281	+	Missense_Mutation	SNP	C	C	T	rs1042034	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	93	83	0	1	0	C|0.265;T|0.735	0.735	strong	.	APOB	761	.	NM_000384	exon29	c.G13013A	p.S4338N	TAATCACTGAAGA	.	PASS	Atlas-SNP
TRMT2A	27037	hgsc.bcm.edu	37	22	20103264	20103264	+	Silent	SNP	C	C	T	rs9605068	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	203	98	191	0	0.482759	0	C|0.978;T|0.022	0.022	strong	.	TRMT2A	34	.	NM_001257994	exon3	c.G639A	p.L213L	CTCGAGCAGCCAG	.	PASS	Atlas-SNP
DBR1	51163	hgsc.bcm.edu	37	3	137881265	137881265	+	Silent	SNP	T	T	A	rs3732839	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	246	246	201	0	1	0	T|0.292;A|0.708	0.708	strong	.	DBR1	45	.	NM_016216	exon8	c.A1101T	p.T367T	TTCAGTTGTCTGA	.	PASS	Atlas-SNP
MROH9	80133	hgsc.bcm.edu	37	1	170927615	170927615	+	Missense_Mutation	SNP	A	A	G	rs17563089	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	238	135	172	0	0.567227	0	A|0.938;G|0.062	0.062	strong	.	.	.	.	NM_025063	exon4	c.A86G	p.N29S	AAGTTAACAGCCT	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29416366	29416366	+	Missense_Mutation	SNP	G	G	C	rs1881421	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	269	127	271	1	0.472119	0.00369004	G|0.518;C|0.482	0.482	strong	.	ALK	533	.	NM_004304	exon29	c.C4587G	p.D1529E	ACCCCTGTCGTGT	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	37	19	14000170	14000170	+	Missense_Mutation	SNP	T	T	C	rs3803892	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	85	82	0	0.988372	0	T|0.637;C|0.362	0.362	strong	.	C19orf57	34	.	NM_024323	exon6	c.A1499G	p.Q500R	ATGCCCTGCTGAG	.	PASS	Atlas-SNP
METTL3	56339	hgsc.bcm.edu	37	14	21967916	21967916	+	Silent	SNP	A	A	G	rs1139130	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	59	118	0	0.517544	0	A|0.488;G|0.512	0.512	strong	.	METTL3	48	.	NM_019852	exon7	c.T1335C	p.N445N	CCAGAGATTTAGA	.	PASS	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602275	5602275	+	Missense_Mutation	SNP	A	A	G	rs1077126	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	162	163	0	0.981818	0	A|0.482;G|0.518	0.518	strong	.	OR52B6	37	.	NM_001005162	exon1	c.A169G	p.T57A	TACATCACTGCCC	.	PASS	Atlas-SNP
TTC16	158248	hgsc.bcm.edu	37	9	130489743	130489743	+	Missense_Mutation	SNP	A	A	G	rs13298768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	11	31	0	0.458333	0	A|0.638;G|0.362	0.362	strong	.	TTC16	55	.	NM_144965	exon12	c.A1763G	p.E588G	AAAAAGAGGTAAG	.	PASS	Atlas-SNP
UBASH3A	53347	hgsc.bcm.edu	37	21	43854985	43854985	+	Silent	SNP	A	A	C	rs17114925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	32	40	0	0.571429	0	A|0.750;C|0.250	0.250	strong	.	UBASH3A	72	.	NM_018961	exon10	c.A1314C	p.P438P	TCTGCCAAGACGG	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133542574	133542574	+	Missense_Mutation	SNP	C	C	T	rs61995744	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	37	84	0	0.474359	0	C|0.793;T|0.207	0.207	strong	.	NCKAP5	322	.	NM_207363	exon14	c.G1810A	p.V604M	ATGACACGTCTGA	.	PASS	Atlas-SNP
PLIN1	5346	hgsc.bcm.edu	37	15	90210257	90210257	+	Silent	SNP	G	G	A	rs2304796	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	56	143	0	0.434109	0	G|0.730;A|0.270	0.270	strong	.	PLIN1	36	.	NM_001145311	exon8	c.C1119T	p.V373V	TGAGGAGACAGCA	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59774037	59774037	+	Silent	SNP	C	C	T	rs9319997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	121	114	1	1	0.00877193	C|0.912;T|0.088	0.088	strong	.	PIGN	62	.	NM_176787	exon19	c.G1752A	p.L584L	AGTCCACAGCCGA	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957097	111957097	+	Missense_Mutation	SNP	C	C	G	rs7825	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	24	65	0	0.413793	0	C|0.415;G|0.585	0.585	strong	.	OVGP1	177	.	NM_002557	exon11	c.G2026C	p.E676Q	CTTCTTCATCCAC	.	PASS	Atlas-SNP
TTC5	91875	hgsc.bcm.edu	37	14	20757804	20757804	+	Silent	SNP	C	C	A	rs3737220	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	29	65	0	0.47541	0	C|0.873;A|0.127	0.127	strong	TTC5,NS,carcinoma,-1,3	TTC5	34	3	NM_138376	exon10	c.G1305T	p.S435S	TGGTCGCGATGCC	.	PASS	Atlas-SNP
CCDC39	339829	hgsc.bcm.edu	37	3	180334623	180334623	+	Silent	SNP	C	C	T	rs7612917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	51	69	0	0.593023	0	C|0.838;T|0.162	0.162	strong	CCDC39_ENST00000442201,NS,carcinoma,-2,1	CCDC39	242	1	NM_181426	exon17	c.G2397A	p.V799V	TTTGGTCACTCTT	.	PASS	Atlas-SNP
ZNF471	57573	hgsc.bcm.edu	37	19	57036678	57036678	+	Silent	SNP	G	G	A	rs3752177	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	24	53	0	0.380952	0	A|0.209;G|0.791	0.209	strong	.	ZNF471	99	.	NM_020813	exon5	c.G1242A	p.S414S	CAGCTCGGGTTCA	.	PASS	Atlas-SNP
AKAP3	10566	hgsc.bcm.edu	37	12	4737042	4737042	+	Silent	SNP	G	G	A	rs7972737	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	129	129	0	1	0	G|0.653;A|0.347	0.347	strong	AKAP3_ENST00000545990,colon,carcinoma,0,2	AKAP3	212	2	NM_006422	exon4	c.C1026T	p.H342H	GACGCTGTGGAGA	.	PASS	Atlas-SNP
SSX1	6756	hgsc.bcm.edu	37	X	48125798	48125798	+	Silent	SNP	T	T	C	rs75496160		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	309	309	316	0	1	0	.	.	weak	.	SSX1	27	.	NM_005635	exon7	c.T543C	p.S181S	GATCAGTGACCCT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152278856	152278856	+	Missense_Mutation	SNP	T	T	G	rs11582087	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	505	118	310	0	0.233663	0	T|0.892;G|0.108	0.108	strong	.	FLG	900	.	NM_002016	exon3	c.A8506C	p.S2836R	TTGCACTTCTGGA	.	PASS	Atlas-SNP
TNNT3	7140	hgsc.bcm.edu	37	11	1959707	1959707	+	Silent	SNP	C	C	T	rs4727	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	76	138	0	0.487179	0	C|0.866;T|0.134	0.134	strong	TNNT3_ENST00000381589,NS,carcinoma,+2,2	TNNT3	68	2	NM_006757	exon16	c.C762T	p.G254G	AGTCGGCGGGCGC	.	PASS	Atlas-SNP
DMPK	1760	hgsc.bcm.edu	37	19	46275976	46275976	+	Missense_Mutation	SNP	G	G	C	rs527221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	38	53	0	0.730769	0	G|0.900;C|0.100	0.100	strong	DMPK_ENST00000343373,NS,carcinoma,0,2	DMPK	74	2	NM_001081563	exon9	c.C1297G	p.L433V	CCTCCAGTTCCAT	.	PASS	Atlas-SNP
ZFPM1	161882	hgsc.bcm.edu	37	16	88552370	88552370	+	Missense_Mutation	SNP	A	A	G	rs3751673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	63	65	0	1	0	A|0.492;G|0.508	0.508	strong	.	ZFPM1	32	.	NM_153813	exon2	c.A64G	p.R22G	GAGGCCAGAGAGG	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	842450	842450	+	Silent	SNP	C	C	T	rs2277897	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	30	48	0	0.461538	0	C|0.852;T|0.148	0.148	strong	.	CHTF18	52	.	NM_022092	exon11	c.C1338T	p.N446N	CATCAACGTCCTC	.	PASS	Atlas-SNP
TRIM39-RPP21	202658	hgsc.bcm.edu	37	6	30313268	30313268	+	Silent	SNP	G	G	A	rs11967	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	21	46	0	0.583333	0	G|0.836;C|0.000;A|0.164	0.164	strong	.	.	.	.	NM_001199119	exon8	c.G1206A	p.R402R	CCCCAGGGATCCC	.	PASS	Atlas-SNP
NCAPH	23397	hgsc.bcm.edu	37	2	97020049	97020049	+	Silent	SNP	T	T	C	rs3731935	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	27	48	0	0.435484	0	T|0.781;C|0.219	0.219	strong	NCAPH,NS,carcinoma,+2,2	NCAPH	67	2	NM_015341	exon9	c.T1131C	p.D377D	CAACGATGAACCT	.	PASS	Atlas-SNP
KRT19	3880	hgsc.bcm.edu	37	17	39681475	39681475	+	Silent	SNP	A	A	G	rs4601	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	44	78	0	0.54321	0	A|0.357;G|0.643	0.643	strong	.	KRT19	41	.	NM_002276	exon2	c.T471C	p.N157N	ACGGGCATTGTCG	.	PASS	Atlas-SNP
DMD	1756	hgsc.bcm.edu	37	X	32503194	32503194	+	Missense_Mutation	SNP	T	T	C	rs228406	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	54	64	0	1	0	0|0.010;C|0.678	0.678	strong	.	DMD	2127	.	NM_004006	exon21	c.A2645G	p.D882G	TGAAGATCTGATA	.	PASS	Atlas-SNP
EHD2	30846	hgsc.bcm.edu	37	19	48244569	48244569	+	Silent	SNP	G	G	A	rs3745758	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	51	40	0	1	0	G|0.559;A|0.441	0.441	strong	.	EHD2	59	.	NM_014601	exon6	c.G1512A	p.E504E	TGATGAGGAGTTC	.	PASS	Atlas-SNP
TRIP6	7205	hgsc.bcm.edu	37	7	100466441	100466441	+	Missense_Mutation	SNP	G	G	A	rs2075756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	48	128	0	0.470588	0	G|0.746;A|0.254	0.254	strong	.	TRIP6	45	.	NM_003302	exon4	c.G688A	p.V230I	GCTGGGGTCTCTG	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364476	5364476	+	Silent	SNP	C	C	T	rs61738485	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	9	32	0	0.36	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
ACSF2	80221	hgsc.bcm.edu	37	17	48549791	48549791	+	Silent	SNP	C	C	G	rs2305998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	24	46	0	0.40678	0	C|0.772;G|0.228	0.228	strong	.	ACSF2	46	.	NM_025149	exon12	c.C1326G	p.A442A	CCAGGCCCGGATC	.	PASS	Atlas-SNP
FARP1	10160	hgsc.bcm.edu	37	13	99064244	99064244	+	Silent	SNP	T	T	C	rs11556829	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	39	104	0	0.382353	0	T|0.949;C|0.051	0.051	strong	.	FARP1	207	.	NM_005766	exon16	c.T1782C	p.F594F	CAAATTTCATACT	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497943	32497943	+	Missense_Mutation	SNP	A	A	G	rs17211043	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	67	150	0	0.558333	0	A|0.707;G|0.293	0.293	strong	.	HLA-DRB5	31	.	NM_002125	exon1	c.T59C	p.M20T	AGCACCATCAGTG	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49967981	49967981	+	Silent	SNP	T	T	G	rs11558188	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	35	89	0	0.530303	0	T|0.692;G|0.308	0.308	strong	.	ALDH16A1	54	.	NM_153329	exon12	c.T1530G	p.V510V	CGCTGTTCCCTCA	.	PASS	Atlas-SNP
ZFP106	64397	hgsc.bcm.edu	37	15	42720288	42720288	+	Silent	SNP	G	G	C	rs11544099	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	31	40	0	0.534483	0	G|0.904;C|0.096	0.096	strong	ZFP106,NS,carcinoma,0,1	ZFP106	117	1	NM_022473	exon12	c.C4857G	p.L1619L	GAGGCAGAGGACC	.	PASS	Atlas-SNP
SLC1A5	6510	hgsc.bcm.edu	37	19	47280587	47280587	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	34	80	0	0.377778	0	.	.	none	.	SLC1A5	31	.	NM_005628	exon6	c.C1134T	p.I378I	GGGCAGGATGAAA	.	PASS	Atlas-SNP
FLRT1	23769	hgsc.bcm.edu	37	11	63884561	63884561	+	Silent	SNP	G	G	A	rs34856996	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	89	128	0	0.581699	0	G|0.964;A|0.036	0.036	strong	.	FLRT1	46	.	NM_013280	exon2	c.G822A	p.K274K	GCAGAAGCTCTAC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239585	31239585	+	Missense_Mutation	SNP	C	C	T	rs1050437	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	31	80	0	0.407895	0	C|0.826;T|0.174	0.174	strong	.	HLA-C	92	.	NM_002117	exon2	c.G134A	p.R45H	ATGAAGCGGGGCT	.	PASS	Atlas-SNP
EIF2B3	8891	hgsc.bcm.edu	37	1	45444038	45444038	+	Silent	SNP	G	G	A	rs11556200	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	44	121	0	0.411215	0	G|0.714;A|0.286	0.286	strong	.	EIF2B3	43	.	NM_020365	exon3	c.C243T	p.D81D	GTCAGCGTCATCA	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196922836	196922836	+	Missense_Mutation	SNP	T	T	A	rs72917299	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	47	110	0	0.5	0	T|0.991;A|0.009	0.009	strong	.	DNAH7	512	.	NM_018897	exon2	c.A20T	p.K7I	GCCGATTTATCCT	.	PASS	Atlas-SNP
XDH	7498	hgsc.bcm.edu	37	2	31560572	31560572	+	Missense_Mutation	SNP	G	G	A	rs45564939	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	218	112	238	1	0.513761	0.00420168	G|0.989;A|0.011	0.011	strong	.	XDH	191	.	NM_000379	exon35	c.C3886T	p.R1296W	CTAGCCGGAAGAG	.	PASS	Atlas-SNP
OR51A7	119687	hgsc.bcm.edu	37	11	4929061	4929061	+	Silent	SNP	C	C	G	rs10500627	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	52	115	0	0.477064	0	C|0.879;G|0.121	0.121	strong	OR51A7,colon,carcinoma,+2,2	OR51A7	86	2	NM_001004749	exon1	c.C462G	p.L154L	CATTCTCTTAGTG	.	PASS	Atlas-SNP
USP45	85015	hgsc.bcm.edu	37	6	99893938	99893938	+	Silent	SNP	T	T	C	rs4504482	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	12	38	0	0.48	0	T|0.693;C|0.307	0.307	strong	.	USP45	56	.	NM_001080481	exon14	c.A1710G	p.G570G	TTGATCTCCAGTT	.	PASS	Atlas-SNP
SPTLC3	55304	hgsc.bcm.edu	37	20	13053018	13053018	+	Missense_Mutation	SNP	T	T	G	rs243887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	40	79	0	0.45977	0	T|0.243;G|0.747	0.747	strong	.	SPTLC3	78	.	NM_018327	exon3	c.T418G	p.L140V	TTTGATTTGATGG	.	PASS	Atlas-SNP
CELA3A	10136	hgsc.bcm.edu	37	1	22336308	22336308	+	Silent	SNP	G	G	A	rs12908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	223	91	230	1	0.408072	0.00434783	G|0.745;A|0.255	0.255	strong	CELA3A,NS,carcinoma,+2,1	CELA3A	35	1	NM_005747	exon7	c.G753A	p.T251T	GCCCACGGTGTTC	.	scavenged	Atlas-SNP
HRSP12	10247	hgsc.bcm.edu	37	8	99115082	99115082	+	Silent	SNP	C	C	T	rs11537947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	26	96	0	0.472727	0	C|0.923;T|0.077	0.077	strong	.	HRSP12	13	.	NM_005836	exon6	c.G402A	p.T134T	TGATGCCGTTGTC	.	PASS	Atlas-SNP
MTMR4	9110	hgsc.bcm.edu	37	17	56584508	56584508	+	Missense_Mutation	SNP	T	T	C	rs2302190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	38	90	0	0.413043	0	T|0.709;C|0.291	0.291	strong	.	MTMR4	91	.	NM_004687	exon9	c.A838G	p.S280G	CCTCGCTGGTATC	.	PASS	Atlas-SNP
LPPR5	0	hgsc.bcm.edu	37	1	99418647	99418647	+	Silent	SNP	G	G	C	rs309087	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	51	103	0	0.525773	0	G|0.786;C|0.214	0.214	strong	.	.	.	.	NM_001037317	exon3	c.C600G	p.V200V	TGCATAGACACTG	.	PASS	Atlas-SNP
ZNF718	255403	hgsc.bcm.edu	37	4	59350	59350	+	Missense_Mutation	SNP	A	A	G	rs6834707	bycluster;byfrequency;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	17	159	0	0.10625	0	A|0.997;G|0.003	0.003	strong	.	.	.	.	NM_001039127	exon2	c.A31G	p.I11V	GTGGCCATAGAAT	.	PASS	Atlas-SNP
TMC8	147138	hgsc.bcm.edu	37	17	76130575	76130575	+	Missense_Mutation	SNP	A	A	T	rs7208422	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	36	77	0	0.5625	0	A|0.444;T|0.556	0.556	strong	TMC8,NS,carcinoma,-1,1	TMC8	44	1	NM_152468	exon8	c.A917T	p.N306I	TACTCAACGGGCT	.	PASS	Atlas-SNP
TRIM39-RPP21	202658	hgsc.bcm.edu	37	6	30313340	30313340	+	Missense_Mutation	SNP	G	G	C	rs6986	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	15	64	0	0.272727	0	G|0.754;C|0.246	0.246	strong	.	.	.	.	NM_001199119	exon8	c.G1278C	p.Q426H	CACCCAGCGCCAG	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31611758	31611758	+	Silent	SNP	G	G	T	rs67930674	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	57	128	0	0.333333	0	G|0.555;T|0.445	0.445	strong	.	CCDC129	127	.	NM_001257968	exon6	c.G429T	p.G143G	CAGAGGGACCAGT	.	PASS	Atlas-SNP
AKAP6	9472	hgsc.bcm.edu	37	14	33293122	33293122	+	Missense_Mutation	SNP	A	A	G	rs1051695	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	32	42	0	0.561404	0	A|0.327;G|0.673	0.673	strong	.	AKAP6	308	.	NM_004274	exon13	c.A6103G	p.N2035D	ATCAGCAACATTT	.	PASS	Atlas-SNP
CYP4F2	8529	hgsc.bcm.edu	37	19	16001215	16001215	+	Missense_Mutation	SNP	C	C	A	rs3093153	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	41	80	0	0.43617	0	C|0.957;A|0.043	0.043	strong	.	CYP4F2	97	.	NM_001082	exon6	c.G554T	p.G185V	GCACTACCCTCTG	.	PASS	Atlas-SNP
MAN2B1	4125	hgsc.bcm.edu	37	19	12772165	12772165	+	Missense_Mutation	SNP	G	G	A	rs1054487	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	144	157	0	1	0	T|0.000;G|0.602;A|0.398	0.398	strong	MAN2B1,NS,adenoma,0,1	MAN2B1	91	1	NM_001173498	exon7	c.C935T	p.T312I	ATCACAGTGTGGT	.	PASS	Atlas-SNP
DPYD	1806	hgsc.bcm.edu	37	1	98165091	98165091	+	Missense_Mutation	SNP	T	T	C	rs2297595	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	53	117	0	0.407692	0	T|0.934;C|0.066	0.066	strong	DPYD,NS,carcinoma,+1,3	DPYD	219	3	NM_000110	exon6	c.A496G	p.M166V	TACTCATTGCTTT	.	PASS	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52192637	52192637	+	Missense_Mutation	SNP	T	T	C	rs34323943	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	111	106	0	1	0	T|0.918;C|0.082;A|0.000	0.082	strong	.	ZNF217	227	.	NM_006526	exon3	c.A2666G	p.D889G	GGGCTGTCGTTCT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10467637	10467637	+	Missense_Mutation	SNP	T	T	C	rs4240659	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	18	107	0	0.206897	0	T|1.000;|0.000	.	strong	.	RP1L1	453	.	NM_178857	exon4	c.A3971G	p.E1324G	TTAGTTTCCTCTA	.	PASS	Atlas-SNP
KLHL35	283212	hgsc.bcm.edu	37	11	75134832	75134832	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	4	82	0	0.0493827	0	.	.	none	.	KLHL35	15	.	NM_001039548	exon5	c.C1467A	p.D489E	GATGGTGTCCTCA	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	37	8	8234526	8234526	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	30	80	0	0.32967	0	.	.	none	.	.	.	.	NM_001080826	exon2	c.A1393T	p.T465S	GGGGAGTTGGGTC	.	PASS	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	37	4	186544435	186544435	+	Silent	SNP	C	C	T	rs28528960	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	25	46	1	0.490196	0.0217391	C|0.865;T|0.135	0.135	strong	SORBS2,colon,carcinoma,-1,1	SORBS2	300	1	NM_001270771	exon16	c.G2436A	p.S812S	AGGAGCCGAATTT	.	scavenged	Atlas-SNP
SLIT1	6585	hgsc.bcm.edu	37	10	98803252	98803252	+	Silent	SNP	G	G	A	rs35388136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	62	128	0	0.430556	0	G|0.920;A|0.080	0.080	strong	.	SLIT1	154	.	NM_003061	exon19	c.C1872T	p.R624R	GCTGATGCGGTTG	.	PASS	Atlas-SNP
ST6GAL2	84620	hgsc.bcm.edu	37	2	107459974	107459974	+	Missense_Mutation	SNP	C	C	T	rs3796110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	57	91	1	0.564356	0.010989	C|0.893;T|0.107	0.107	strong	ST6GAL2,NS,carcinoma,+1,1	ST6GAL2	159	1	NM_032528	exon2	c.G460A	p.G154R	GCTCCCCGGGGGA	.	scavenged	Atlas-SNP
OR9K2	441639	hgsc.bcm.edu	37	12	55523833	55523833	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	65	0	0.471698	0	.	.	none	.	OR9K2	63	.	NM_001005243	exon1	c.T281C	p.I94T	CCTTCATTGATCT	.	PASS	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7436073	7436073	+	Silent	SNP	C	C	T	rs61740031	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	46	90	0	0.5	0	C|0.870;T|0.130	0.130	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.G534A	p.A178A	TTCAGGCGCCTGG	.	PASS	Atlas-SNP
PIDD	55367	hgsc.bcm.edu	37	11	801092	801092	+	Silent	SNP	G	G	A	rs11539604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	95	113	0	0.989583	0	G|0.959;A|0.041	0.041	strong	.	PIDD	76	.	NM_145887	exon10	c.C1659T	p.H553H	CAACAGGTGCAGG	.	PASS	Atlas-SNP
FAM214A	56204	hgsc.bcm.edu	37	15	52903772	52903772	+	Missense_Mutation	SNP	T	T	C	rs8036680	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	76	0	0.506667	0	T|0.902;C|0.098	0.098	strong	.	.	.	.	NM_019600	exon4	c.A404G	p.Q135R	ACTTACTGTCGAG	.	PASS	Atlas-SNP
KLHL14	57565	hgsc.bcm.edu	37	18	30350165	30350165	+	Silent	SNP	G	G	A	rs61737324	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	117	107	0	0.680233	0	G|0.934;A|0.066	0.066	strong	.	KLHL14	92	.	NM_020805	exon2	c.C390T	p.C130C	GGACGAGCAGCCC	.	PASS	Atlas-SNP
CORIN	10699	hgsc.bcm.edu	37	4	47682174	47682174	+	Silent	SNP	A	A	G	rs10517195	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	83	71	0	0.988095	0	A|0.562;G|0.438	0.438	strong	.	CORIN	154	.	NM_006587	exon8	c.T1116C	p.S372S	CTCGTCAGACTTA	.	PASS	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	37	3	7620828	7620828	+	Silent	SNP	G	G	A	rs1485174	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	231	136	163	0	0.588745	0	G|0.803;A|0.197	0.197	strong	.	GRM7	223	.	NM_000844	exon8	c.G2235A	p.G745G	CAGAGGGGTTCTC	.	PASS	Atlas-SNP
ASB15	142685	hgsc.bcm.edu	37	7	123264804	123264804	+	Silent	SNP	C	C	T	rs11769381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	70	141	0	0.538462	0	C|0.569;N|0.000	.	strong	.	ASB15	94	.	NM_080928	exon6	c.C633T	p.V211V	TGGAGTCACACCA	.	PASS	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102247526	102247526	+	Silent	SNP	G	G	C	rs2298074	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	46	93	0	0.534884	0	G|0.833;C|0.167	0.167	strong	.	SEC31B	84	.	NM_015490	exon26	c.C3387G	p.L1129L	CTCATGGAGCCCA	.	PASS	Atlas-SNP
PNLIPRP1	5407	hgsc.bcm.edu	37	10	118363642	118363642	+	Silent	SNP	T	T	C	rs3010501	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	81	122	1	1	0.00819672	T|0.317;C|0.683	0.683	strong	.	PNLIPRP1	82	.	NM_006229	exon11	c.T1164C	p.S388S	GTACAGTATCTTC	.	PASS	Atlas-SNP
CYP2A7	1549	hgsc.bcm.edu	37	19	41383137	41383137	+	Silent	SNP	C	C	T	rs148915421	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	78	167	0	0.52	0	C|0.978;T|0.022	0.022	strong	CYP2A7,NS,carcinoma,-1,1	CYP2A7	71	1	NM_000764	exon7	c.G1119A	p.R373R	TTTAACCCTGCGG	.	PASS	Atlas-SNP
ZNF214	7761	hgsc.bcm.edu	37	11	7022038	7022038	+	Silent	SNP	A	A	G	rs12575236	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	32	66	0	0.64	0	A|0.816;G|0.184	0.184	strong	.	ZNF214	65	.	NM_013249	exon3	c.T876C	p.F292F	CTGATGAAAGTGA	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	81028838	81028838	+	Silent	SNP	C	C	T	rs61729309	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	32	68	0	0.438356	0	C|0.903;T|0.097	0.097	strong	PTPRQ,NS,carcinoma,0,1	PTPRQ	119	1	NM_001145026	exon32	c.C5385T	p.D1795D	GAAGGACGAGAGA	.	PASS	Atlas-SNP
GCN1L1	10985	hgsc.bcm.edu	37	12	120593190	120593190	+	Missense_Mutation	SNP	G	G	A	rs183298599	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	36	41	0	1	0	G|0.998;A|0.002	0.002	strong	GCN1L1,NS,lymphoid_neoplasm,0,1	GCN1L1	207	1	NM_006836	exon30	c.C3485T	p.S1162F	AGCAAGGAGCAGA	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25000617	25000617	+	Missense_Mutation	SNP	C	C	G	rs7571	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	276	274	291	0	0.992754	0	C|0.568;G|0.432	0.432	strong	PARP4,NS,carcinoma,0,1	PARP4	142	1	NM_006437	exon33	c.G4966C	p.A1656P	TAGAAGCGTCATC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187534375	187534375	+	Silent	SNP	A	A	G	rs2249917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	48	50	0	0.979592	0	T|0.006;G|0.430	0.430	strong	.	FAT1	500	.	NM_005245	exon13	c.T9351C	p.D3117D	GTTCACATCTTCT	.	PASS	Atlas-SNP
KIAA0368	23392	hgsc.bcm.edu	37	9	114184259	114184259	+	Missense_Mutation	SNP	G	G	C	rs16916091	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	61	104	0	0.472868	0	G|0.946;C|0.054	0.054	strong	.	KIAA0368	144	.	NM_001080398	exon16	c.C1931G	p.T644S	TCCAAAGTACTAT	.	PASS	Atlas-SNP
ARFGAP2	84364	hgsc.bcm.edu	37	11	47188411	47188411	+	Missense_Mutation	SNP	C	C	T	rs3740691	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	27	63	0	0.509434	0	C|0.607;T|0.393	0.393	strong	.	ARFGAP2	43	.	NM_032389	exon13	c.G1232A	p.S411N	CTCCGGCTCTCCA	.	PASS	Atlas-SNP
ZSCAN30	100101467	hgsc.bcm.edu	37	18	32834095	32834095	+	Silent	SNP	T	T	C	rs2289037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	112	138	0	0.608696	0	T|0.931;C|0.069	0.069	strong	.	ZSCAN30	34	.	NM_001166012	exon5	c.A804G	p.T268T	GTGTTCTGTGGGG	.	PASS	Atlas-SNP
FAM187B	148109	hgsc.bcm.edu	37	19	35718938	35718938	+	Missense_Mutation	SNP	C	C	T	rs564117	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	64	193	0	0.410256	0	C|0.811;T|0.189	0.189	strong	FAM187B,caecum,carcinoma,0,1	FAM187B	28	1	NM_152481	exon1	c.G646A	p.V216I	AAATGACGTAATC	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140993264	140993264	+	Missense_Mutation	SNP	G	G	A	rs176036	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	25	35	0	0.925926	0	G|0.829;A|0.171	0.171	strong	.	MAGEC1	317	.	NM_005462	exon4	c.G74A	p.C25Y	AGAGTTGTCCTGA	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	145039594	145039594	+	Missense_Mutation	SNP	T	T	C	rs111958438	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	10	111	2	0.0793651	0.018018	T|0.995;C|0.005	0.005	strong	PDE4DIP_ENST00000313382,caecum,carcinoma,0,1	PDE4DIP	817	1	NM_001198832	exon1	c.A16G	p.T6A	ACCTCGTCCAGGT	.	scavenged	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	37	6	169621536	169621536	+	Silent	SNP	A	A	G	rs1132742	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	45	72	0	0.517241	0	G|0.242;N|0.001	0.242	strong	THBS2,NS,carcinoma,0,1	THBS2	230	1	NM_003247	exon21	c.T3360C	p.T1120T	GTAGCCAGTCTTG	.	PASS	Atlas-SNP
SERPINI2	5276	hgsc.bcm.edu	37	3	167189607	167189607	+	Missense_Mutation	SNP	A	A	C	rs17246389	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	36	78	0	0.493151	0	A|0.830;C|0.170	0.170	strong	.	SERPINI2	85	.	NM_001012303	exon3	c.T46G	p.L16V	TCCACAAGAAGAT	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201184878	201184878	+	Missense_Mutation	SNP	C	C	A	rs61743921	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	33	69	0	0.333333	0	C|0.957;A|0.043	0.043	strong	.	IGFN1	220	.	NM_001164586	exon15	c.C9207A	p.S3069R	CCCCAGCGCAGGC	.	PASS	Atlas-SNP
ENOSF1	55556	hgsc.bcm.edu	37	18	691266	691266	+	Missense_Mutation	SNP	A	A	G	rs2612086	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	119	131	0	0.7	0	T|0.005;G|0.301	0.301	strong	.	ENOSF1	44	.	NM_202758	exon6	c.T497C	p.M166T	ACCAGCATCCTGG	.	PASS	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37603021	37603021	+	Silent	SNP	G	G	A	rs2071710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	37	56	0	0.486842	0	G|0.742;A|0.258	0.258	strong	.	SSTR3	42	.	NM_001051	exon2	c.C822T	p.Y274Y	GAGCACGTAGAAG	.	PASS	Atlas-SNP
COL21A1	81578	hgsc.bcm.edu	37	6	55925801	55925801	+	Missense_Mutation	SNP	G	G	T	rs9464337	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	50	93	0	0.454545	0	G|0.960;T|0.040	0.040	strong	.	COL21A1	201	.	NM_030820	exon26	c.C2240A	p.A747D	CCAATGGCACCTC	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	42026764	42026764	+	Silent	SNP	C	C	T	rs1918314	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	58	63	0	1	0	C|0.228;T|0.772	0.772	strong	.	MGA	264	.	NM_001080541	exon12	c.C3888T	p.D1296D	CTGTGACTTGGAG	.	PASS	Atlas-SNP
SULT1C4	27233	hgsc.bcm.edu	37	2	108994808	108994808	+	Missense_Mutation	SNP	C	C	G	rs1402467	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	35	104	0	0.448718	0	C|0.602;G|0.398	0.398	strong	.	SULT1C4	41	.	NM_006588	exon1	c.C15G	p.D5E	ACACGACATGGAG	.	PASS	Atlas-SNP
ZNF557	79230	hgsc.bcm.edu	37	19	7083629	7083629	+	Silent	SNP	A	A	G	rs966591	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	34	90	0	0.390805	0	G|0.431;N|0.000	0.431	strong	.	ZNF557	40	.	NM_001044387	exon8	c.A1167G	p.S389S	TCTCTCATCCGTT	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141335284	141335284	+	Silent	SNP	G	G	A	rs164074	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	42	87	0	0.525	0	G|0.476;A|0.524	0.524	strong	.	PCDH12	133	.	NM_016580	exon1	c.C2133T	p.A711A	GCTCAAGGCCCCA	.	PASS	Atlas-SNP
SPINT3	10816	hgsc.bcm.edu	37	20	44141331	44141331	+	Missense_Mutation	SNP	A	A	G	rs6032259	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	34	90	0	0.369565	0	A|0.558;G|0.442	0.442	strong	.	SPINT3	12	.	NM_006652	exon2	c.T230C	p.L77S	TTCCTCAAAAAGT	.	PASS	Atlas-SNP
LSS	4047	hgsc.bcm.edu	37	21	47642626	47642626	+	Missense_Mutation	SNP	G	G	A	rs139003098	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	24	56	0	0.533333	0	G|0.998;A|0.002	0.002	strong	.	LSS	50	.	NM_001145436	exon4	c.C346T	p.R116C	GGATGCGTGCCAC	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545768	47545768	+	Missense_Mutation	SNP	G	G	A	rs1042917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	104	119	1	1	0.00840336	G|0.585;A|0.415	0.415	strong	.	COL6A2	351	.	NM_058175	exon26	c.G2039A	p.R680H	ACGAACGTATCGA	.	PASS	Atlas-SNP
IMPG1	3617	hgsc.bcm.edu	37	6	76660551	76660551	+	Missense_Mutation	SNP	G	G	C	rs3734311	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	21	69	0	0.396226	0	G|0.518;C|0.482	0.482	strong	.	IMPG1	143	.	NM_001563	exon13	c.C1552G	p.H518D	CTAGGTGTCTGAC	.	PASS	Atlas-SNP
FBXO5	26271	hgsc.bcm.edu	37	6	153296541	153296541	+	Missense_Mutation	SNP	G	G	C	rs2073260	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	86	156	0	0.502924	0	G|0.245;C|0.755	0.755	strong	.	FBXO5	40	.	NM_012177	exon2	c.C319G	p.Q107E	CAAGTTGTACAAT	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100105735	100105735	+	Silent	SNP	T	T	C	rs1947717	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	40	79	0	0.416667	0	T|0.445;C|0.555	0.555	strong	.	.	.	.	NM_020893	exon19	c.T2520C	p.C840C	GCATTGTAGGAAG	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111857208	111857208	+	Missense_Mutation	SNP	G	G	A	rs3818822	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	37	70	0	0.486842	0	G|0.888;A|0.112	0.112	strong	.	CHIA	115	.	NM_201653	exon5	c.G304A	p.G102R	AACTTCGGGACTG	.	PASS	Atlas-SNP
ANGPT2	285	hgsc.bcm.edu	37	8	6371291	6371291	+	Silent	SNP	A	A	G	rs2916747	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	53	101	0	0.486239	0	A|0.859;G|0.141	0.141	strong	.	ANGPT2	126	.	NM_001147	exon7	c.T1107C	p.Y369Y	AAGCACATAGCGT	.	PASS	Atlas-SNP
KAT6A	7994	hgsc.bcm.edu	37	8	41798417	41798417	+	Silent	SNP	C	C	T	rs3824275	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	30	52	0	0.612245	0	C|0.863;T|0.137	0.137	strong	MYST3,brain,primitive_neuroectodermal_tumour-medulloblastoma,-1,1	.	.	1	NM_001099412	exon16	c.G2982A	p.P994P	GCTTTCCGGCTCC	.	PASS	Atlas-SNP
ANP32C	23520	hgsc.bcm.edu	37	4	165118652	165118652	+	Missense_Mutation	SNP	C	C	T	rs2288675	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	83	173	0	0.50303	0	C|0.676;T|0.324	0.324	strong	.	ANP32C	59	.	NM_012403	exon1	c.G212A	p.R71K	GAGACTCTTAGTT	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890732	55890732	+	Missense_Mutation	SNP	G	G	A	rs11606538	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	48	144	0	0.384	0	G|0.924;A|0.076	0.076	strong	.	OR8H3	92	.	NM_001005201	exon1	c.G884A	p.R295K	GAAACAGAGAAGT	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76533456	76533456	+	Silent	SNP	G	G	A	rs61741432	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	41	86	0	0.5125	0	G|0.987;A|0.013	0.013	strong	.	DNAH17	347	.	NM_173628	exon19	c.C2784T	p.I928I	GCCCTCGATCAGT	.	PASS	Atlas-SNP
ZNF581	51545	hgsc.bcm.edu	37	19	56156447	56156447	+	Silent	SNP	A	A	G	rs11084406	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	11	12	0	0.733333	0	A|0.916;G|0.084	0.084	strong	.	ZNF581	13	.	NM_016535	exon2	c.A510G	p.E170E	TGGGGAACGCCCG	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76421443	76421443	+	Silent	SNP	G	G	A	rs1134541	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	43	57	0	0.447917	0	G|0.885;A|0.115	0.115	strong	.	DNAH17	347	.	NM_173628	exon80	c.C13125T	p.Y4375Y	GAGTCCGTACACG	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71269459	71269459	+	Silent	SNP	C	C	T	rs16869371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	22	61	0	0.354839	0	C|0.841;T|0.159	0.159	strong	.	FAM135A	181	.	NM_001162529	exon20	c.C4383T	p.P1461P	TCGACCCGTTCTG	.	PASS	Atlas-SNP
BRD1	23774	hgsc.bcm.edu	37	22	50217387	50217387	+	Silent	SNP	G	G	A	rs11912787	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	42	94	0	0.451613	0	G|0.899;A|0.101	0.101	strong	.	BRD1	144	.	NM_014577	exon1	c.C579T	p.F193F	CTTCTCGAAGCGG	.	PASS	Atlas-SNP
CRB2	286204	hgsc.bcm.edu	37	9	126129904	126129904	+	Silent	SNP	C	C	T	rs10818812	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	54	45	0	1	0	C|0.729;T|0.271	0.271	strong	.	CRB2	86	.	NM_173689	exon6	c.C993T	p.N331N	CCTCAACGGAGGC	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43797619	43797619	+	Missense_Mutation	SNP	C	C	T	rs17031056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	86	146	0	0.589041	0	C|0.781;N|0.000;T|0.219	0.219	strong	.	THADA	131	.	NM_001083953	exon14	c.G2095A	p.V699I	AAAGTACCTGAGA	.	PASS	Atlas-SNP
SYDE2	84144	hgsc.bcm.edu	37	1	85655916	85655916	+	Missense_Mutation	SNP	G	G	A	rs56191061	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	52	97	0	0.460177	0	G|0.937;A|0.063	0.063	strong	SYDE2,NS,carcinoma,-1,1	SYDE2	135	1	NM_032184	exon2	c.C1265T	p.S422L	CACAGTGAGTCTT	.	PASS	Atlas-SNP
ARHGAP12	94134	hgsc.bcm.edu	37	10	32128611	32128611	+	Missense_Mutation	SNP	A	A	G	rs2808096	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	11	28	0	0.392857	0	G|0.199;N|0.000	0.199	strong	.	ARHGAP12	79	.	NM_001270695	exon8	c.T1325C	p.F442S	TCAGGAAAGCAGG	.	PASS	Atlas-SNP
ADAMTS4	9507	hgsc.bcm.edu	37	1	161163037	161163037	+	Missense_Mutation	SNP	T	T	C	rs4233367	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	48	32	2	1	0.0625	T|0.348;C|0.652	0.652	strong	ADAMTS4_ENST00000367996,NS,carcinoma,0,2	ADAMTS4	171	2	NM_005099	exon7	c.A1877G	p.Q626R	AGTGCCTGGGCCT	.	scavenged	Atlas-SNP
INPP1	3628	hgsc.bcm.edu	37	2	191231503	191231503	+	Silent	SNP	G	G	A	rs10931450	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	46	96	0	0.511111	0	G|0.733;A|0.267	0.267	strong	.	INPP1	29	.	NM_002194	exon4	c.G348A	p.V116V	CAAGGTGGCATCT	.	PASS	Atlas-SNP
ABCD2	225	hgsc.bcm.edu	37	12	40010863	40010863	+	Silent	SNP	C	C	T	rs61736446	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	76	161	0	0.503311	0	C|0.968;T|0.032	0.032	strong	.	ABCD2	127	.	NM_005164	exon2	c.G1047A	p.K349K	AACATACTTCATC	.	PASS	Atlas-SNP
CEP70	80321	hgsc.bcm.edu	37	3	138289163	138289163	+	Silent	SNP	T	T	C	rs1673608	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	227	132	203	0	0.581498	0	T|0.549;C|0.451	0.451	strong	.	CEP70	51	.	NM_024491	exon6	c.A462G	p.L154L	TACCTGTAAAGTT	.	PASS	Atlas-SNP
RPS16	6217	hgsc.bcm.edu	37	19	39926521	39926521	+	Silent	SNP	G	G	A	rs17626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	12	30	0	0.387097	0	G|0.546;A|0.454	0.454	strong	.	RPS16	12	.	NM_001020	exon1	c.C15T	p.G5G	CAGCGGGCCCTTG	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32487170	32487170	+	Missense_Mutation	SNP	G	G	A	rs17423930	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	7	139	0	0.0486111	0	G|0.440;A|0.560	0.560	strong	HLA-DRB5,NS,carcinoma,+1,1	HLA-DRB5	31	1	NM_002125	exon3	c.C629T	p.T210M	GGGCTCGTCACGC	.	scavenged	Atlas-SNP
NUDT18	79873	hgsc.bcm.edu	37	8	21965113	21965113	+	Missense_Mutation	SNP	T	T	C	rs3739435	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	67	56	0	0.985294	0	T|0.476;C|0.524	0.524	strong	.	NUDT18	13	.	NM_024815	exon5	c.A670G	p.M224V	GCTCCATAGGGTC	.	PASS	Atlas-SNP
ST7L	54879	hgsc.bcm.edu	37	1	113098534	113098534	+	Missense_Mutation	SNP	C	C	T	rs6658555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	32	74	0	0.405063	0	C|0.817;T|0.183	0.183	strong	ST7L,NS,carcinoma,0,1	ST7L	31	1	NM_138729	exon12	c.G1352A	p.R451Q	TCTATTCGTTTCC	.	PASS	Atlas-SNP
ERO1LB	56605	hgsc.bcm.edu	37	1	236413230	236413230	+	Missense_Mutation	SNP	T	T	A	rs2477599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	22	80	0	0.297297	0	T|0.570;A|0.430	0.430	strong	.	ERO1LB	48	.	NM_019891	exon5	c.A386T	p.D129V	TCACAATCTTCTA	.	PASS	Atlas-SNP
FAM109B	150368	hgsc.bcm.edu	37	22	42473603	42473603	+	Silent	SNP	C	C	T	rs133383	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	45	103	0	0.478723	0	C|0.682;T|0.318	0.318	strong	.	FAM109B	22	.	NM_001002034	exon3	c.C306T	p.A102A	GCTGGCCGCAGAA	.	PASS	Atlas-SNP
EFS	10278	hgsc.bcm.edu	37	14	23829164	23829164	+	Missense_Mutation	SNP	G	G	A	rs2231805	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	6	20	0	0.75	0	G|0.872;A|0.128	0.128	strong	EFS,NS,carcinoma,0,2	EFS	37	2	NM_005864	exon4	c.C523T	p.R175W	CAACCCGGGTCAG	.	PASS	Atlas-SNP
PANX1	24145	hgsc.bcm.edu	37	11	93913036	93913036	+	Missense_Mutation	SNP	A	A	G	rs12793348	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	40	75	0	0.470588	0	A|0.883;G|0.117	0.117	strong	.	PANX1	38	.	NM_015368	exon4	c.A814G	p.I272V	GTGGGCATCTTCC	.	PASS	Atlas-SNP
STK39	27347	hgsc.bcm.edu	37	2	168931636	168931636	+	Missense_Mutation	SNP	C	C	T	rs56031549	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	56	163	0	0.459016	0	C|0.987;T|0.013	0.013	strong	.	STK39	95	.	NM_013233	exon11	c.G1195A	p.A399T	AAAAAGCTGCTTT	.	PASS	Atlas-SNP
OR5H15	403274	hgsc.bcm.edu	37	3	97887970	97887970	+	Missense_Mutation	SNP	C	C	T	rs72933946	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	400	7	360	1	0.0175	0.00277778	C|0.965;A|0.035	.	alt	OR5H15,NS,carcinoma,-2,1	OR5H15	70	1	NM_001005515	exon1	c.C427T	p.R143W	TGCATCCGGCTAT	.	scavenged	Atlas-SNP
TOX3	27324	hgsc.bcm.edu	37	16	52478206	52478206	+	Silent	SNP	C	C	T	rs3743796	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	35	58	0	0.448718	0	C|0.891;T|0.109	0.109	strong	TOX3_ENST00000407228,caecum,carcinoma,-1,3	TOX3	121	3	NM_001080430	exon6	c.G969A	p.R323R	GCTGGCCCTGTAT	.	PASS	Atlas-SNP
ERC1	23085	hgsc.bcm.edu	37	12	1137145	1137145	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	12	41	0	0.352941	0	.	.	none	.	ERC1	95	.	NM_178039	exon2	c.C76T	p.R26C	CTTCCACGTTCCC	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46899872	46899872	+	Silent	SNP	C	C	A	rs1131102	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	23	45	0	0.433962	0	C|0.896;A|0.104	0.104	strong	COL18A1_ENST00000359759,NS,carcinoma,+1,2	COL18A1	129	2	NM_030582	exon9	c.C1845A	p.G615G	CAAGGGCGACAAG	.	PASS	Atlas-SNP
SOX21	11166	hgsc.bcm.edu	37	13	95364046	95364046	+	Silent	SNP	C	C	G	rs1060474	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	39	54	0	0.46988	0	C|0.605;G|0.395	0.395	strong	.	SOX21	21	.	NM_007084	exon1	c.G258C	p.L86L	CTTGAGCAGCGTC	.	PASS	Atlas-SNP
ECM2	1842	hgsc.bcm.edu	37	9	95274338	95274338	+	Silent	SNP	A	A	G	rs2296667	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	189	90	149	0	0.47619	0	A|0.543;G|0.457	0.457	strong	.	ECM2	147	.	NM_001393	exon5	c.T1125C	p.S375S	ATTTTTACTCAGA	.	PASS	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	37	4	84374480	84374480	+	Missense_Mutation	SNP	C	C	T	rs1494961	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	160	171	0	1	0	C|0.384;N|0.000	.	strong	.	HELQ	95	.	NM_133636	exon2	c.G916A	p.V306I	ACTCAACTGTTTT	.	PASS	Atlas-SNP
SCN5A	6331	hgsc.bcm.edu	37	3	38645420	38645420	+	Missense_Mutation	SNP	T	T	C	rs1805124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	97	173	0	0.557471	0	T|0.790;C|0.210	0.210	strong	SCN5A_ENST00000413689,colon,carcinoma,0,3	SCN5A	634	3	NM_001160160	exon12	c.A1673G	p.H558R	GATGTGTGGTGGC	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183273248	183273248	+	Missense_Mutation	SNP	A	A	G	rs148924291		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	228	96	190	2	0.421053	0.0105263	A|1.000;G|0.000	0.000	weak	KLHL6,NS,lymphoid_neoplasm,-1,2	KLHL6	100	2	NM_130446	exon1	c.T194C	p.L65P	ATTCGCAGGGTTT	.	scavenged	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112899702	112899702	+	Silent	SNP	A	A	G	rs6886628	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	81	167	0	0.476471	0	A|0.681;G|0.319	0.319	strong	.	YTHDC2	118	.	NM_022828	exon20	c.A2589G	p.T863T	TTGCACACTAGCT	.	PASS	Atlas-SNP
ZNF80	7634	hgsc.bcm.edu	37	3	113955187	113955187	+	Nonsense_Mutation	SNP	A	A	C	rs3732781	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	24	78	0	0.222222	0	C|0.195;N|0.000	0.195	strong	.	ZNF80	75	.	NM_007136	exon1	c.T735G	p.Y245X	GCACTCATAAGGT	.	PASS	Atlas-SNP
FBXO5	26271	hgsc.bcm.edu	37	6	153296370	153296370	+	Missense_Mutation	SNP	G	G	A	rs7763565	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	75	162	0	0.513699	0	G|0.911;A|0.089	0.089	strong	.	FBXO5	40	.	NM_012177	exon2	c.C490T	p.L164F	CCAGGAGGCTACC	.	PASS	Atlas-SNP
PARP9	83666	hgsc.bcm.edu	37	3	122277268	122277268	+	Missense_Mutation	SNP	G	G	A	rs34006803	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	51	66	0	0.64557	0	G|0.914;A|0.086	0.086	strong	.	PARP9	72	.	NM_031458	exon3	c.C62T	p.S21L	GAGAGCGAGGTAA	.	PASS	Atlas-SNP
DHX33	56919	hgsc.bcm.edu	37	17	5366947	5366947	+	Missense_Mutation	SNP	G	G	A	rs8069315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	25	69	0	0.384615	0	G|0.856;A|0.144	0.144	strong	.	DHX33	41	.	NM_020162	exon2	c.C352T	p.R118C	CCTGGCGGCTGAT	.	PASS	Atlas-SNP
STARD3	10948	hgsc.bcm.edu	37	17	37817254	37817254	+	Missense_Mutation	SNP	G	G	A	rs34408242	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	38	50	0	0.575758	0	G|0.999;A|0.001	0.001	strong	.	STARD3	33	.	NM_006804	exon13	c.G1055A	p.R352H	TCCGGCGCATTGA	.	PASS	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	37	3	108723983	108723983	+	Missense_Mutation	SNP	C	C	T	rs35421732	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	18	58	0	0.227848	0	C|0.965;T|0.035	0.035	strong	.	MORC1	211	.	NM_014429	exon19	c.G1947A	p.M649I	AGAGTTCATTTTC	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75981765	75981765	+	Missense_Mutation	SNP	G	G	T	rs149356457	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	41	69	0	0.41	0	G|0.998;T|0.002	0.002	strong	.	CSPG4	175	.	NM_001897	exon3	c.C1641A	p.N547K	GACAGGGTTGACC	.	PASS	Atlas-SNP
RAB17	64284	hgsc.bcm.edu	37	2	238494681	238494681	+	Silent	SNP	G	G	A	rs34052613	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	100	222	1	0.526316	0.0045045	G|0.890;A|0.110	0.110	strong	.	RAB17	17	.	NM_022449	exon2	c.C117T	p.Y39Y	CTTCACGTACCGA	.	PASS	Atlas-SNP
CCT6B	10693	hgsc.bcm.edu	37	17	33288363	33288363	+	Missense_Mutation	SNP	C	C	T	rs9635769	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	11	38	0	0.478261	0	C|0.481;T|0.519	0.519	strong	CCT6B,caecum,carcinoma,0,3	CCT6B	63	3	NM_006584	exon1	c.G50A	p.R17Q	GCTGCCCGGGCCC	.	PASS	Atlas-SNP
TFAP2C	7022	hgsc.bcm.edu	37	20	55209257	55209257	+	Silent	SNP	T	T	C	rs35023929	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	29	63	0	0.337209	0	T|0.892;C|0.108	0.108	strong	.	TFAP2C	51	.	NM_003222	exon5	c.T855C	p.I285I	CAAGATTGGGTTG	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156289900	156289900	+	Silent	SNP	C	C	T	rs3733390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	353	171	415	1	0.484419	0.00240964	C|0.687;T|0.313	0.313	strong	.	MAP9	79	.	NM_001039580	exon5	c.G546A	p.L182L	CTTTTTCAACATA	.	PASS	Atlas-SNP
GPC6	10082	hgsc.bcm.edu	37	13	95034749	95034749	+	Missense_Mutation	SNP	G	G	A	rs1535692	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	74	94	0	0.573643	0	G|0.835;A|0.165	0.165	strong	GPC6,NS,carcinoma,0,1	GPC6	102	1	NM_005708	exon7	c.G1234A	p.V412M	GAGAGCGTGACAG	.	PASS	Atlas-SNP
CRLF3	51379	hgsc.bcm.edu	37	17	29111368	29111368	+	Missense_Mutation	SNP	A	A	G	rs11867457	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	50	85	0	0.50505	0	A|0.829;G|0.171	0.171	strong	.	CRLF3	36	.	NM_015986	exon8	c.T1166C	p.L389P	GTTCCTAGAGTCA	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1119019	1119019	+	Silent	SNP	C	C	T	rs2074920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	16	23	0	0.941176	0	C|0.519;T|0.481	0.481	strong	.	SBNO2	112	.	NM_014963	exon14	c.G1518A	p.A506A	CAGGGCCGCGCGG	.	PASS	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79224732	79224732	+	Silent	SNP	G	G	A	rs149231812	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	42	54	0	0.56	0	G|0.999;A|0.001	0.001	strong	.	CTSH	23	.	NM_004390	exon6	c.C474T	p.T158T	CTTTCCGGTTGCG	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112899573	112899573	+	Silent	SNP	T	T	C	rs6867579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	56	142	0	0.474576	0	T|0.881;C|0.119	0.119	strong	YTHDC2,NS,carcinoma,+1,1	YTHDC2	118	1	NM_022828	exon20	c.T2460C	p.D820D	AATGGATACATGG	.	PASS	Atlas-SNP
C20orf196	149840	hgsc.bcm.edu	37	20	5753579	5753579	+	Missense_Mutation	SNP	C	C	T	rs237422	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	57	133	0	0.428571	0	T|0.257;G|0.002	0.257	strong	C20orf196,NS,carcinoma,-1,2	C20orf196	17	2	NM_152504	exon2	c.C68T	p.A23V	CATCAGCGTGTGA	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21012575	21012575	+	Silent	SNP	G	G	A	rs479323	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	34	98	0	0.361702	0	G|0.793;A|0.207	0.207	strong	.	KIF17	130	.	NM_001122819	exon9	c.C1983T	p.P661P	GGCTTCGGGCCTG	.	PASS	Atlas-SNP
MAEA	10296	hgsc.bcm.edu	37	4	1305802	1305802	+	Silent	SNP	C	C	T	rs34402978	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	210	108	182	0	0.514286	0	C|0.972;T|0.028	0.028	strong	.	MAEA	39	.	NM_005882	exon2	c.C105T	p.A35A	TCGCGCCGCTCAG	.	PASS	Atlas-SNP
SLC22A1	6580	hgsc.bcm.edu	37	6	160543123	160543123	+	Silent	SNP	T	T	C	rs1867351	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	40	92	0	0.408163	0	T|0.754;C|0.246	0.246	strong	.	SLC22A1	69	.	NM_153187	exon1	c.T156C	p.S52S	CCAGAGTCCTGGG	.	PASS	Atlas-SNP
MPHOSPH10	10199	hgsc.bcm.edu	37	2	71365676	71365676	+	Silent	SNP	G	G	A	rs357756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	43	81	0	0.589041	0	G|0.712;A|0.288	0.288	strong	MPHOSPH10,rectum,carcinoma,0,1	MPHOSPH10	81	1	NM_005791	exon5	c.G1155A	p.Q385Q	GTGGCAGCTTCAG	.	PASS	Atlas-SNP
IGFALS	3483	hgsc.bcm.edu	37	16	1841033	1841033	+	Silent	SNP	G	G	A	rs17559	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	6	9	0	0.666667	0	G|0.790;A|0.210	0.210	strong	IGFALS,NS,carcinoma,0,1	IGFALS	29	1	NM_001146006	exon2	c.C1500T	p.Y500Y	CAGCAGGTACTCC	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31255405	31255405	+	Silent	SNP	C	C	T	rs77340729	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	272	128	287	0	0.470588	0	C|0.951;T|0.049	0.049	strong	.	DDX11	188	.	NM_030653	exon23	c.C2316T	p.L772L	GCTCCTCTCTGTG	.	PASS	Atlas-SNP
ALG1	56052	hgsc.bcm.edu	37	16	5132636	5132636	+	Silent	SNP	C	C	T	rs1047732	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	10	27	0	0.454545	0	C|0.536;T|0.464	0.464	strong	.	ALG1	35	.	NM_019109	exon11	c.C1149T	p.F383F	CATGTTCGGGTGC	.	PASS	Atlas-SNP
FAM153B	202134	hgsc.bcm.edu	37	5	175528584	175528584	+	Missense_Mutation	SNP	C	C	T	rs2014864	bycluster;byfrequency;bysubmitter;by2hit2allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	263	10	338	1	0.0380228	0.00295858	C|0.500;T|0.500	0.500	strong	FAM153B,NS,carcinoma,0,1	FAM153B	28	1	NM_001265615	exon11	c.C433T	p.L145F	GCCGAACGTACGT	.	scavenged	Atlas-SNP
USP32	84669	hgsc.bcm.edu	37	17	58288421	58288421	+	Missense_Mutation	SNP	C	C	T	rs146577219	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	452	74	445	1	0.163717	0.00224719	C|0.926;T|0.073	0.073	strong	USP32,NS,carcinoma,0,5	USP32	128	5	NM_032582	exon21	c.G2377A	p.E793K	AAAGTTCCTGCAC	.	scavenged	Atlas-SNP
MAD1L1	8379	hgsc.bcm.edu	37	7	1976457	1976457	+	Missense_Mutation	SNP	C	C	T	rs1801368	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	29	34	0	0.371795	0	T|0.328;G|0.000;C|0.671	0.328	strong	.	MAD1L1	81	.	NM_003550	exon17	c.G1673A	p.R558H	TCCTCGCGCAGGC	.	PASS	Atlas-SNP
HDAC7	51564	hgsc.bcm.edu	37	12	48190044	48190044	+	Silent	SNP	C	C	T	rs11831883	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	38	80	0	0.452381	0	C|0.776;T|0.224	0.224	strong	.	HDAC7	71	.	NM_015401	exon8	c.G741A	p.G247G	GCTGCACCCTGAT	.	PASS	Atlas-SNP
BUB1B	701	hgsc.bcm.edu	37	15	40462780	40462780	+	Silent	SNP	G	G	A	rs1801389	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	40	62	0	0.506329	0	G|0.879;A|0.121	0.121	strong	.	BUB1B	71	.	NM_001211	exon4	c.G282A	p.K94K	TGGGAAGGAGAGT	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	37	6	7585670	7585670	+	Silent	SNP	C	C	A	rs11558731	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	51	96	0	0.504951	0	A|0.045;C|0.955;G|0.000	0.045	strong	.	DSP	306	.	NM_004415	exon24	c.C8175A	p.R2725R	CCAGCGCTTCCTG	.	PASS	Atlas-SNP
CD99	4267	hgsc.bcm.edu	37	X	2644302	2644302	+	Silent	SNP	C	C	T	rs200217367		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	52	136	0	0.693333	0	.	.	weak	.	CD99	12	.	NM_002414	exon8	c.C363T	p.A121A	TGCAGCCGACGCC	.	PASS	Atlas-SNP
CPNE4	131034	hgsc.bcm.edu	37	3	131624120	131624120	+	Silent	SNP	C	C	G	rs3749263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	89	105	0	0.585526	0	C|0.834;G|0.166	0.166	strong	.	CPNE4	112	.	NM_130808	exon2	c.G168C	p.G56G	CCACTGCCCATGA	.	PASS	Atlas-SNP
SPEF2	79925	hgsc.bcm.edu	37	5	35695844	35695844	+	Silent	SNP	T	T	C	rs78576797	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	49	88	0	0.515789	0	T|0.979;C|0.021	0.021	strong	.	SPEF2	324	.	NM_024867	exon14	c.T1983C	p.N661N	TGCTAATGCTGAT	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113237134	113237134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	229	3	204	0	0.0131004	0	.	.	none	CSMD3_ENST00000343508,right_upper_lobe,carcinoma,0,2	CSMD3	2325	2	NM_198123	exon71	c.G10990A	p.G3664R	AACATCCTGTATA	.	scavenged	Atlas-SNP
PSG4	5672	hgsc.bcm.edu	37	19	43699417	43699417	+	Missense_Mutation	SNP	A	A	G	rs3859474	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	44	102	0	0.389381	0	A|0.397;G|0.603	0.603	strong	.	PSG4	129	.	NM_002780	exon4	c.G718C	p.G240R	GCTTGGACAGCTT	.	PASS	Atlas-SNP
IFNL2	282616	hgsc.bcm.edu	37	19	39760191	39760191	+	Missense_Mutation	SNP	A	A	G	rs8103362	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	56	113	0	0.478632	0	A|0.795;G|0.205	0.205	strong	.	.	.	.	NM_172138	exon4	c.A334G	p.T112A	GAGGCCACCGCTG	.	PASS	Atlas-SNP
MKNK2	2872	hgsc.bcm.edu	37	19	2041146	2041146	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	4	177	0	0.0224719	0	.	.	none	MKNK2_ENST00000250896,NS,carcinoma,+2,2	MKNK2	56	2	NM_017572	exon12	c.G1003A	p.A335T	TGTGGGCCCAGTC	.	scavenged	Atlas-SNP
MORC3	23515	hgsc.bcm.edu	37	21	37710067	37710067	+	Missense_Mutation	SNP	G	G	A	rs370616843		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	38	108	0	0.44186	0	.	.	weak	.	MORC3	78	.	NM_015358	exon4	c.G283A	p.V95I	GGTCATGTCCCAG	.	PASS	Atlas-SNP
DRD2	1813	hgsc.bcm.edu	37	11	113283459	113283459	+	Silent	SNP	G	G	A	rs6277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	214	207	189	1	0.96729	0.00529101	G|0.641;A|0.359	0.359	strong	.	DRD2	98	.	NM_000795	exon7	c.C957T	p.P319P	GCTGTCGGGAGTG	.	PASS	Atlas-SNP
GCAT	23464	hgsc.bcm.edu	37	22	38211287	38211287	+	Missense_Mutation	SNP	G	G	A	rs200392738	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	62	94	0	0.681319	0	.	.	weak	.	GCAT	27	.	NM_001171690	exon5	c.G809A	p.R270Q	CAGGACGGTGGGA	.	PASS	Atlas-SNP
AIF1	199	hgsc.bcm.edu	37	6	31583931	31583931	+	Missense_Mutation	SNP	C	C	T	rs2269475	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	84	170	0	0.474576	0	C|0.862;T|0.138	0.138	strong	.	AIF1	13	.	NM_004847	exon3	c.C43T	p.R15W	GAGAAACGGGTGA	.	PASS	Atlas-SNP
MGMT	4255	hgsc.bcm.edu	37	10	131506192	131506192	+	Silent	SNP	C	C	T	rs1803965	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	13	50	0	0.342105	0	A|0.000;C|0.859;T|0.140	0.140	strong	.	MGMT	32	.	NM_002412	exon3	c.C252T	p.L84L	GGTTCTCGGAGGT	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17084581	17084581	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	317	42	270	0	0.132492	0	.	.	none	.	.	.	.	NM_001271733	exon12	c.A1517G	p.H506R	GGCATATGGCTGG	.	PASS	Atlas-SNP
JDP2	122953	hgsc.bcm.edu	37	14	75904660	75904660	+	Missense_Mutation	SNP	A	A	G	rs3625	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	24	43	0	0.585366	0	A|0.386;G|0.614	0.614	strong	.	JDP2	8	.	NM_001135049	exon2	c.A70G	p.T24A	GTGACCACAGGCT	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8159362	8159362	+	Missense_Mutation	SNP	G	G	T	rs7245429	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	29	34	0	0.568627	0	G|0.603;T|0.397	0.397	strong	.	FBN3	300	.	NM_032447	exon46	c.C5873A	p.P1958H	AAGCCAGGGGGAC	.	PASS	Atlas-SNP
AFMID	125061	hgsc.bcm.edu	37	17	76198587	76198587	+	Silent	SNP	A	A	G	rs72897838	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	15	36	0	0.357143	0	A|0.911;G|0.089	0.089	strong	.	AFMID	38	.	NM_001145526	exon3	c.A162G	p.T54T	CACCACAAGGGCC	.	PASS	Atlas-SNP
SLC43A3	29015	hgsc.bcm.edu	37	11	57177593	57177593	+	Silent	SNP	A	A	G	rs62640922	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	21	50	0	0.456522	0	A|0.975;G|0.025	0.025	strong	.	SLC43A3	54	.	NM_017611	exon12	c.T1062C	p.G354G	GGAGGAACCTGGG	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57180616	57180616	+	Silent	SNP	G	G	C	rs11723379	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	8	17	0	1	0	G|0.702;C|0.298	0.298	strong	KIAA1211,NS,carcinoma,0,1	KIAA1211	178	1	NM_020722	exon8	c.G948C	p.A316A	GGAGGCGGAGGAG	.	PASS	Atlas-SNP
UQCRHL	0	hgsc.bcm.edu	37	1	16134072	16134072	+	Missense_Mutation	SNP	C	C	T	rs61744357	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	47	80	0	0.451923	0	C|0.854;T|0.146	0.146	strong	.	.	.	.	NM_001089591	exon1	c.G73A	p.E25K	CTAATTCCTCCTC	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124767125	124767125	+	Silent	SNP	G	G	A	rs73016370	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	21	46	0	0.567568	0	G|0.919;A|0.081	0.081	strong	.	ROBO4	130	.	NM_019055	exon2	c.C103T	p.L35L	GGACTAGGATCTG	.	PASS	Atlas-SNP
CCDC17	149483	hgsc.bcm.edu	37	1	46086077	46086077	+	Missense_Mutation	SNP	C	C	T	rs3014246	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	36	46	0	1	0	C|0.286;T|0.714	0.714	strong	.	CCDC17	54	.	NM_001114938	exon13	c.G1739A	p.S580N	AGGAAGCTGGCTT	.	PASS	Atlas-SNP
PIWIL1	9271	hgsc.bcm.edu	37	12	130841638	130841638	+	Missense_Mutation	SNP	G	G	A	rs1106042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	22	35	0	0.666667	0	G|0.943;A|0.057	0.057	strong	.	PIWIL1	157	.	NM_004764	exon13	c.G1580A	p.R527K	AAATGAGAAAAGC	.	PASS	Atlas-SNP
ZNF790	388536	hgsc.bcm.edu	37	19	37310344	37310344	+	Missense_Mutation	SNP	T	T	C	rs3745775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	37	24	0	1	0	T|0.723;C|0.277	0.277	strong	.	ZNF790	89	.	NM_206894	exon5	c.A902G	p.Q301R	ATTCTCTGATGTC	.	PASS	Atlas-SNP
KIF2C	11004	hgsc.bcm.edu	37	1	45224998	45224998	+	Missense_Mutation	SNP	A	A	C	rs4342887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	46	85	0	0.377049	0	A|0.816;C|0.184	0.184	strong	.	KIF2C	68	.	NM_006845	exon14	c.A1345C	p.I449L	AAGATGATCGACA	.	PASS	Atlas-SNP
CKAP2L	150468	hgsc.bcm.edu	37	2	113520129	113520129	+	Missense_Mutation	SNP	G	G	A	rs36093393	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	36	61	0	0.62069	0	G|0.946;A|0.054	0.054	strong	.	CKAP2L	54	.	NM_152515	exon2	c.C55T	p.L19F	CCTGAAGCTTTCT	.	PASS	Atlas-SNP
PRKCG	5582	hgsc.bcm.edu	37	19	54394965	54394965	+	Silent	SNP	T	T	C	rs3745406	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	63	132	0	0.456522	0	T|0.673;C|0.327	0.327	strong	PRKCG_ENST00000540413,NS,carcinoma,0,1	PRKCG	246	1	NM_002739	exon6	c.T567C	p.N189N	CCCCAATGGTCTC	.	PASS	Atlas-SNP
FGD6	55785	hgsc.bcm.edu	37	12	95604290	95604290	+	Missense_Mutation	SNP	T	T	C	rs10507047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	36	68	0	0.545455	0	T|0.842;C|0.158	0.158	strong	FGD6,NS,carcinoma,0,2	FGD6	127	2	NM_018351	exon2	c.A770G	p.Q257R	TCATCCTGGCAAG	.	PASS	Atlas-SNP
OR2A14	135941	hgsc.bcm.edu	37	7	143826697	143826697	+	Missense_Mutation	SNP	C	C	G	rs2961161	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	72	220	0	0.439024	0	C|0.374;G|0.626	0.626	strong	.	OR2A14	66	.	NM_001001659	exon1	c.C492G	p.S164R	CCTGAGCCTGCCC	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24832885	24832885	+	Silent	SNP	C	C	T	rs3748218	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	18	34	0	0.409091	0	C|0.774;T|0.226	0.226	strong	.	KIAA1217	235	.	NM_019590	exon19	c.C4686T	p.T1562T	CGCGACCGATGAC	.	PASS	Atlas-SNP
ZNF273	10793	hgsc.bcm.edu	37	7	64388472	64388472	+	Missense_Mutation	SNP	C	C	A	rs62455581	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	34	47	0	0.548387	0	C|0.962;A|0.038	0.038	strong	.	ZNF273	45	.	NM_021148	exon4	c.C766A	p.H256N	ATAATTCATCCTG	.	PASS	Atlas-SNP
ZNF275	10838	hgsc.bcm.edu	37	X	152613112	152613112	+	Silent	SNP	C	C	T	rs7066295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	33	39	0	1	0	C|0.293;T|0.707	0.707	strong	.	ZNF275	44	.	NM_001080485	exon4	c.C969T	p.C323C	CGCCTGCGGCCAG	.	PASS	Atlas-SNP
SLC22A20	440044	hgsc.bcm.edu	37	11	64981871	64981871	+	Silent	SNP	G	G	C	rs61742578	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	18	46	0	0.486486	0	G|0.967;C|0.033	0.033	strong	.	SLC22A20	36	.	NM_001004326	exon2	c.G456C	p.G152G	GGTGGGGGCTGCC	.	PASS	Atlas-SNP
MACROD1	28992	hgsc.bcm.edu	37	11	63767186	63767186	+	Silent	SNP	A	A	G	rs709594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	13	22	0	0.684211	0	A|0.619;G|0.381	0.381	strong	.	MACROD1	17	.	NM_014067	exon6	c.T714C	p.S238S	AGCCTGACTGGCG	.	PASS	Atlas-SNP
SLC26A8	116369	hgsc.bcm.edu	37	6	35923246	35923246	+	Missense_Mutation	SNP	T	T	C	rs2295852	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	69	119	0	0.50365	0	T|0.572;C|0.428	0.428	strong	SLC26A8,rectum,carcinoma,0,1	SLC26A8	95	1	NM_052961	exon17	c.A1915G	p.I639V	GGTTAATGGAGGA	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7247344	7247344	+	Missense_Mutation	SNP	C	C	A	rs35742417	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	42	109	1	0.494118	0.00917431	C|0.843;A|0.157	0.157	strong	RREB1,NS,carcinoma,0,1	RREB1	242	1	NM_001003699	exon12	c.C4661A	p.S1554Y	CAGACTCCCCCAA	.	scavenged	Atlas-SNP
SPIB	6689	hgsc.bcm.edu	37	19	50926265	50926265	+	Missense_Mutation	SNP	G	G	C	rs11546996	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	73	82	0	0.986486	0	G|0.413;C|0.587	0.587	strong	.	SPIB	23	.	NM_001243999	exon4	c.G310C	p.A104P	CTCCCTGCATACC	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6579354	6579354	+	Silent	SNP	G	G	C	rs16915382	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	46	100	0	0.479167	0	G|0.805;C|0.195	0.195	strong	.	DNHD1	198	.	NM_144666	exon25	c.G8829C	p.L2943L	GGCTCTGTTGGTA	.	PASS	Atlas-SNP
STIL	6491	hgsc.bcm.edu	37	1	47767914	47767914	+	Missense_Mutation	SNP	G	G	A	rs3125630	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	77	74	0	1	0	G|0.398;A|0.602	0.602	strong	.	STIL	91	.	NM_003035	exon4	c.C257T	p.A86V	TCGTCTGCTGTCA	.	PASS	Atlas-SNP
KCNK10	54207	hgsc.bcm.edu	37	14	88652389	88652389	+	Silent	SNP	C	C	T	rs3742692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	35	56	0	0.486111	0	C|0.786;T|0.214	0.214	strong	KCNK10_ENST00000319231,NS,carcinoma,0,3	KCNK10	273	3	NM_138318	exon7	c.G1122A	p.A374A	GGTGGCCGCCCGC	.	PASS	Atlas-SNP
KCTD18	130535	hgsc.bcm.edu	37	2	201355106	201355106	+	Missense_Mutation	SNP	G	G	A	rs13018579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	38	89	0	0.527778	0	G|0.849;A|0.151	0.151	strong	.	KCTD18	44	.	NM_152387	exon7	c.C998T	p.A333V	ACCAGGGCCGTGG	.	PASS	Atlas-SNP
GIMAP8	155038	hgsc.bcm.edu	37	7	150171710	150171710	+	Silent	SNP	T	T	C	rs60114833	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	49	49	0	0.98	0	T|0.704;C|0.296	0.296	strong	.	GIMAP8	136	.	NM_175571	exon4	c.T1293C	p.C431C	GCATTGTGTTTTC	.	PASS	Atlas-SNP
CARD6	84674	hgsc.bcm.edu	37	5	40841741	40841741	+	Missense_Mutation	SNP	C	C	T	rs10512747	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	56	120	0	0.528302	0	C|0.922;T|0.078	0.078	strong	.	CARD6	141	.	NM_032587	exon1	c.C257T	p.S86L	CACAGTCAGCTGC	.	PASS	Atlas-SNP
ASXL2	55252	hgsc.bcm.edu	37	2	25991713	25991713	+	Missense_Mutation	SNP	T	T	G	rs190136878	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	54	120	0	0.486486	0	T|0.999;G|0.001	0.001	strong	.	ASXL2	217	.	NM_018263	exon6	c.A529C	p.K177Q	GCTGCTTCTTCTG	.	PASS	Atlas-SNP
CNNM1	26507	hgsc.bcm.edu	37	10	101090246	101090246	+	Missense_Mutation	SNP	G	G	A	rs144944413	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	36	45	0	0.654545	0	G|0.999;A|0.001	0.001	strong	.	CNNM1	101	.	NM_020348	exon1	c.G1102A	p.A368T	ATGGCAGCCGCCT	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47848466	47848466	+	Missense_Mutation	SNP	C	C	T	rs12481791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	17	40	0	0.414634	0	C|0.988;T|0.012	0.012	strong	.	PCNT	283	.	NM_006031	exon35	c.C7652T	p.A2551V	CAGAGGCGCGCGG	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87229739	87229739	+	Missense_Mutation	SNP	C	C	T	rs4419794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	36	90	0	0.428571	0	C|0.856;T|0.144	0.144	strong	SLC7A13,NS,carcinoma,+1,1	SLC7A13	97	1	NM_138817	exon3	c.G1139A	p.R380K	CTCCGCCTTAGTA	.	PASS	Atlas-SNP
SH3RF2	153769	hgsc.bcm.edu	37	5	145442133	145442133	+	Missense_Mutation	SNP	G	G	A	rs11435	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	48	94	0	0.48	0	G|0.867;A|0.133	0.133	strong	.	SH3RF2	58	.	NM_152550	exon10	c.G2059A	p.V687I	ATGACCGTCCTAT	.	PASS	Atlas-SNP
TMEM63B	55362	hgsc.bcm.edu	37	6	44117619	44117619	+	Silent	SNP	C	C	T	rs75310630	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	42	126	0	0.392523	0	C|0.999;T|0.001	0.001	strong	.	TMEM63B	77	.	NM_018426	exon16	c.C1437T	p.F479F	GTTCTTCCCCACC	.	PASS	Atlas-SNP
C19orf35	374872	hgsc.bcm.edu	37	19	2280885	2280885	+	Missense_Mutation	SNP	G	G	A	rs55662626	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	222	102	154	0	0.459459	0	G|0.880;A|0.120	0.120	strong	C19orf35,colon,carcinoma,0,1	C19orf35	18	1	NM_198532	exon2	c.C46T	p.P16S	AGGTGGGGTTGTC	.	PASS	Atlas-SNP
DEC1	50514	hgsc.bcm.edu	37	9	118163563	118163563	+	Missense_Mutation	SNP	C	C	T	rs2269700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	40	86	0	0.512821	0	C|0.265;A|0.006	.	strong	.	DEC1	8	.	NM_017418	exon7	c.C179T	p.A60V	CTCTTGCCAGGCC	.	PASS	Atlas-SNP
SEMA4B	10509	hgsc.bcm.edu	37	15	90764219	90764219	+	Missense_Mutation	SNP	G	G	A	rs4932305	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	32	72	0	0.52459	0	G|0.755;A|0.245	0.245	strong	.	SEMA4B	51	.	NM_020210	exon6	c.G489A	p.M163I	GAACATGGAGAAC	.	PASS	Atlas-SNP
PDHX	8050	hgsc.bcm.edu	37	11	34969112	34969112	+	Missense_Mutation	SNP	A	A	G	rs11539202	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	35	63	0	0.538462	0	A|0.800;G|0.200	0.200	strong	.	PDHX	40	.	NM_003477	exon3	c.A301G	p.T101A	GTGGTTACCTTAG	.	PASS	Atlas-SNP
GSTM3	2947	hgsc.bcm.edu	37	1	110279701	110279701	+	Missense_Mutation	SNP	C	C	T	rs7483	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	114	140	0	1	0	C|0.700;T|0.300	0.300	strong	.	GSTM3	21	.	NM_000849	exon9	c.G670A	p.V224I	AGCATACAGGCTT	.	PASS	Atlas-SNP
TIRAP	114609	hgsc.bcm.edu	37	11	126162468	126162468	+	Missense_Mutation	SNP	G	G	A	rs3802813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	38	83	0	0.527778	0	G|0.936;A|0.064	0.064	strong	.	TIRAP	37	.	NM_148910	exon5	c.G164A	p.S55N	AGGACAGCCCACT	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145299809	145299809	+	Missense_Mutation	SNP	G	G	A	rs61814630	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	8	28	1	0.163265	0.0357143	.	.	weak	NBPF10_ENST00000369338,extremity,malignant_melanoma,0,3	NBPF10	221	3	NM_001039703	exon6	c.G858A	p.M286I	AGAGATGAACATT	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152277345	152277345	+	Silent	SNP	C	C	T	rs2065956	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	93	110	0	0.607843	0	C|0.843;T|0.157	0.157	strong	.	FLG	900	.	NM_002016	exon3	c.G10017A	p.Q3339Q	ACTGGCCTGACTA	.	PASS	Atlas-SNP
DYDC2	84332	hgsc.bcm.edu	37	10	82122793	82122793	+	Silent	SNP	G	G	A	rs1538818	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	78	98	0	1	0	G|0.915;A|0.085	0.085	strong	.	DYDC2	18	.	NM_001270042	exon3	c.G276A	p.E92E	GGAAGAGTATCAG	.	PASS	Atlas-SNP
LY6G6F	259215	hgsc.bcm.edu	37	6	31675765	31675765	+	Missense_Mutation	SNP	G	G	A	rs2242653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	48	87	0	0.489796	0	G|0.859;A|0.141	0.141	strong	.	LY6G6F	23	.	NM_001003693	exon3	c.G500A	p.R167K	CCGTGAGGGGCCG	.	PASS	Atlas-SNP
AQP12A	375318	hgsc.bcm.edu	37	2	241631413	241631413	+	Missense_Mutation	SNP	T	T	G	rs71428454	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	46	148	0	0.418182	0	T|0.790;G|0.210	0.210	strong	AQP12A,caecum,carcinoma,0,1	AQP12A	32	1	NM_198998	exon1	c.T83G	p.L28R	AGGCCCTGCTCCC	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77920563	77920563	+	Silent	SNP	G	G	T	rs2510045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	46	86	0	0.403509	0	G|0.761;T|0.239	0.239	strong	.	USP35	179	.	NM_020798	exon10	c.G1662T	p.P554P	CTCTCCGCCCGAG	.	PASS	Atlas-SNP
OTUD4	54726	hgsc.bcm.edu	37	4	146062585	146062585	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	3	191	0	0.017341	0	.	.	none	OTUD4,NS,carcinoma,+1,1	OTUD4	120	1	NM_001102653	exon19	c.C1834T	p.R612X	TGGCTCGATCTCC	.	scavenged	Atlas-SNP
KRTAP10-5	386680	hgsc.bcm.edu	37	21	46000398	46000398	+	Missense_Mutation	SNP	C	C	T	rs2020221	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	41	87	0	0.506173	0	C|0.669;T|0.331	0.331	strong	.	KRTAP10-5	43	.	NM_198694	exon1	c.G58A	p.D20N	AGTCGTCCACTCG	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419619	28419619	+	Missense_Mutation	SNP	C	C	T	rs141441362	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	254	43	218	0	0.169291	0	C|0.947;T|0.053	0.053	strong	.	HERC2	501	.	NM_004667	exon65	c.G9979A	p.V3327M	CATCCACAGTTGT	.	PASS	Atlas-SNP
KLF17	128209	hgsc.bcm.edu	37	1	44595426	44595426	+	Silent	SNP	G	G	A	rs2429050	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	42	33	0	1	0	G|0.699;A|0.301	0.301	strong	.	KLF17	92	.	NM_173484	exon2	c.G483A	p.S161S	AGTCTCGGCTTCC	.	PASS	Atlas-SNP
ANKRD33	341405	hgsc.bcm.edu	37	12	52284500	52284500	+	Missense_Mutation	SNP	A	A	G	rs34494292	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	11	29	0	0.578947	0	A|0.845;G|0.155	0.155	strong	.	ANKRD33	33	.	NM_182608	exon5	c.A770G	p.Q257R	TTAGCCAGCACTA	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147505116	147505116	+	Silent	SNP	G	G	A	rs3764930	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	189	183	0	0.989529	0	G|0.545;A|0.455	0.455	strong	.	SPINK5	245	.	NM_001127698	exon29	c.G2769A	p.A923A	TGAAGCGGAGGAT	.	PASS	Atlas-SNP
STRN3	29966	hgsc.bcm.edu	37	14	31425437	31425437	+	Silent	SNP	T	T	C	rs12886419	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	44	83	0	0.52381	0	T|0.773;C|0.227	0.227	strong	.	STRN3	117	.	NM_001083893	exon2	c.A294G	p.A98A	TAGAAATGCAATC	.	PASS	Atlas-SNP
PDE11A	50940	hgsc.bcm.edu	37	2	178565913	178565913	+	Missense_Mutation	SNP	T	T	C	rs17400325	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	58	127	0	0.417266	0	T|0.971;C|0.029	0.029	strong	.	PDE11A	283	.	NM_016953	exon14	c.A2180G	p.Y727C	GTTCCATAGAGTT	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	42032383	42032383	+	Missense_Mutation	SNP	C	C	G	rs17677991	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	158	0	1	0	C|0.698;G|0.302	0.302	strong	.	MGA	264	.	NM_001080541	exon14	c.C4567G	p.P1523A	TTTGTCCCAGCAA	.	PASS	Atlas-SNP
BRF1	2972	hgsc.bcm.edu	37	14	105707747	105707747	+	Silent	SNP	C	C	T	rs144658695	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	10	50	0	0.454545	0	C|0.997;T|0.003	0.003	strong	.	BRF1	102	.	NM_001519	exon6	c.G549A	p.P183P	CAGGCACGGGTCT	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43540887	43540887	+	Silent	SNP	A	A	C	rs17339479	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	141	85	0	1	0	A|0.838;C|0.162	0.162	strong	HECW1_ENST00000395891,caecum,adenoma,+1,3	HECW1	540	3	NM_015052	exon21	c.A3597C	p.R1199R	TCCCCGATGTTCA	.	PASS	Atlas-SNP
AK5	26289	hgsc.bcm.edu	37	1	77759578	77759578	+	Silent	SNP	A	A	G	rs2815311	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	79	157	0	0.568345	0	A|0.843;G|0.157	0.157	strong	.	AK5	86	.	NM_174858	exon3	c.A348G	p.A116A	GACTGCAGAGTTG	.	PASS	Atlas-SNP
TSACC	128229	hgsc.bcm.edu	37	1	156314497	156314497	+	Missense_Mutation	SNP	C	C	T	rs41265043	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	28	33	0	0.622222	0	C|0.984;T|0.016	0.016	strong	.	.	.	.	NM_144627	exon3	c.C161T	p.S54L	TGCCCTCGGGTAA	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50134099	50134099	+	Silent	SNP	T	T	C	rs17073145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	55	122	0	0.474138	0	T|0.733;C|0.267	0.267	strong	.	RCBTB1	34	.	NM_018191	exon5	c.A399G	p.V133V	ACAAGCTACTTCC	.	PASS	Atlas-SNP
AZI1	22994	hgsc.bcm.edu	37	17	79182778	79182778	+	Silent	SNP	T	T	C	rs62075318	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	99	87	0	0.99	0	T|0.621;C|0.379	0.379	strong	AZI1_ENST00000450824,NS,carcinoma,0,4	AZI1	145	4	NM_014984	exon3	c.A222G	p.R74R	GGATCTTCTAAGG	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	215848062	215848062	+	Silent	SNP	C	C	T	rs2009923	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	16	56	0	0.444444	0	C|0.826;A|0.003	.	strong	.	USH2A	1168	.	NM_206933	exon63	c.G13191A	p.E4397E	AAGGGACTCTTTA	.	PASS	Atlas-SNP
TAS1R3	83756	hgsc.bcm.edu	37	1	1268159	1268159	+	Silent	SNP	C	C	T	rs3813210	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	18	24	0	0.514286	0	C|0.874;T|0.126	0.126	strong	.	TAS1R3	39	.	NM_152228	exon3	c.C1248T	p.P416P	CTGCCCCGCGCAG	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14770658	14770658	+	Silent	SNP	G	G	T	rs17219005	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	35	112	0	0.432099	0	G|0.749;T|0.251	0.251	strong	.	FREM1	261	.	NM_144966	exon27	c.C5004A	p.I1668I	AAAGATGATCTGA	.	PASS	Atlas-SNP
DNAJB13	374407	hgsc.bcm.edu	37	11	73681090	73681090	+	Silent	SNP	C	C	T	rs2306819	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	38	85	0	0.431818	0	C|0.731;T|0.269	0.269	strong	.	DNAJB13	28	.	NM_153614	exon8	c.C882T	p.F294F	CTTCTTCGACATC	.	PASS	Atlas-SNP
FILIP1L	11259	hgsc.bcm.edu	37	3	99567247	99567247	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	491	5	397	0	0.0101833	0	.	.	none	FILIP1L_ENST00000354552,NS,lymphoid_neoplasm,-2,2	FILIP1L	154	2	NM_182909	exon5	c.A3273G	p.R1091R	TTGAGTTCGGTTA	.	scavenged	Atlas-SNP
ADRB2	154	hgsc.bcm.edu	37	5	148206473	148206473	+	Missense_Mutation	SNP	G	G	C	rs1042714	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	116	120	1	1	0.00833333	G|0.327;C|0.673	0.673	strong	.	ADRB2	42	.	NM_000024	exon1	c.G79C	p.E27Q	ACGCAGGAAAGGG	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702688	27702688	+	Silent	SNP	C	C	T	rs7087552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	49	94	0	0.5	0	C|0.764;T|0.236	0.236	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.G492A	p.E164E	GTCTTCCTCTTCG	.	PASS	Atlas-SNP
CCSER2	54462	hgsc.bcm.edu	37	10	86273249	86273249	+	Missense_Mutation	SNP	T	T	C	rs11557865	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	26	53	0	0.553191	0	T|0.798;C|0.202	0.202	strong	.	CCSER2	7	.	NM_018999	exon11	c.T2455C	p.S819P	CACAGATCACACC	.	PASS	Atlas-SNP
HPS1	3257	hgsc.bcm.edu	37	10	100179851	100179851	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	55	96	0	0.572917	0	.	.	none	.	HPS1	65	.	NM_000195	exon18	c.A1808G	p.Q603R	CCCTCCTGGAACA	.	PASS	Atlas-SNP
SLC36A3	285641	hgsc.bcm.edu	37	5	150667016	150667016	+	Missense_Mutation	SNP	T	T	C	rs978012	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	102	90	0	1	0	T|0.484;C|0.515	0.515	strong	.	SLC36A3	54	.	NM_001145017	exon7	c.A622G	p.K208E	GGGCTTTTTCCAC	.	PASS	Atlas-SNP
TMEM9	252839	hgsc.bcm.edu	37	1	201112981	201112981	+	Silent	SNP	A	A	G	rs8158	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	96	72	0	0.989691	0	A|0.282;G|0.718	0.718	strong	TMEM9,NS,carcinoma,0,1	TMEM9	12	1	NM_016456	exon5	c.T366C	p.Y122Y	CTCAGTATATGCA	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79031558	79031558	+	Missense_Mutation	SNP	G	G	A	rs62621912	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	47	105	0	0.415929	0	A|0.166;C|0.000;G|0.834	0.166	strong	.	CMYA5	643	.	NM_153610	exon2	c.G6970A	p.G2324S	CTAATCGGTGAGA	.	PASS	Atlas-SNP
RGS12	6002	hgsc.bcm.edu	37	4	3318726	3318726	+	Missense_Mutation	SNP	A	A	T	rs16844152	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	27	70	0	0.442623	0	A|0.961;T|0.039	0.039	strong	.	RGS12	128	.	NM_002926	exon2	c.A829T	p.M277L	AAGATCATGCACG	.	PASS	Atlas-SNP
ATXN1	6310	hgsc.bcm.edu	37	6	16328068	16328068	+	Silent	SNP	T	T	C	rs2072736	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	17	47	0	0.472222	0	T|0.864;C|0.136	0.136	strong	ATXN1,middle_lobe,carcinoma,-1,1	ATXN1	117	1	NM_001128164	exon7	c.A474G	p.A158A	GGCCACTGCACTG	.	PASS	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	37	15	51791559	51791559	+	Missense_Mutation	SNP	A	A	G	rs12102203	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	58	100	0	0.471545	0	A|0.527;G|0.472	0.472	strong	DMXL2,NS,carcinoma,0,1	DMXL2	262	1	NM_001174116	exon18	c.T3862C	p.S1288P	CATTAGAACTATC	.	PASS	Atlas-SNP
OR52I1	390037	hgsc.bcm.edu	37	11	4616119	4616119	+	Missense_Mutation	SNP	T	T	C	rs61997192	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	74	205	0	0.430233	0	T|0.967;C|0.033	0.033	strong	.	OR52I1	29	.	NM_001005169	exon1	c.T851C	p.L284P	CTGACCTGTACGT	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632744	32632744	+	Silent	SNP	C	C	T	rs1049082	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	32	102	0	0.914286	0	C|0.668;T|0.332	0.332	strong	.	HLA-DQB1	15	.	NM_002123	exon2	c.G210A	p.A70A	GAAGCGCGCGTAC	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45016116	45016116	+	Missense_Mutation	SNP	A	A	G	rs8100718	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	62	123	0	0.442857	0	A|0.633;G|0.366	0.366	strong	CEACAM20,NS,carcinoma,0,1	CEACAM20	31	1	NM_001102600	exon10	c.T1534C	p.C512R	TATTGCAATACTC	.	PASS	Atlas-SNP
ERCC2	2068	hgsc.bcm.edu	37	19	45867259	45867259	+	Missense_Mutation	SNP	C	C	T	rs1799793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	11	11	3	0	1	0	C|0.804;T|0.196	0.196	strong	.	ERCC2	78	.	NM_000400	exon10	c.G934A	p.D312N	CTTCGTCGGGCAG	.	PASS	Atlas-SNP
TEX14	56155	hgsc.bcm.edu	37	17	56636908	56636908	+	Silent	SNP	T	T	C	rs9903050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	441	207	382	0	0.469388	0	T|0.759;C|0.241	0.241	strong	.	TEX14	343	.	NM_001201457	exon31	c.A4311G	p.K1437K	TTGATCTTTGATA	.	PASS	Atlas-SNP
FAM8A1	51439	hgsc.bcm.edu	37	6	17601213	17601213	+	Silent	SNP	C	C	T	rs61736671	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	12	6	7	0	0.5	0	C|0.991;T|0.009	0.009	strong	.	FAM8A1	26	.	NM_016255	exon1	c.C573T	p.A191A	AGCTGCCGGCATC	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17108094	17108094	+	Missense_Mutation	SNP	C	C	T	rs61745857	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	55	154	1	0.339506	0.00649351	C|0.909;T|0.091	0.091	strong	CPAMD8,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	CPAMD8	192	1	NM_015692	exon11	c.G1063A	p.V355I	CAGGGACGTCCGC	.	scavenged	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70798541	70798541	+	Missense_Mutation	SNP	A	A	G	rs36009281	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	54	107	0	0.524272	0	A|0.949;G|0.051	0.051	strong	.	BDP1	204	.	NM_018429	exon15	c.A2164G	p.K722E	GAAAGAAAAGAAA	.	PASS	Atlas-SNP
ABCB11	8647	hgsc.bcm.edu	37	2	169830328	169830328	+	Missense_Mutation	SNP	A	A	G	rs2287622	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	141	128	1	0.992958	0.0078125	T|0.006;G|0.594;C|0.006;A|0.395	0.594	strong	.	ABCB11	136	.	NM_003742	exon13	c.T1331C	p.V444A	TTAATGACCATGT	.	PASS	Atlas-SNP
USP16	10600	hgsc.bcm.edu	37	21	30408670	30408670	+	Missense_Mutation	SNP	A	A	T	rs2274802	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	52	94	0	0.571429	0	A|0.804;T|0.196	0.196	strong	.	USP16	65	.	NM_006447	exon5	c.A423T	p.Q141H	AAAACAAGCCAGC	.	PASS	Atlas-SNP
ZFP28	140612	hgsc.bcm.edu	37	19	57065189	57065189	+	Silent	SNP	T	T	C	rs145011	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	47	95	0	0.460784	0	T|0.798;C|0.202	0.202	strong	ZFP28,NS,carcinoma,0,1	ZFP28	99	1	NM_020828	exon8	c.T1035C	p.F345F	TGTGTTTGGAAGG	.	PASS	Atlas-SNP
OR9G9	504191	hgsc.bcm.edu	37	11	56468638	56468638	+	Missense_Mutation	SNP	G	G	T	rs7121276	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	53	108	0	0.420635	0	G|0.877;T|0.123	0.123	strong	.	.	.	.	NM_001013358	exon1	c.G775T	p.A259S	ATCTACGCTCTCC	.	PASS	Atlas-SNP
CAPN2	824	hgsc.bcm.edu	37	1	223954080	223954080	+	Missense_Mutation	SNP	A	A	C	rs17599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	43	112	0	0.467391	0	A|0.649;C|0.175;G|0.031;T|0.145	0.175	strong	CAPN2,NS,carcinoma,0,1	CAPN2	69	1	NM_001748	exon16	c.A1702C	p.K568Q	GATATCAAGTCAG	.	PASS	Atlas-SNP
FAM71E2	284418	hgsc.bcm.edu	37	19	55870835	55870835	+	Silent	SNP	A	A	C	rs113307911	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	29	68	0	0.527273	0	A|0.953;C|0.047	0.047	strong	.	FAM71E2	41	.	NM_001145402	exon9	c.T1401G	p.A467A	GGATGGAGCAGGT	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	847743	847743	+	Missense_Mutation	SNP	C	C	T	rs2294451	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	33	82	0	0.532258	0	C|0.833;T|0.167	0.167	strong	.	CHTF18	52	.	NM_022092	exon21	c.C2783T	p.P928L	CAGTCCCGAGTGC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076950	9076950	+	Missense_Mutation	SNP	C	C	A	rs2547076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	81	162	0	0.457627	0	C|0.750;A|0.250	0.250	strong	.	MUC16	4315	.	NM_024690	exon3	c.G10496T	p.R3499M	TTGGCCCTCAGAG	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62675673	62675673	+	Missense_Mutation	SNP	G	G	T	rs200789118		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	23	101	0	0.333333	0	.	.	weak	.	L1TD1	114	.	NM_001164835	exon5	c.G1227T	p.E409D	GGAAGAGCCCTCA	.	PASS	Atlas-SNP
CDCA2	157313	hgsc.bcm.edu	37	8	25364960	25364960	+	Silent	SNP	A	A	G	rs6990278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	27	38	0	0.586957	0	A|0.800;G|0.200	0.200	strong	.	CDCA2	78	.	NM_152562	exon15	c.A2778G	p.T926T	ATGTACATTTGAC	.	PASS	Atlas-SNP
PDCD1	5133	hgsc.bcm.edu	37	2	242793273	242793273	+	Silent	SNP	A	A	G	rs2227981	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	50	75	0	0.526316	0	A|0.409;G|0.591	0.591	strong	.	PDCD1	31	.	NM_005018	exon5	c.T804C	p.A268A	GCCGTCAGCTGAG	.	PASS	Atlas-SNP
PCDH9	5101	hgsc.bcm.edu	37	13	67800935	67800935	+	Silent	SNP	G	G	A	rs9571740	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	43	127	0	0.401869	0	G|0.559;A|0.441	0.441	strong	.	PCDH9	252	.	NM_203487	exon2	c.C1638T	p.D546D	CCCATTGTCCCTG	.	PASS	Atlas-SNP
C1QTNF6	114904	hgsc.bcm.edu	37	22	37578579	37578579	+	Silent	SNP	C	C	T	rs229519	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	30	46	0	0.555556	0	C|0.580;T|0.420	0.420	strong	C1QTNF6,NS,adenoma,0,2	C1QTNF6	32	2	NM_182486	exon3	c.G486A	p.T162T	GAGCAGCGTCTGG	.	PASS	Atlas-SNP
STK36	27148	hgsc.bcm.edu	37	2	219553423	219553423	+	Missense_Mutation	SNP	C	C	G	rs45586733	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	86	148	0	0.502924	0	C|0.990;G|0.010	0.010	strong	.	STK36	111	.	NM_015690	exon12	c.C1384G	p.L462V	CAGATCCTGAAAG	.	PASS	Atlas-SNP
LONP1	9361	hgsc.bcm.edu	37	19	5692192	5692192	+	Silent	SNP	C	C	T	rs1062373	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	49	105	0	0.471154	0	C|0.980;T|0.020	0.020	strong	.	LONP1	66	.	NM_004793	exon18	c.A2731A	p.I911I	GCAGGACGATGCA	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42363043	42363043	+	Missense_Mutation	SNP	T	T	G	rs74678783	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	29	55	0	0.47541	0	T|0.928;G|0.072	0.072	strong	.	PLA2G4D	72	.	NM_178034	exon18	c.A1915C	p.K639Q	GCTCCTTGGGGGT	.	PASS	Atlas-SNP
FAM154A	158297	hgsc.bcm.edu	37	9	18950932	18950932	+	Silent	SNP	C	C	T	rs149656581	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	75	131	0	0.520833	0	C|0.997;T|0.003	0.003	strong	.	FAM154A	61	.	NM_153707	exon2	c.G42A	p.R14R	GTGATGCCGCCTA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509941	195509941	+	Missense_Mutation	SNP	A	A	C	rs199849290	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	13	135	2	0.0890411	0.0148148	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.T8510G	p.I2837S	GAAGGGATGGTGA	.	scavenged	Atlas-SNP
FAM115A	9747	hgsc.bcm.edu	37	7	143573195	143573195	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	2	124	0	0.0263158	0	.	.	none	FAM115A,NS,carcinoma,-1,1	FAM115A	26	1	NM_001206938	exon2	c.G507A	p.T169T	AGGGAACGTGAAC	.	scavenged	Atlas-SNP
TBX15	6913	hgsc.bcm.edu	37	1	119469188	119469188	+	Missense_Mutation	SNP	G	G	T	rs10494217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	72	100	0	0.525547	0	G|0.891;T|0.109	0.109	strong	.	TBX15	95	.	NM_152380	exon3	c.C148A	p.H50N	GCTGATGTGGATC	.	PASS	Atlas-SNP
TMPRSS6	164656	hgsc.bcm.edu	37	22	37480797	37480797	+	Silent	SNP	C	C	T	rs2111833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	37	67	0	0.493333	0	C|0.669;T|0.331	0.331	strong	TMPRSS6_ENST00000442782,NS,carcinoma,-1,2	TMPRSS6	99	2	NM_153609	exon9	c.G1083A	p.S361S	TTGGGGCGAGTAG	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117934	117934	+	Silent	SNP	C	C	G	rs62533589	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	58	152	0	0.367089	0	C|0.901;G|0.099	0.099	strong	.	FOXD4	75	.	NM_207305	exon1	c.G186C	p.G62G	CGCAACCCCGCCC	.	PASS	Atlas-SNP
PPAPDC1A	196051	hgsc.bcm.edu	37	10	122348969	122348969	+	Silent	SNP	C	C	T	rs1047369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	52	89	0	0.536082	0	C|0.840;T|0.160	0.160	strong	.	PPAPDC1A	48	.	NM_001030059	exon7	c.C771T	p.S257S	TGACAGCGCACCC	.	PASS	Atlas-SNP
NRXN2	9379	hgsc.bcm.edu	37	11	64418900	64418900	+	Silent	SNP	G	G	A	rs526338	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	124	108	1	1	0.00925926	G|0.542;A|0.458	0.458	strong	.	NRXN2	247	.	NM_015080	exon14	c.C2745T	p.I915I	GGCCACGATGGCA	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557504	32557504	+	Missense_Mutation	SNP	G	G	A	rs17879020	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	41	175	0	0.267974	0	G|0.978;A|0.022	0.022	strong	.	HLA-DRB1	41	.	NM_002124	exon1	c.C16T	p.L6F	CAGGGAGCTTCAG	.	PASS	Atlas-SNP
SETDB2	83852	hgsc.bcm.edu	37	13	50050620	50050620	+	Missense_Mutation	SNP	A	A	G	rs7998427	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	51	50	0	1	0	A|0.271;G|0.728	0.728	strong	.	SETDB2	48	.	NM_031915	exon7	c.A350G	p.E117G	CAACAGAAAATAA	.	PASS	Atlas-SNP
C20orf26	26074	hgsc.bcm.edu	37	20	20079360	20079360	+	Missense_Mutation	SNP	A	A	G	rs6075614	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	116	198	0	0.582915	0	A|0.909;G|0.091	0.091	strong	.	C20orf26	188	.	NM_015585	exon8	c.A761G	p.H254R	TGCTGCATGAGTG	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11332570	11332570	+	Silent	SNP	T	T	A	rs3810307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	57	101	0	0.495652	0	T|0.723;A|0.277	0.277	strong	.	DOCK6	104	.	NM_020812	exon28	c.A3507T	p.L1169L	AATCGATAGCAGT	.	PASS	Atlas-SNP
RHBG	57127	hgsc.bcm.edu	37	1	156351699	156351699	+	Missense_Mutation	SNP	G	G	A	rs3748569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	290	288	185	0	0.993103	0	G|0.472;A|0.528	0.528	strong	.	RHBG	133	.	NM_020407	exon6	c.G943A	p.G315R	TTGGCTGGGACTG	.	PASS	Atlas-SNP
NAT2	10	hgsc.bcm.edu	37	8	18257994	18257994	+	Silent	SNP	C	C	T	rs1799929	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	27	51	0	0.586957	0	C|0.677;T|0.323	0.323	strong	.	NAT2	34	.	NM_000015	exon2	c.C481T	p.L161L	TGGTACCTGGACC	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037560	33037560	+	Silent	SNP	G	G	A	rs1042176	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	48	112	0	0.369231	0	G|0.802;A|0.198	0.198	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.C204T	p.D68D	CTTCTTGTCCAGA	.	PASS	Atlas-SNP
GPAM	57678	hgsc.bcm.edu	37	10	113935379	113935379	+	Missense_Mutation	SNP	T	T	C	rs10787428	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	38	66	0	0.59375	0	C|0.558;N|0.000	0.558	strong	.	GPAM	68	.	NM_001244949	exon6	c.A392G	p.E131G	ACATTTTCAGTCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9065203	9065203	+	Missense_Mutation	SNP	T	T	C	rs62118307	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	56	113	0	0.523364	0	T|0.848;C|0.152	0.152	strong	.	MUC16	4315	.	NM_024690	exon3	c.A22243G	p.S7415G	AGTGGCTACTTGC	.	PASS	Atlas-SNP
CTU2	348180	hgsc.bcm.edu	37	16	88781614	88781614	+	Missense_Mutation	SNP	G	G	C	rs1058158	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	23	42	0	0.621622	0	C|0.228;G|0.772;T|0.000	0.228	strong	.	CTU2	66	.	NM_001012762	exon14	c.G1444C	p.G482R	GATCCGGGACTGT	.	PASS	Atlas-SNP
RRP36	88745	hgsc.bcm.edu	37	6	42992808	42992808	+	Silent	SNP	T	T	C	rs3749904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	30	77	0	0.535714	0	T|0.691;C|0.309	0.309	strong	.	RRP36	20	.	NM_033112	exon2	c.T216C	p.N72N	TGGAAATAGTCCT	.	PASS	Atlas-SNP
BRSK2	9024	hgsc.bcm.edu	37	11	1477642	1477642	+	Missense_Mutation	SNP	G	G	C	rs33996815	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	55	75	0	0.585106	0	G|0.997;C|0.003	0.003	strong	.	BRSK2	97	.	NM_001256630	exon17	c.G1871C	p.G624A	CCACGGGGGGGCC	.	PASS	Atlas-SNP
SZT2	23334	hgsc.bcm.edu	37	1	43909129	43909129	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	33	93	0	0.407407	0	.	.	none	SZT2_ENST00000562955,NS,carcinoma,-1,3	SZT2	383	3	NM_015284	exon60	c.C8435T	p.S2812F	AGACCTCTGGACC	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109665242	109665242	+	Missense_Mutation	SNP	G	G	A	rs60293430	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	38	67	0	0.520548	0	G|0.932;A|0.068	0.068	strong	.	ACACB	330	.	NM_001093	exon27	c.G3949A	p.G1317S	CCGGACGGCACCT	.	PASS	Atlas-SNP
DHRS4	10901	hgsc.bcm.edu	37	14	24424420	24424420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	15	87	0	0.114504	0	.	.	none	DHRS4,NS,carcinoma,0,5	DHRS4	22	5	NM_021004	exon2	c.C305T	p.T102M	TGGCCACGGTGAG	.	scavenged	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56766435	56766435	+	Silent	SNP	C	C	G	rs3732511	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	32	69	0	0.380952	0	C|0.827;G|0.173	0.173	strong	.	ARHGEF3	128	.	NM_001128615	exon12	c.G1155C	p.L385L	TTGGAACAGGAAA	.	PASS	Atlas-SNP
TBATA	219793	hgsc.bcm.edu	37	10	72536936	72536936	+	Silent	SNP	A	A	G	rs2254433	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	26	41	0	0.440678	0	A|0.710;G|0.290	0.290	strong	C10orf27,NS,carcinoma,-2,1	.	.	1	NM_152710	exon7	c.T663C	p.A221A	GAGGAAAGCCTGG	.	PASS	Atlas-SNP
SLC18A1	6570	hgsc.bcm.edu	37	8	20038466	20038466	+	Missense_Mutation	SNP	T	T	G	rs2270641	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	15	31	1	0.517241	0.0322581	A|0.013;C|0.004	.	strong	SLC18A1,NS,lymphoid_neoplasm,0,1	SLC18A1	68	1	NM_001142324	exon3	c.A10C	p.T4P	GAATGGTCCGGAG	.	scavenged	Atlas-SNP
MTMR7	9108	hgsc.bcm.edu	37	8	17198953	17198953	+	Silent	SNP	T	T	C	rs4921756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	46	61	0	1	0	T|0.909;C|0.091	0.091	strong	.	MTMR7	75	.	NM_004686	exon6	c.A651G	p.L217L	GTCCTCTAGGCAC	.	PASS	Atlas-SNP
MMP14	4323	hgsc.bcm.edu	37	14	23312594	23312594	+	Missense_Mutation	SNP	G	G	A	rs1042704	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	19	43	0	0.365385	0	G|0.873;A|0.127	0.127	strong	.	MMP14	40	.	NM_004995	exon5	c.G817A	p.D273N	CTGCCCGATGATG	.	PASS	Atlas-SNP
OR10A2	341276	hgsc.bcm.edu	37	11	6891704	6891704	+	Missense_Mutation	SNP	T	T	C	rs10839632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	52	110	0	0.530612	0	T|0.723;C|0.277	0.277	strong	.	OR10A2	55	.	NM_001004460	exon1	c.T719C	p.I240T	TCTATATATCATT	.	PASS	Atlas-SNP
NME4	4833	hgsc.bcm.edu	37	16	450309	450309	+	Silent	SNP	C	C	T	rs5841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	17	48	0	0.435897	0	C|0.595;T|0.405	0.405	strong	.	NME4	9	.	NM_005009	exon5	c.C531T	p.D177D	GGCAGACGGGGGC	.	PASS	Atlas-SNP
PGLYRP3	114771	hgsc.bcm.edu	37	1	153279696	153279696	+	Missense_Mutation	SNP	C	C	T	rs55991125	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	33	74	0	0.354839	0	C|0.967;T|0.033	0.033	strong	.	PGLYRP3	55	.	NM_052891	exon2	c.G103A	p.A35T	TGCAGGCGAGCGG	.	PASS	Atlas-SNP
CPA6	57094	hgsc.bcm.edu	37	8	68396915	68396915	+	Missense_Mutation	SNP	T	T	C	rs17343819	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	58	111	1	0.508772	0.00900901	T|0.893;C|0.107	0.107	strong	CPA6,colon,carcinoma,-1,1	CPA6	69	1	NM_020361	exon7	c.A746G	p.N249S	CTTACATTGGTCC	.	scavenged	Atlas-SNP
AASDHPPT	60496	hgsc.bcm.edu	37	11	105962172	105962172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	29	101	0	0.318681	0	.	.	none	.	AASDHPPT	40	.	NM_015423	exon4	c.G661A	p.D221N	TTCCTGGATGGAG	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51917968	51917968	+	Silent	SNP	T	T	G	rs4715271	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	47	83	0	0.534091	0	T|0.921;G|0.079	0.079	strong	PKHD1_ENST00000340994,NS,malignant_melanoma,-1,4	PKHD1	927	4	NM_170724	exon21	c.A2046C	p.P682P	CAGCACTGGGGAG	.	PASS	Atlas-SNP
ABCC10	89845	hgsc.bcm.edu	37	6	43400050	43400050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	24	63	0	0.444444	0	.	.	none	.	ABCC10	118	.	NM_001198934	exon3	c.C332T	p.A111V	CTGTGGCCTGGAT	.	PASS	Atlas-SNP
CNOT6L	246175	hgsc.bcm.edu	37	4	78697538	78697538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	32	79	0	0.405063	0	.	.	none	.	CNOT6L	57	.	NM_144571	exon2	c.G14A	p.G5E	GGCATCCCTATTA	.	PASS	Atlas-SNP
ANO3	63982	hgsc.bcm.edu	37	11	26656563	26656563	+	Silent	SNP	C	C	T	rs7946841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	92	79	0	1	0	C|0.652;T|0.348	0.348	strong	.	ANO3	145	.	NM_031418	exon20	c.C1989T	p.F663F	CAGATTCGTAGGC	.	PASS	Atlas-SNP
TBC1D10A	83874	hgsc.bcm.edu	37	22	30689998	30689998	+	Silent	SNP	G	G	A	rs11089442	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	92	148	0	0.481675	0	G|0.855;A|0.145	0.145	strong	.	TBC1D10A	49	.	NM_001204240	exon7	c.C828T	p.L276L	CATATAGAGGAGC	.	PASS	Atlas-SNP
TAF1C	9013	hgsc.bcm.edu	37	16	84213434	84213434	+	Missense_Mutation	SNP	A	A	T	rs2230129	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	89	109	1	1	0.00917431	A|0.640;T|0.360	0.360	strong	.	TAF1C	60	.	NM_005679	exon14	c.T1723A	p.L575M	AGGGCAAGGGCGG	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121513570	121513570	+	Missense_Mutation	SNP	G	G	T	rs11980387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	33	51	0	0.589286	0	G|0.968;T|0.032	0.032	strong	.	PTPRZ1	605	.	NM_001206838	exon1	c.G17T	p.R6L	TAAAGCGTTTCCT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911296	29911296	+	Missense_Mutation	SNP	G	G	A	rs41559916	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	22	121	0	0.176	0	A|0.146;G|0.854	0.146	strong	HLA-A,NS,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon3	c.G595A	p.G199R	GAGAACGGGAAGG	.	PASS	Atlas-SNP
DHRS4L1	728635	hgsc.bcm.edu	37	14	24507116	24507116	+	Missense_Mutation	SNP	G	G	A	rs55933233	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	63	154	0	0.398734	0	G|0.983;A|0.017	0.017	strong	.	.	.	.	NM_001082488	exon2	c.G293A	p.R98Q	GGGAGCGGCTGGT	.	PASS	Atlas-SNP
NDUFAF1	51103	hgsc.bcm.edu	37	15	41689232	41689232	+	Missense_Mutation	SNP	C	C	T	rs1899	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	43	90	0	0.488636	0	C|0.825;T|0.175	0.175	strong	.	NDUFAF1	39	.	NM_016013	exon2	c.G26A	p.R9H	GTACCACGCAGCA	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31116220	31116220	+	Silent	SNP	G	G	A	rs130070	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	50	108	0	0.454545	0	G|0.871;A|0.129	0.129	strong	.	CCHCR1	68	.	NM_001105564	exon10	c.C1542T	p.A514A	CTCCTCGGCTGAG	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102105566	102105566	+	Silent	SNP	G	G	A	rs79978502	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	59	65	0	0.495798	0	A|0.043;C|0.000;G|0.957	0.043	strong	.	LRWD1	41	.	NM_152892	exon1	c.G39A	p.G13G	GCGCGGGCGCCCC	.	PASS	Atlas-SNP
GJA9	81025	hgsc.bcm.edu	37	1	39340607	39340607	+	Silent	SNP	A	A	G	rs16825625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	74	130	1	0.445783	0.00769231	A|0.929;G|0.071	0.071	strong	GJA9,NS,carcinoma,-1,1	GJA9	55	1	NM_030772	exon2	c.T1164C	p.R388R	AATAGAACGGTGA	.	scavenged	Atlas-SNP
OR2G3	81469	hgsc.bcm.edu	37	1	247769752	247769752	+	Missense_Mutation	SNP	A	A	G	rs61730407	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	44	99	0	0.415094	0	A|0.629;G|0.371	0.371	strong	.	OR2G3	108	.	NM_001001914	exon1	c.A865G	p.I289V	CCTATCATCTATA	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4026944	4026944	+	Silent	SNP	C	C	G	rs7785899	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	62	84	0	0.579439	0	C|0.566;G|0.434	0.434	strong	.	SDK1	361	.	NM_152744	exon14	c.C2121G	p.L707L	GGAGCTCTCTGAA	.	PASS	Atlas-SNP
SLC18B1	116843	hgsc.bcm.edu	37	6	133118214	133118214	+	Silent	SNP	C	C	T	rs34688576	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	50	100	0	0.458716	0	C|0.907;T|0.093	0.093	strong	C6orf192,NS,malignant_melanoma,-1,2	.	.	2	NM_052831	exon2	c.G90A	p.S30S	TTCTCTCGAAAGC	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50123649	50123649	+	Silent	SNP	G	G	A	rs3751383	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	44	82	0	0.517647	0	G|0.732;A|0.268	0.268	strong	.	RCBTB1	34	.	NM_018191	exon9	c.C990T	p.D330D	CACGTCGTCGGTG	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136268912	136268912	+	Silent	SNP	A	A	G	rs28510482	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	30	58	0	0.483871	0	A|0.830;G|0.170	0.170	strong	.	C9orf96	77	.	NM_153710	exon15	c.A1563G	p.A521A	AATGGCAGAAGCC	.	PASS	Atlas-SNP
CCZ1B	221960	hgsc.bcm.edu	37	7	6859402	6859402	+	Silent	SNP	G	G	A	rs200223833	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	877	293	503	0	0.334094	0	G|0.921;A|0.079	0.079	strong	C7orf28B,NS,carcinoma,0,2	.	.	2	NM_198097	exon7	c.C693T	p.L231L	CCAGATGAGCTGA	.	scavenged	Atlas-SNP
KRTAP16-1	100505753	hgsc.bcm.edu	37	17	39464046	39464046	+	Missense_Mutation	SNP	G	G	C	rs2074286	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	43	79	0	0.511905	0	G|0.675;C|0.325	0.325	strong	.	KRTAP16-1	12	.	NM_001146182	exon1	c.C1460G	p.A487G	CAGGGAGCCTCTT	.	PASS	Atlas-SNP
ZNF19	7567	hgsc.bcm.edu	37	16	71509634	71509634	+	Silent	SNP	G	G	C	rs2288488	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	31	51	0	0.508197	0	G|0.765;C|0.235	0.235	strong	.	ZNF19	46	.	NM_006961	exon6	c.C816G	p.P272P	CTCATAGGGTTTC	.	PASS	Atlas-SNP
SLC36A2	153201	hgsc.bcm.edu	37	5	150696447	150696447	+	Silent	SNP	C	C	T	rs369907	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	26	83	0	0.371429	0	C|0.415;T|0.585	0.585	strong	.	SLC36A2	71	.	NM_181776	exon10	c.G1383A	p.Q461Q	CAGGGCCTGGTAG	.	PASS	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	37	5	7897319	7897319	+	Silent	SNP	G	G	A	rs1802059	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	89	112	0	1	0	G|0.703;A|0.297	0.297	strong	MTRR,NS,carcinoma,+1,1	MTRR	74	1	NM_024010	exon14	c.G1992A	p.A664A	GGTGGCGAGAATC	.	PASS	Atlas-SNP
GRAMD1C	54762	hgsc.bcm.edu	37	3	113634682	113634682	+	Missense_Mutation	SNP	A	A	C	rs78547874	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	47	103	0	0.373016	0	A|0.995;C|0.005	0.005	strong	.	GRAMD1C	71	.	NM_017577	exon10	c.A1087C	p.I363L	AATATAATAGGTT	.	PASS	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	37	4	57215677	57215677	+	Missense_Mutation	SNP	G	G	A	rs3796544	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	99	136	0	0.99	0	G|0.679;A|0.321	0.321	strong	AASDH,NS,carcinoma,0,3	AASDH	101	3	NM_181806	exon11	c.C2240T	p.A747V	CCTATCGCAGGTT	.	PASS	Atlas-SNP
ATP2B2	491	hgsc.bcm.edu	37	3	10443827	10443827	+	Silent	SNP	G	G	C	rs13084776	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	32	52	0	0.561404	0	G|0.823;C|0.177	0.177	strong	.	ATP2B2	304	.	NM_001683	exon4	c.C603G	p.V201V	GATCTGGACCACC	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46655948	46655948	+	Missense_Mutation	SNP	T	T	C	rs6008384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	55	89	0	0.539216	0	T|0.721;C|0.279	0.279	strong	.	PKDREJ	195	.	NM_006071	exon1	c.A3272G	p.N1091S	TTGTCATTGAGCT	.	PASS	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7435486	7435486	+	Missense_Mutation	SNP	G	G	T	rs61738677	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	28	64	0	0.538462	0	G|0.900;T|0.100	0.100	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.C1121A	p.A374E	TGGACTGCCCGGG	.	PASS	Atlas-SNP
SERPINI2	5276	hgsc.bcm.edu	37	3	167159968	167159968	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	36	46	0	0.455696	0	.	.	none	.	SERPINI2	85	.	NM_001012303	exon10	c.A1177G	p.I393V	ACAGAATTGATTC	.	PASS	Atlas-SNP
SLC26A8	116369	hgsc.bcm.edu	37	6	35960390	35960390	+	Missense_Mutation	SNP	C	C	T	rs17707331	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	23	45	0	0.46	0	C|0.898;N|0.000	.	strong	.	SLC26A8	95	.	NM_052961	exon6	c.G689A	p.S230N	TAAGCACTCATTG	.	PASS	Atlas-SNP
CYP2B6	1555	hgsc.bcm.edu	37	19	41522715	41522715	+	Missense_Mutation	SNP	C	C	T	rs3211371	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	27	49	0	0.490909	0	C|0.933;T|0.067	0.067	strong	CYP2B6,NS,carcinoma,-1,1	CYP2B6	79	1	NM_000767	exon9	c.C1459T	p.R487C	CAGATCCGCTTCC	.	PASS	Atlas-SNP
IGDCC4	57722	hgsc.bcm.edu	37	15	65688088	65688088	+	Missense_Mutation	SNP	C	C	A	rs201037111	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	17	26	0	0.485714	0	.	.	weak	.	IGDCC4	95	.	NM_020962	exon7	c.G1411T	p.G471C	ACGTACCCCGTGC	.	PASS	Atlas-SNP
EPX	8288	hgsc.bcm.edu	37	17	56270442	56270442	+	Missense_Mutation	SNP	A	A	G	rs11079339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	34	72	0	0.465753	0	A|0.876;G|0.124	0.124	strong	.	EPX	95	.	NM_000502	exon2	c.A120G	p.I40M	CTGCATAGCAGAG	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80387766	80387766	+	Silent	SNP	C	C	T	rs1058425	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	46	90	0	0.597403	0	C|0.633;T|0.367	0.367	strong	.	SEMA3C	106	.	NM_006379	exon15	c.G1524A	p.Q508Q	AGATACCTGGGAA	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629889	32629889	+	Silent	SNP	G	G	A	rs1049087	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	14	105	0	0.318182	0	G|0.576;A|0.424	0.424	strong	HLA-DQB1,colon,carcinoma,-1,1	HLA-DQB1	15	1	NM_002123	exon3	c.C516T	p.A172A	AACGCCGGCTGTC	.	PASS	Atlas-SNP
MYO1C	4641	hgsc.bcm.edu	37	17	1370542	1370542	+	Silent	SNP	C	C	A	rs2302458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	65	0	0.5	0	C|0.904;A|0.096	0.096	strong	.	MYO1C	57	.	NM_001080779	exon31	c.G3159T	p.L1053L	CACAGCCAGGTGC	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110397780	110397780	+	Missense_Mutation	SNP	A	A	G	rs62508075	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	16	31	0	0.410256	0	A|0.975;G|0.025	0.025	strong	.	PKHD1L1	522	.	NM_177531	exon6	c.A490G	p.I164V	ATAACAATCCAAG	.	PASS	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	37	15	52635394	52635394	+	Missense_Mutation	SNP	T	T	A	rs61731219	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	36	67	0	0.514286	0	T|0.955;A|0.045	0.045	strong	.	MYO5A	145	.	NM_000259	exon31	c.A3960T	p.R1320S	AGATGATCTTCCA	.	PASS	Atlas-SNP
UGT1A6	54578	hgsc.bcm.edu	37	2	234601669	234601669	+	Missense_Mutation	SNP	T	T	G	rs6759892	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	103	195	0	0.504902	0	G|0.364;N|0.000	0.364	strong	.	UGT1A6	63	.	NM_001072	exon1	c.T19G	p.S7A	CTTCGCTCATTTC	.	PASS	Atlas-SNP
LNP1	348801	hgsc.bcm.edu	37	3	100170598	100170598	+	Silent	SNP	C	C	T	rs78633312	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	15	95	0	0.10274	0	C|0.817;T|0.183	0.183	strong	.	LNP1	26	.	NM_001085451	exon3	c.C192T	p.C64C	TGACTGCCATCCT	.	PASS	Atlas-SNP
TMEM30A	55754	hgsc.bcm.edu	37	6	75994151	75994151	+	Silent	SNP	A	A	G	rs240374	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	23	61	0	0.365079	0	A|0.828;G|0.172	0.172	strong	.	TMEM30A	40	.	NM_001143958	exon1	c.T204C	p.I68I	GACAAAAATGCCA	.	PASS	Atlas-SNP
CASR	846	hgsc.bcm.edu	37	3	122003757	122003757	+	Missense_Mutation	SNP	G	G	T	rs1801725	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	267	145	197	0	0.543071	0	G|0.904;T|0.096	0.096	strong	.	CASR	190	.	NM_001178065	exon7	c.G2986T	p.A996S	AAGAACGCCATGG	.	PASS	Atlas-SNP
FAM166B	730112	hgsc.bcm.edu	37	9	35562549	35562549	+	Silent	SNP	G	G	A	rs755774	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	22	38	0	0.478261	0	G|0.653;A|0.347	0.347	strong	.	FAM166B	19	.	NM_001164310	exon5	c.C567T	p.C189C	GCGGGCGCAGGGC	.	PASS	Atlas-SNP
PBX4	80714	hgsc.bcm.edu	37	19	19680276	19680276	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	49	104	0	0.426087	0	.	.	none	.	PBX4	34	.	NM_025245	exon5	c.C750T	p.G250G	GAGGCCGCCCTTC	.	PASS	Atlas-SNP
INHA	3623	hgsc.bcm.edu	37	2	220439678	220439678	+	Silent	SNP	C	C	T	rs12720063	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	43	74	0	0.488636	0	C|0.826;T|0.174	0.174	strong	.	INHA	30	.	NM_002191	exon2	c.C531T	p.A177A	CTGGGCCGTGCTG	.	PASS	Atlas-SNP
C4orf21	55345	hgsc.bcm.edu	37	4	113553098	113553098	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	4	77	0	0.0454545	0	.	.	none	.	C4orf21	223	.	NM_018392	exon3	c.C90T	p.H30H	TCCTAAGTGAGTG	.	PASS	Atlas-SNP
OR4S2	219431	hgsc.bcm.edu	37	11	55418693	55418693	+	Missense_Mutation	SNP	T	T	C	rs11230541	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	267	137	112	0	0.513109	0	T|0.764;C|0.236	0.236	strong	.	OR4S2	89	.	NM_001004059	exon1	c.T314C	p.F105S	ATTTCTTTGGTTG	.	PASS	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5863113	5863113	+	Silent	SNP	G	G	A	rs10742810	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	35	86	0	0.522388	0	G|0.605;A|0.395	0.395	strong	OR52E6,NS,carcinoma,0,1	OR52E6	70	1	NM_001005167	exon1	c.C15T	p.N5N	GGTGTCGTTAGCT	.	PASS	Atlas-SNP
DHRS4L2	317749	hgsc.bcm.edu	37	14	24459493	24459493	+	Silent	SNP	G	G	A	rs60865462	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	88	192	1	0.704	0.00520833	G|0.911;A|0.089	0.089	strong	DHRS4L2,NS,carcinoma,0,1	DHRS4L2	29	1	NM_198083	exon2	c.G231A	p.Q77Q	GCTGCAGGGGGAG	.	PASS	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	37	1	16354394	16354394	+	Missense_Mutation	SNP	C	C	T	rs34188929	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	563	110	506	77	0.195382	0.152174	C|0.240;T|0.760	0.760	strong	CLCNKA,NS,carcinoma,+1,1	CLCNKA	56	1	NM_004070	exon9	c.C860T	p.A287V	TTGTGGCGCTGGG	.	scavenged	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57414071	57414071	+	Missense_Mutation	SNP	G	G	A	rs4681982	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	49	65	0	1	0	G|0.472;A|0.528	0.528	strong	DNAH12,NS,carcinoma,0,1	DNAH12	182	1	NM_178504	exon35	c.C5288T	p.T1763I	CTAAATGTACATT	.	PASS	Atlas-SNP
RGL1	23179	hgsc.bcm.edu	37	1	183876182	183876182	+	Silent	SNP	C	C	T	rs11591089	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	34	68	0	0.507463	0	C|0.745;T|0.255	0.255	strong	RGL1,NS,carcinoma,0,1	RGL1	91	1	NM_015149	exon15	c.C1614T	p.D538D	TGCTGACGCCAGC	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50141362	50141362	+	Silent	SNP	G	G	A	rs9562900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	33	78	0	0.452055	0	G|0.732;A|0.268	0.268	strong	.	RCBTB1	34	.	NM_018191	exon3	c.C54T	p.I18I	AGACGCGATCTCT	.	PASS	Atlas-SNP
POC5	134359	hgsc.bcm.edu	37	5	74998489	74998489	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	4	120	0	0.040404	0	.	.	none	.	POC5	82	.	NM_001099271	exon5	c.T454C	p.S152P	CATCAGAAACAAG	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42363433	42363433	+	Silent	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	28	36	0	0.636364	0	.	.	none	.	PLA2G4D	72	.	NM_178034	exon17	c.A1764T	p.A588A	TTTAAATGCCTGG	.	PASS	Atlas-SNP
OXLD1	339229	hgsc.bcm.edu	37	17	79632327	79632327	+	Silent	SNP	C	C	T	rs137928765	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	40	101	0	0.416667	0	C|1.000;T|0.000	0.000	strong	.	.	.	.	NM_001039842	exon2	c.G348A	p.E116E	GGCCCGCTCCCCA	.	PASS	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	37	17	8413247	8413247	+	Silent	SNP	G	G	A	rs139264814		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	13	67	0	0.22807	0	G|1.000;A|0.000	0.000	weak	.	MYH10	148	.	NM_001256012	exon25	c.C2973T	p.D991D	CTCCTCGTCTAGC	.	PASS	Atlas-SNP
MED12L	116931	hgsc.bcm.edu	37	3	151112568	151112568	+	Silent	SNP	G	G	A	rs3732768	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	59	0	1	0	G|0.724;A|0.276	0.276	strong	MED12L,NS,carcinoma,+1,2	MED12L	271	2	NM_053002	exon37	c.G5628A	p.S1876S	CACATCGCAGCAG	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17273396	17273396	+	Silent	SNP	A	A	G	rs7537468	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	29	84	1	0.254386	0.0119048	A|0.845;G|0.155	0.155	strong	CROCC,NS,carcinoma,0,1	CROCC	185	1	NM_014675	exon17	c.A2424G	p.L808L	CTCCCTACGAGTG	.	scavenged	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39619094	39619094	+	Missense_Mutation	SNP	T	T	C	rs2604955	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	73	0	0.5	0	T|0.383;C|0.617	0.617	strong	.	KRT32	57	.	NM_002278	exon6	c.A1205G	p.N402S	TCCTCGTTCTCCA	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99130282	99130282	+	Silent	SNP	T	T	G	rs11189170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	52	105	3	0.472727	0.0285714	T|0.952;G|0.048	0.048	strong	RRP12,NS,carcinoma,-2,1	RRP12	97	1	NM_015179	exon23	c.A2619C	p.A873A	CTTCCGTGCGCCC	.	scavenged	Atlas-SNP
IGFL3	388555	hgsc.bcm.edu	37	19	46627294	46627294	+	Missense_Mutation	SNP	G	G	A	rs147128538	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	43	88	0	0.483146	0	G|0.998;A|0.002	0.002	strong	.	IGFL3	17	.	NM_207393	exon3	c.C199T	p.R67C	AGCGGCGGGTCTC	.	PASS	Atlas-SNP
GRPR	2925	hgsc.bcm.edu	37	X	16168467	16168467	+	Silent	SNP	T	T	C	rs4986945	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	81	65	0	0.987805	0	T|0.694;C|0.306	0.306	strong	.	GRPR	51	.	NM_005314	exon2	c.T453C	p.S151S	GGCCTCTCATGCC	.	PASS	Atlas-SNP
BRD1	23774	hgsc.bcm.edu	37	22	50187853	50187853	+	Missense_Mutation	SNP	C	C	T	rs35331092	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	38	61	0	0.5	0	C|0.936;T|0.064	0.064	strong	.	BRD1	144	.	NM_014577	exon6	c.G2188A	p.A730T	TCATAGCGCAGGT	.	PASS	Atlas-SNP
TERF2IP	54386	hgsc.bcm.edu	37	16	75690279	75690279	+	Missense_Mutation	SNP	A	A	G	rs4888444	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	54	88	0	0.568421	0	A|0.969;G|0.031	0.031	strong	.	TERF2IP	17	.	NM_018975	exon3	c.A970G	p.K324E	ATGGAGAAGTTTA	.	PASS	Atlas-SNP
ENTHD2	146705	hgsc.bcm.edu	37	17	79202956	79202956	+	Silent	SNP	T	T	C	rs2048057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	81	82	1	0.975904	0.0121951	A|0.000;C|0.395;T|0.605	0.395	strong	C17orf56,colon,carcinoma,0,1	.	.	1	NM_144679	exon12	c.A1350G	p.P450P	GCCCCCTGGGATC	.	scavenged	Atlas-SNP
SLC5A4	6527	hgsc.bcm.edu	37	22	32647802	32647802	+	Silent	SNP	C	C	T	rs144495809	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	22	42	0	0.478261	0	C|0.997;T|0.003	0.003	strong	.	SLC5A4	82	.	NM_014227	exon3	c.G267A	p.G89G	TCCTGTCCCAGCC	.	PASS	Atlas-SNP
MMEL1	79258	hgsc.bcm.edu	37	1	2535613	2535613	+	Silent	SNP	C	C	A	rs4648562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	77	128	0	0.475309	0	C|0.594;A|0.406	0.406	strong	.	MMEL1	64	.	NM_033467	exon10	c.G924T	p.V308V	CTCCAGCACCTGC	.	PASS	Atlas-SNP
DEFA5	1670	hgsc.bcm.edu	37	8	6914169	6914169	+	Silent	SNP	G	G	A	rs147432781	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	45	110	0	0.454545	0	G|0.993;A|0.007	0.007	strong	.	DEFA5	17	.	NM_021010	exon1	c.C51T	p.A17A	AGCCTGGGCCTGC	.	PASS	Atlas-SNP
EME1	146956	hgsc.bcm.edu	37	17	48456193	48456193	+	Missense_Mutation	SNP	T	T	C	rs12450550	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	53	148	0	0.438017	0	C|0.175;N|0.000	0.175	strong	EME1,NS,carcinoma,0,1	EME1	39	1	NM_152463	exon5	c.T1049C	p.I350T	CTGACATCACAGC	.	PASS	Atlas-SNP
PLD2	5338	hgsc.bcm.edu	37	17	4718776	4718776	+	Silent	SNP	G	G	A	rs1132448	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	134	120	0	1	0	G|0.370;A|0.630	0.630	strong	.	PLD2	138	.	NM_001243108	exon13	c.G1179A	p.E393E	GGAGGAGGGTGTC	.	PASS	Atlas-SNP
ATP6V1G3	127124	hgsc.bcm.edu	37	1	198505830	198505830	+	Missense_Mutation	SNP	C	C	T	rs3736930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	376	130	229	0	0.345745	0	C|0.970;T|0.030	0.030	strong	.	ATP6V1G3	26	.	NM_133326	exon3	c.G107A	p.R36Q	TCTCTTCGTTTTA	.	PASS	Atlas-SNP
SLC3A1	6519	hgsc.bcm.edu	37	2	44547574	44547574	+	Missense_Mutation	SNP	G	G	A	rs698761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	60	109	0	0.6	0	G|0.505;A|0.495	0.495	strong	.	SLC3A1	62	.	NM_000341	exon10	c.G1854A	p.M618I	TAAAATGAGAATA	.	PASS	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21064270	21064270	+	Silent	SNP	C	C	T	rs151214632	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	465	234	429	0	0.503226	0	C|0.998;T|0.002	0.002	strong	.	PI4KA	313	.	NM_058004	exon53	c.G6099A	p.A2033A	GACGACCGCGTCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511102	195511102	+	Missense_Mutation	SNP	G	G	A	rs200212097		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	288	18	148	0	0.0625	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.C7349T	p.P2450L	GTGACAGGAAGAG	.	PASS	Atlas-SNP
SUPV3L1	6832	hgsc.bcm.edu	37	10	70968505	70968505	+	Missense_Mutation	SNP	C	C	T	rs28932172	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	38	91	0	0.493506	0	T|0.011;C|0.989	0.011	strong	SUPV3L1,NS,carcinoma,-1,1	SUPV3L1	61	1	NM_003171	exon15	c.C2075T	p.P692L	GCTTTCCATCAGG	.	PASS	Atlas-SNP
TTLL12	23170	hgsc.bcm.edu	37	22	43579083	43579083	+	Missense_Mutation	SNP	G	G	A	rs138951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	52	110	0	0.5	0	G|0.927;A|0.073	0.073	strong	.	TTLL12	50	.	NM_015140	exon2	c.C250T	p.R84W	CCTCCCGGGCTGC	.	PASS	Atlas-SNP
GLDC	2731	hgsc.bcm.edu	37	9	6610326	6610326	+	Silent	SNP	C	C	T	rs35374927	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	53	112	0	0.398496	0	C|0.773;T|0.227	0.227	strong	.	GLDC	118	.	NM_000170	exon4	c.G501A	p.E167E	AGACACCTCAGGC	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46910210	46910210	+	Missense_Mutation	SNP	G	G	A	rs62000962	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	106	141	0	1	0	G|0.896;A|0.104	0.104	strong	.	COL18A1	129	.	NM_030582	exon19	c.G2521A	p.V841I	GATGGAGTCCCCG	.	PASS	Atlas-SNP
RRP36	88745	hgsc.bcm.edu	37	6	42995211	42995211	+	Silent	SNP	A	A	G	rs1138141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	56	114	0	0.424242	0	A|0.725;G|0.275	0.275	strong	.	RRP36	20	.	NM_033112	exon6	c.A639G	p.K213K	CCTGAAAAAATGT	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33499071	33499071	+	Silent	SNP	G	G	A	rs10410414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	13	38	0	0.351351	0	G|0.809;A|0.191	0.191	strong	.	RHPN2	107	.	NM_033103	exon7	c.C609T	p.T203T	AACCCCGGTGAGA	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	37	8	8176221	8176221	+	Missense_Mutation	SNP	C	C	T	rs13269488	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	23	69	0	0.396552	0	C|0.478;T|0.522	0.522	strong	.	.	.	.	NM_001080826	exon5	c.G3664A	p.G1222S	GGGTGCCGCCCGG	.	PASS	Atlas-SNP
RRS1	23212	hgsc.bcm.edu	37	8	67342077	67342077	+	Silent	SNP	G	G	A	rs3739337	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	16	28	0	0.516129	0	G|0.918;A|0.082	0.082	strong	.	RRS1	13	.	NM_015169	exon1	c.G711A	p.E237E	TCAGGAGCGCCTC	.	PASS	Atlas-SNP
DLL3	10683	hgsc.bcm.edu	37	19	39996027	39996027	+	Silent	SNP	C	C	T	rs2304214	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	75	105	0	0.961538	0	C|0.741;T|0.259	0.259	strong	.	DLL3	47	.	NM_016941	exon6	c.C1029T	p.P343P	CCCACCCGGTTTC	.	PASS	Atlas-SNP
CBWD6	644019	hgsc.bcm.edu	37	9	69256833	69256833	+	Missense_Mutation	SNP	A	A	G	rs113407575	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	2154	403	946	0	0.187094	0	A|0.897;G|0.103	0.103	strong	.	CBWD6	19	.	NM_001085457	exon3	c.T298C	p.W100R	CCAGCCACTCTTC	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46656607	46656607	+	Silent	SNP	G	G	A	rs8143066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	63	123	0	0.470149	0	G|0.722;A|0.278	0.278	strong	.	PKDREJ	195	.	NM_006071	exon1	c.C2613T	p.I871I	CTGGTTGATACCC	.	PASS	Atlas-SNP
CLDN14	23562	hgsc.bcm.edu	37	21	37833307	37833307	+	Silent	SNP	C	C	T	rs219780	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	103	152	0	0.542105	0	C|0.804;T|0.196	0.196	strong	.	CLDN14	25	.	NM_144492	exon3	c.G687A	p.T229T	GCTGTGCGTGGCC	.	PASS	Atlas-SNP
SELL	6402	hgsc.bcm.edu	37	1	169673838	169673838	+	Missense_Mutation	SNP	G	G	A	rs2229569	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	63	78	0	0.533898	0	G|0.766;A|0.234	0.234	strong	.	SELL	43	.	NM_000655	exon5	c.C676T	p.P226S	CCAAAGGGTGAGT	.	PASS	Atlas-SNP
TM2D3	80213	hgsc.bcm.edu	37	15	102192540	102192540	+	Silent	SNP	T	T	G	rs675436	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	31	32	0	1	0	T|0.666;G|0.334	0.334	strong	.	TM2D3	18	.	NM_025141	exon1	c.A25C	p.R9R	GGCCCCTCAGCGG	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44892266	44892266	+	Splice_Site	SNP	T	T	C	rs200167944		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	4	87	3	0.0336134	0.0344828	.	.	weak	ZNF285,colon,carcinoma,0,1	ZNF285	86	1	NM_152354	exon5	c.143-2A>G	.	GTCTCCTAGGAGA	.	scavenged	Atlas-SNP
ND6	0	hgsc.bcm.edu	37	MT	14470	14470	+	Silent	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	6	6	10	0	1	0	.	.	none	.	.	.	.	ENST00000361681	exon1	c.A204T	p.G68G	AGTATATCCAAAG	.	PASS	Atlas-SNP
VPS53	55275	hgsc.bcm.edu	37	17	465775	465775	+	Silent	SNP	G	G	A	rs2075443	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	261	101	201	0	0.386973	0	G|0.681;A|0.319	0.319	strong	.	VPS53	109	.	NM_001128159	exon14	c.C1524T	p.Y508Y	CCAGGCGTATTCT	.	PASS	Atlas-SNP
SLC5A10	125206	hgsc.bcm.edu	37	17	18880268	18880268	+	Silent	SNP	C	C	A	rs2472715	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	70	72	0	1	0	C|0.687;A|0.313	0.313	strong	.	SLC5A10	55	.	NM_001042450	exon9	c.C948A	p.I316I	GATCATCATGCCG	.	PASS	Atlas-SNP
SELL	6402	hgsc.bcm.edu	37	1	169677709	169677709	+	Silent	SNP	A	A	G	rs1051091	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	91	143	0	0.502762	0	G|0.290;N|0.000	0.290	strong	.	SELL	43	.	NM_000655	exon3	c.T360C	p.L120L	TTCAGTAAGAGAT	.	PASS	Atlas-SNP
TMEM171	134285	hgsc.bcm.edu	37	5	72419617	72419617	+	Missense_Mutation	SNP	C	C	A	rs636926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	31	55	0	0.462687	0	C|0.610;A|0.390	0.390	strong	.	TMEM171	41	.	NM_173490	exon2	c.C417A	p.N139K	CTCCAACTGGGCG	.	PASS	Atlas-SNP
COL25A1	84570	hgsc.bcm.edu	37	4	109841743	109841743	+	Silent	SNP	C	C	T	rs17596705	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	60	60	0	1	0	C|0.843;T|0.157	0.157	strong	.	COL25A1	178	.	NM_198721	exon11	c.G726A	p.P242P	TTGTCCCGGAGGC	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1113701	1113701	+	Missense_Mutation	SNP	G	G	A	rs2302110	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	114	76	0	0.974359	0	A|0.162;G|0.838	0.162	strong	.	SBNO2	112	.	NM_014963	exon19	c.C2080T	p.P694S	ACAGGGGTCCTAG	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111659439	111659439	+	Missense_Mutation	SNP	T	T	C	rs2230794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	67	148	0	0.458904	0	T|0.950;C|0.050	0.050	strong	IKBKAP,NS,carcinoma,0,1	IKBKAP	122	1	NM_003640	exon23	c.A2490G	p.I830M	AGGATTTATGCTC	.	PASS	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	37	2	71658541	71658541	+	Missense_Mutation	SNP	C	C	T	rs11542286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	87	164	0	0.478022	0	T|0.085;G|0.166	0.085	strong	ZNF638,NS,carcinoma,-1,1	ZNF638	179	1	NM_014497	exon26	c.C5735T	p.A1912V	CAGTGGCGTCTGA	.	PASS	Atlas-SNP
ZNF589	51385	hgsc.bcm.edu	37	3	48282695	48282695	+	Missense_Mutation	SNP	A	A	G	rs9847953	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	93	117	0	0.560241	0	A|0.753;G|0.247	0.247	strong	ZNF589,NS,carcinoma,0,2	ZNF589	20	2	NM_016089	exon1	c.A34G	p.T12A	GGCTGGACTGCGG	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22846867	22846867	+	Silent	SNP	G	G	A	rs74406853	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	81	140	0	0.558621	0	G|0.955;A|0.045	0.045	strong	.	ZNF492	129	.	NM_020855	exon4	c.G396A	p.T132T	ACATACGATAAGA	.	PASS	Atlas-SNP
FHIT	2272	hgsc.bcm.edu	37	3	59908126	59908126	+	Silent	SNP	A	A	G	rs1385816	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	33	45	0	0.647059	0	A|0.816;G|0.184	0.184	strong	FHIT,NS,carcinoma,0,1	FHIT	44	1	NM_002012	exon8	c.T294C	p.H98H	AAGAACATGGACG	.	PASS	Atlas-SNP
WISP3	8838	hgsc.bcm.edu	37	6	112382313	112382313	+	Missense_Mutation	SNP	G	G	T	rs1230345	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	59	104	0	0.513043	0	G|0.673;T|0.321	0.321	strong	.	WISP3	33	.	NM_198239	exon2	c.G222T	p.Q74H	CCCTCAGCAGAAG	.	PASS	Atlas-SNP
CRMP1	1400	hgsc.bcm.edu	37	4	5838513	5838513	+	Silent	SNP	C	C	G	rs12331	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	50	66	0	0.555556	0	G|0.588;C|0.412	0.588	strong	CRMP1,NS,carcinoma,0,1	CRMP1	118	1	NM_001014809	exon10	c.G1431C	p.T477T	GACGACCGTCATC	.	PASS	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	37	9	139916879	139916879	+	Missense_Mutation	SNP	C	C	T	rs34039859	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	59	121	0	0.430657	0	C|0.958;T|0.042	0.042	strong	.	ABCA2	113	.	NM_212533	exon6	c.G581A	p.R194H	AGGAAACGCCAGA	.	PASS	Atlas-SNP
SMTNL2	342527	hgsc.bcm.edu	37	17	4498611	4498611	+	Silent	SNP	G	G	A	rs12103697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	123	114	0	0.984	0	G|0.812;A|0.188	0.188	strong	.	SMTNL2	57	.	NM_001114974	exon5	c.G978A	p.T326T	GGAAACGGCGGCC	.	PASS	Atlas-SNP
FAM189A1	23359	hgsc.bcm.edu	37	15	29421014	29421014	+	Silent	SNP	G	G	C	rs2306934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	25	45	0	0.438596	0	G|0.869;C|0.131	0.131	strong	.	FAM189A1	20	.	NM_015307	exon8	c.C981G	p.T327T	AGCACTGGTGTTT	.	PASS	Atlas-SNP
TRIP13	9319	hgsc.bcm.edu	37	5	914664	914664	+	Silent	SNP	T	T	C	rs35725571	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	30	48	0	0.508475	0	T|0.968;C|0.032;A|0.000	0.032	strong	.	TRIP13	41	.	NM_004237	exon11	c.T1105C	p.L369L	TCAAAATTGAGCC	.	PASS	Atlas-SNP
OR5L2	26338	hgsc.bcm.edu	37	11	55595324	55595324	+	Silent	SNP	C	C	T	rs7102663	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	83	150	0	0.491124	0	C|0.840;T|0.160	0.160	strong	.	OR5L2	135	.	NM_001004739	exon1	c.C630T	p.T210T	TGTTACCATCATG	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38798171	38798171	+	Silent	SNP	C	C	T	rs62244070	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	10	25	0	0.416667	0	C|0.785;T|0.215	0.215	strong	.	SCN10A	359	.	NM_006514	exon9	c.G1284A	p.E428E	CTCCTGCTCCTTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510030	195510030	+	Silent	SNP	C	C	G	rs374297426		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	12	111	8	0.144578	0.0720721	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G8421C	p.S2807S	CACTGACGAAGCG	.	scavenged	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45122324	45122324	+	Missense_Mutation	SNP	C	C	A	rs3735493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	22	44	0	0.23913	0	C|0.891;A|0.109	0.109	strong	.	NACAD	44	.	NM_001146334	exon2	c.G3455T	p.C1152F	TCTGGGCAGGAGT	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73829362	73829362	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	200	103	189	0	0.515	0	.	.	none	ALMS1,rectum,carcinoma,+2,1	ALMS1	384	1	NM_015120	exon20	c.G12162A	p.R4054R	GGAGCGGATAAAG	.	PASS	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	37	4	47593283	47593283	+	Missense_Mutation	SNP	G	G	C	rs4145944	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	51	91	0	0.6	0	G|0.592;C|0.408	0.408	strong	.	ATP10D	168	.	NM_020453	exon23	c.G4166C	p.S1389T	CAGCAAGTTCCTG	.	PASS	Atlas-SNP
CNGB3	54714	hgsc.bcm.edu	37	8	87660100	87660100	+	Missense_Mutation	SNP	T	T	C	rs13265557	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	40	137	0	0.40404	0	T|0.940;C|0.060	0.060	strong	.	CNGB3	176	.	NM_019098	exon8	c.A919G	p.I307V	GTATTATTGATGC	.	PASS	Atlas-SNP
C6orf136	221545	hgsc.bcm.edu	37	6	30615284	30615284	+	Silent	SNP	G	G	A	rs116816200	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	14	7	0	1	0	G|0.986;A|0.014	0.014	strong	.	C6orf136	31	.	NM_001161376	exon1	c.G276A	p.T92T	AAGGACGTCGGTC	.	PASS	Atlas-SNP
PTPRT	11122	hgsc.bcm.edu	37	20	41306600	41306600	+	Silent	SNP	A	A	G	rs2425516	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	64	172	0	0.470588	0	A|0.612;G|0.388	0.388	strong	.	PTPRT	372	.	NM_007050	exon7	c.T1059C	p.D353D	CTCAACATCGGGG	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	216258213	216258213	+	Missense_Mutation	SNP	A	A	G	rs56222536	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	38	74	0	0.481013	0	A|0.892;G|0.108	0.108	strong	.	USH2A	1168	.	NM_206933	exon25	c.T4994C	p.I1665T	TTTTGGATTATCT	.	PASS	Atlas-SNP
SEPT4	5414	hgsc.bcm.edu	37	17	56598991	56598991	+	Missense_Mutation	SNP	T	T	A	rs17741424	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	56	137	0	0.466667	0	T|0.923;A|0.077	0.077	strong	SEPT4,lymph_node,lymphoid_neoplasm,0,1	SEPT4	48	1	NM_001256782	exon9	c.A977T	p.E326V	AAATGCTCAATCT	.	PASS	Atlas-SNP
XDH	7498	hgsc.bcm.edu	37	2	31593230	31593230	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	3	48	0	0.047619	0	.	.	none	XDH,colon,carcinoma,0,1	XDH	191	1	NM_000379	exon18	c.G1971A	p.A657A	ATCCTTCGCAAAG	.	scavenged	Atlas-SNP
CDC42BPG	55561	hgsc.bcm.edu	37	11	64607670	64607670	+	Missense_Mutation	SNP	G	G	A	rs34454471	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	30	78	0	0.384615	0	G|0.992;A|0.008	0.008	strong	.	CDC42BPG	101	.	NM_017525	exon5	c.C503T	p.P168L	TCGGGCGGGAGAC	.	PASS	Atlas-SNP
EDNRA	1909	hgsc.bcm.edu	37	4	148461037	148461037	+	Silent	SNP	T	T	C	rs5333	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	77	180	0	0.463855	0	T|0.642;C|0.358	0.358	strong	.	EDNRA	48	.	NM_001957	exon6	c.T969C	p.H323H	TCTTCATTTAAGC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324925	31324925	+	Missense_Mutation	SNP	A	A	G	rs1050458	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	46	122	0	0.978723	0	G|0.684;C|0.000;A|0.315	0.684	strong	.	HLA-B	54	.	NM_005514	exon1	c.T11C	p.M4T	GGCGCCATGACCA	.	PASS	Atlas-SNP
CLEC4F	165530	hgsc.bcm.edu	37	2	71036482	71036482	+	Missense_Mutation	SNP	T	T	C	rs2287101	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	30	61	0	0.491803	0	T|0.833;C|0.167	0.167	strong	.	CLEC4F	95	.	NM_173535	exon7	c.A1691G	p.K564R	ATATACTTTCTGA	.	PASS	Atlas-SNP
PTPRU	10076	hgsc.bcm.edu	37	1	29631909	29631909	+	Missense_Mutation	SNP	A	A	G	rs2235937	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	28	72	0	0.459016	0	A|0.730;G|0.269	0.269	strong	PTPRU,NS,carcinoma,0,1	PTPRU	374	1	NM_005704	exon19	c.A2819G	p.N940S	ACCCCAATGCCGA	.	PASS	Atlas-SNP
TRPM5	29850	hgsc.bcm.edu	37	11	2432964	2432964	+	Silent	SNP	T	T	C	rs2074234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	63	93	0	0.5	0	C|0.328;N|0.001;T|0.671	0.328	strong	.	TRPM5	86	.	NM_014555	exon17	c.A2508G	p.T836T	GAGGACTGTGCGG	.	PASS	Atlas-SNP
DDX46	9879	hgsc.bcm.edu	37	5	134126198	134126198	+	Silent	SNP	T	T	C	rs34125601	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	27	49	0	0.482143	0	T|0.989;C|0.011	0.011	strong	.	DDX46	77	.	NM_014829	exon13	c.T1582C	p.L528L	GTTGTTTTAGATG	.	PASS	Atlas-SNP
DNAJC16	23341	hgsc.bcm.edu	37	1	15892415	15892415	+	Silent	SNP	A	A	C	rs2236215	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	116	115	0	0.991453	0	A|0.668;C|0.332	0.332	strong	.	DNAJC16	59	.	NM_015291	exon12	c.A1600C	p.R534R	TTTAGGAGGGAAA	.	PASS	Atlas-SNP
DYRK2	8445	hgsc.bcm.edu	37	12	68052178	68052178	+	Silent	SNP	G	G	T	rs3741644	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	54	88	0	0.529412	0	C|0.000;G|0.472;T|0.528	0.528	strong	.	DYRK2	63	.	NM_006482	exon3	c.G1491T	p.G497G	GTGGGGGAACGCG	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43483981	43483981	+	Missense_Mutation	SNP	G	G	C	rs61756574	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	129	99	0	1	0	G|0.872;C|0.128	0.128	strong	HECW1_ENST00000395891,NS,carcinoma,-2,2	HECW1	540	2	NM_015052	exon11	c.G1210C	p.G404R	CCCGATGGTCCAG	.	PASS	Atlas-SNP
HECTD1	25831	hgsc.bcm.edu	37	14	31647439	31647439	+	Silent	SNP	T	T	C	rs33983486	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	70	0	0.523077	0	T|0.918;C|0.082	0.082	strong	.	HECTD1	159	.	NM_015382	exon3	c.A162G	p.L54L	GGCTGGTAAGAAA	.	PASS	Atlas-SNP
KRTAP9-3	83900	hgsc.bcm.edu	37	17	39388811	39388811	+	Missense_Mutation	SNP	C	C	A	rs112082369	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	22	58	0	0.5	0	C|0.828;A|0.172	0.172	strong	.	KRTAP9-3	11	.	NM_031962	exon1	c.C58A	p.Q20K	TGCTGGCAGCCCA	.	PASS	Atlas-SNP
KIAA1671	85379	hgsc.bcm.edu	37	22	25586744	25586744	+	Silent	SNP	T	T	G	rs2330986	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	18	67	0	0.461538	0	T|0.952;G|0.048	0.048	strong	.	KIAA1671	28	.	NM_001145206	exon10	c.T5418G	p.V1806V	CCAAGTTTGACCA	.	PASS	Atlas-SNP
CCP110	9738	hgsc.bcm.edu	37	16	19548030	19548030	+	Missense_Mutation	SNP	T	T	A	rs11645625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	51	83	0	0.515152	0	T|0.974;A|0.026	0.026	strong	.	CCP110	57	.	NM_001199022	exon4	c.T1039A	p.F347I	CCCACTTTTGTTA	.	PASS	Atlas-SNP
ABCC8	6833	hgsc.bcm.edu	37	11	17414570	17414570	+	Missense_Mutation	SNP	C	C	T	rs8192690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	17	38	0	0.320755	0	C|0.947;T|0.053	0.053	strong	.	ABCC8	170	.	NM_000352	exon39	c.G4714A	p.V1572I	CGAAGACGCTGTC	.	PASS	Atlas-SNP
CDRT15	146822	hgsc.bcm.edu	37	17	14140081	14140081	+	Nonsense_Mutation	SNP	G	G	A	rs11651890	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	18	136	0	0.105263	0	G|0.908;A|0.092	0.092	strong	.	CDRT15	20	.	NM_001007530	exon1	c.C70T	p.R24X	ATCGTCGGAAAAG	.	PASS	Atlas-SNP
GDPD4	220032	hgsc.bcm.edu	37	11	76944178	76944178	+	Silent	SNP	G	G	A	rs17751194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	36	69	0	0.580645	0	G|0.988;A|0.012	0.012	strong	.	GDPD4	49	.	NM_182833	exon13	c.C1281T	p.T427T	ATTGACGGTGTAT	.	PASS	Atlas-SNP
RABL6	55684	hgsc.bcm.edu	37	9	139732462	139732462	+	Silent	SNP	C	C	T	rs2811740	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	56	116	0	0.5	0	C|0.891;T|0.109	0.109	strong	C9orf86_ENST00000371663,NS,carcinoma,0,2	.	.	2	NM_001173988	exon10	c.C1278T	p.S426S	GGACAGCGACAGG	.	PASS	Atlas-SNP
TMEM63B	55362	hgsc.bcm.edu	37	6	44119604	44119604	+	Silent	SNP	C	C	T	rs139920210	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	85	130	0	0.52795	0	C|0.999;T|0.001	0.001	strong	.	TMEM63B	77	.	NM_018426	exon19	c.C1695T	p.N565N	CGACAACGGCGCC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076929	9076929	+	Missense_Mutation	SNP	T	T	G	rs2547075	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	91	187	0	0.473958	0	T|0.743;G|0.257	0.257	strong	.	MUC16	4315	.	NM_024690	exon3	c.A10517C	p.K3506T	TCACTTTTCACTG	.	PASS	Atlas-SNP
ATP6V0A2	23545	hgsc.bcm.edu	37	12	124210782	124210782	+	Silent	SNP	T	T	C	rs1399961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	64	75	0	1	0	T|0.317;C|0.683	0.683	strong	.	ATP6V0A2	68	.	NM_012463	exon5	c.T471C	p.S157S	AGAGAGTGATTCT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324666	31324666	+	Missense_Mutation	SNP	A	A	C	rs713031	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	30	101	0	0.909091	0	T|0.021;C|0.549;A|0.429	0.549	strong	.	HLA-B	54	.	NM_005514	exon2	c.T142G	p.S48A	CCACTGAGATGAA	.	PASS	Atlas-SNP
ATXN7L3B	552889	hgsc.bcm.edu	37	12	74932159	74932159	+	Silent	SNP	G	G	C	rs590352	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	31	0	1	0	G|0.316;C|0.684	0.684	strong	.	ATXN7L3B	1	.	NM_001136262	exon1	c.G267C	p.L89L	GCAGCTGCAGCGC	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832598	130832598	+	Missense_Mutation	SNP	C	C	T	rs3948036	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	233	14	227	0	0.0600858	0	.	.	weak	POTEF,trunk,malignant_melanoma,0,3	POTEF	140	3	NM_001099771	exon17	c.G2447A	p.R816H	TTCTCGCGGTTGG	.	scavenged	Atlas-SNP
CECR6	27439	hgsc.bcm.edu	37	22	17600977	17600977	+	Silent	SNP	G	G	A	rs5994165	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	21	0	1	0	G|0.559;A|0.441	0.441	strong	.	CECR6	11	.	NM_031890	exon1	c.C1041T	p.F347F	GGTGCCGAAGGGC	.	PASS	Atlas-SNP
LCLAT1	253558	hgsc.bcm.edu	37	2	30863092	30863092	+	Silent	SNP	C	C	T	rs12467646	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	63	115	0	0.477273	0	C|0.872;T|0.128	0.128	strong	.	LCLAT1	51	.	NM_182551	exon7	c.C852T	p.H284H	CTTTCACGTCCAC	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	37	8	41563685	41563685	+	Silent	SNP	G	G	A	rs1137177	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	39	54	0	0.65	0	G|0.832;N|0.000	.	strong	.	ANK1	497	.	NM_001142446	exon18	c.C2172T	p.G724G	CATGACGCCGTGT	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27374180	27374180	+	Missense_Mutation	SNP	T	T	C	rs1805015	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	21	70	0	0.428571	0	T|0.773;C|0.227	0.227	strong	IL4R,colon,carcinoma,0,1	IL4R	70	1	NM_000418	exon11	c.T1507C	p.S503P	AGCAACTCCCTGA	.	PASS	Atlas-SNP
GLYATL3	389396	hgsc.bcm.edu	37	6	49479750	49479750	+	Missense_Mutation	SNP	T	T	C	rs13193063	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	40	63	0	0.526316	0	C|0.179;N|0.000	0.179	strong	GLYATL3,NS,carcinoma,0,1	GLYATL3	19	1	NM_001010904	exon2	c.T47C	p.M16T	AGAAAATGTTGAA	.	PASS	Atlas-SNP
ADAM12	8038	hgsc.bcm.edu	37	10	127753388	127753388	+	Silent	SNP	C	C	T	rs2279091	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	21	49	0	0.466667	0	C|0.908;T|0.092	0.092	strong	.	ADAM12	388	.	NM_021641	exon14	c.G1605A	p.T535T	CCAGAGCGTGACA	.	PASS	Atlas-SNP
STRADB	55437	hgsc.bcm.edu	37	2	202337730	202337730	+	Silent	SNP	A	A	G	rs1019299	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	405	404	450	1	0.997531	0.00222222	A|0.352;G|0.648	0.648	strong	.	STRADB	33	.	NM_001206864	exon5	c.A246G	p.T82T	TCCCACAGGAACA	.	PASS	Atlas-SNP
FOXM1	2305	hgsc.bcm.edu	37	12	2973547	2973547	+	Missense_Mutation	SNP	G	G	T	rs28990715	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	15	39	0	0.428571	0	G|0.985;T|0.015	0.015	strong	.	FOXM1	62	.	NM_021953	exon8	c.C1205A	p.A402E	GAAGCCGCCAGGG	.	PASS	Atlas-SNP
ZNF77	58492	hgsc.bcm.edu	37	19	2934249	2934249	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	39	76	0	0.39	0	.	.	none	.	ZNF77	47	.	NM_021217	exon4	c.A876G	p.G292G	TTTCTCTCCAGTG	.	PASS	Atlas-SNP
PRICKLE2	166336	hgsc.bcm.edu	37	3	64142859	64142859	+	Silent	SNP	C	C	T	rs17720698	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	284	278	207	0	0.978873	0	C|0.776;T|0.224	0.224	strong	.	PRICKLE2	88	.	NM_198859	exon5	c.G579A	p.P193P	ACAGCGCGGCTTC	.	PASS	Atlas-SNP
LTBP3	4054	hgsc.bcm.edu	37	11	65319751	65319751	+	Missense_Mutation	SNP	G	G	A	rs11545200	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	64	60	0	0.551724	0	G|0.945;A|0.055	0.055	strong	.	LTBP3	55	.	NM_001130144	exon7	c.C1313T	p.A438V	CACCGCGCGCCCC	.	PASS	Atlas-SNP
COL19A1	1310	hgsc.bcm.edu	37	6	70733547	70733547	+	Missense_Mutation	SNP	C	C	G	rs2273426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	18	73	0	0.4	0	C|0.761;G|0.239	0.239	strong	.	COL19A1	232	.	NM_001858	exon12	c.C1055G	p.A352G	ATCCAGCTCTGGC	.	PASS	Atlas-SNP
COL11A2	1302	hgsc.bcm.edu	37	6	33133555	33133555	+	Silent	SNP	C	C	T	rs114580597	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	7	18	0	0.411765	0	C|0.998;T|0.002	0.002	strong	.	COL11A2	124	.	NM_080680	exon63	c.G4521A	p.Q1507Q	GGGCATCTGAATG	.	PASS	Atlas-SNP
PAPLN	89932	hgsc.bcm.edu	37	14	73727509	73727509	+	Missense_Mutation	SNP	T	T	G	rs177389	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	38	38	0	1	0	C|0.003;G|0.633;T|0.364	0.633	strong	.	PAPLN	180	.	NM_173462	exon16	c.T1997G	p.M666R	GGGGCATGCCCAG	.	PASS	Atlas-SNP
TTLL12	23170	hgsc.bcm.edu	37	22	43576880	43576880	+	Silent	SNP	C	C	A	rs11090144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	56	96	0	0.554455	0	C|0.917;A|0.083	0.083	strong	.	TTLL12	50	.	NM_015140	exon3	c.G414T	p.V138V	CCCGGGCACCTGC	.	PASS	Atlas-SNP
OR2G2	81470	hgsc.bcm.edu	37	1	247751731	247751731	+	Missense_Mutation	SNP	C	C	G	rs12737801	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	269	132	289	0	0.490706	0	C|0.897;G|0.103	0.103	strong	.	OR2G2	88	.	NM_001001915	exon1	c.C70G	p.P24A	GATTATCCTCAGT	.	PASS	Atlas-SNP
TIMP2	7077	hgsc.bcm.edu	37	17	76867017	76867017	+	Silent	SNP	C	C	T	rs2277698	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	18	42	0	0.36	0	C|0.868;T|0.132	0.132	strong	.	TIMP2	27	.	NM_003255	exon3	c.G303A	p.S101S	GTCCAGCGAGACC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910604	29910604	+	Silent	SNP	C	C	A	rs12721675	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	50	89	0	0.352113	0	A|0.361;C|0.639	0.361	strong	HLA-A,NS,carcinoma,0,4	HLA-A	89	4	NM_001242758	exon2	c.C144A	p.A48A	CATCGCCGTGGGC	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16259742	16259742	+	Missense_Mutation	SNP	C	C	T	rs373863345		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	40	69	0	0.547945	0	.	.	weak	.	ABCC6	110	.	NM_001171	exon23	c.G3044A	p.R1015Q	GATGCCCGGGCCC	.	PASS	Atlas-SNP
MORF4L1	10933	hgsc.bcm.edu	37	15	79185898	79185898	+	Silent	SNP	C	C	A	rs1435163	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	67	177	0	0.406061	0	C|0.877;A|0.123	0.123	strong	.	MORF4L1	26	.	NM_206839	exon10	c.C675A	p.A225A	TCCTGCCAAGAAG	.	PASS	Atlas-SNP
GART	2618	hgsc.bcm.edu	37	21	34897113	34897113	+	Missense_Mutation	SNP	C	C	T	rs8788	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	115	136	1	1	0.00735294	T|0.663;G|0.024;C|0.147;A|0.166	0.663	strong	.	GART	81	.	NM_001136005	exon11	c.G1261A	p.V421I	AGCCGACGTCTTT	.	PASS	Atlas-SNP
USP36	57602	hgsc.bcm.edu	37	17	76817090	76817090	+	Missense_Mutation	SNP	C	C	T	rs3744793	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	6	33	0	0.333333	0	C|0.659;T|0.341	0.341	strong	.	USP36	243	.	NM_025090	exon8	c.G811A	p.V271I	GCGCGACGTCCAA	.	PASS	Atlas-SNP
SOS1	6654	hgsc.bcm.edu	37	2	39241107	39241107	+	Missense_Mutation	SNP	G	G	A	rs56219475	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	18	39	0	0.439024	0	G|0.991;A|0.009	0.009	strong	.	SOS1	134	.	NM_005633	exon12	c.C1964T	p.P655L	TCTGTTGGCTCAG	.	PASS	Atlas-SNP
ITGAL	3683	hgsc.bcm.edu	37	16	30518041	30518041	+	Missense_Mutation	SNP	G	G	C	rs2230433	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	84	0	1	0	G|0.694;C|0.306	0.306	strong	ITGAL,NS,carcinoma,0,1	ITGAL	149	1	NM_002209	exon21	c.G2372C	p.R791T	GATCCAGAGCCCT	.	PASS	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602679	5602679	+	Silent	SNP	T	T	C	rs892336	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	120	123	0	1	0	T|0.342;C|0.658	0.658	strong	.	OR52B6	37	.	NM_001005162	exon1	c.T573C	p.N191N	GATCAATATCATT	.	PASS	Atlas-SNP
MRPL11	65003	hgsc.bcm.edu	37	11	66206169	66206169	+	Silent	SNP	C	C	T	rs11110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	33	36	0	0.578947	0	C|0.735;T|0.265	0.265	strong	.	MRPL11	25	.	NM_170739	exon1	c.G57A	p.V19V	CCGGATCACACCG	.	PASS	Atlas-SNP
PAPOLB	56903	hgsc.bcm.edu	37	7	4900341	4900341	+	Silent	SNP	G	G	A	rs17135247	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	260	78	161	0	0.3	0	G|0.777;A|0.223	0.223	strong	PAPOLB_ENST00000404991,NS,carcinoma,-1,2	PAPOLB	93	2	NM_020144	exon1	c.C1101T	p.S367S	AAAGAAGCTTGGA	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29822159	29822159	+	Silent	SNP	T	T	C	rs7076239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	60	172	0	0.437956	0	T|0.634;C|0.366	0.366	strong	SVIL,caecum,carcinoma,-2,1	SVIL	226	1	NM_021738	exon8	c.A1137G	p.L379L	CGTCACTAGCTTG	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373915	27373915	+	Silent	SNP	G	G	T	rs2234898	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	29	57	0	0.39726	0	G|0.756;T|0.244	0.244	strong	IL4R,NS,carcinoma,0,1	IL4R	70	1	NM_000418	exon11	c.G1242T	p.L414L	GGACCTGCTCGGA	.	PASS	Atlas-SNP
ZNF160	90338	hgsc.bcm.edu	37	19	53572494	53572494	+	Silent	SNP	G	G	T	rs11665677	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	26	58	1	0.481481	0.0172414	G|0.683;T|0.317	0.317	strong	ZNF160,NS,carcinoma,-1,1	ZNF160	75	1	NM_001102603	exon7	c.C1293A	p.G431G	GACTTTGCCACAT	.	scavenged	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121416622	121416622	+	Silent	SNP	C	C	G	rs1169289	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	72	134	1	0.533333	0.00746269	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	.	scavenged	Atlas-SNP
TOPBP1	11073	hgsc.bcm.edu	37	3	133329943	133329943	+	Silent	SNP	G	G	A	rs1444601	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	267	265	245	1	0.992509	0.00408163	G|0.298;A|0.702	0.702	strong	.	TOPBP1	218	.	NM_007027	exon25	c.C4078T	p.L1360L	CAGTCAGAACATC	.	PASS	Atlas-SNP
DHRS4	10901	hgsc.bcm.edu	37	14	24423007	24423007	+	Missense_Mutation	SNP	G	G	A	rs17099455	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	25	56	0	0.423729	0	G|0.795;A|0.205	0.205	strong	.	DHRS4	22	.	NM_021004	exon1	c.G10A	p.A4T	CACAAGGCGGGGC	.	PASS	Atlas-SNP
ITGA7	3679	hgsc.bcm.edu	37	12	56082025	56082025	+	Silent	SNP	G	G	C	rs17117883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	79	183	0	0.475904	0	G|0.944;C|0.056	0.056	strong	ITGA7_ENST00000553804,NS,carcinoma,0,2	ITGA7	194	2	NM_001144996	exon23	c.C3030G	p.S1010S	TATGGAGGACTTC	.	PASS	Atlas-SNP
ATF7IP	55729	hgsc.bcm.edu	37	12	14577892	14577892	+	Missense_Mutation	SNP	A	A	T	rs2231909	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	22	54	0	0.372881	0	A|0.678;T|0.322	0.322	strong	.	ATF7IP	136	.	NM_018179	exon2	c.A1043T	p.N348I	ATGCTAATGAAGA	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49445028	49445028	+	Missense_Mutation	SNP	G	G	A	rs75226229	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	33	60	0	0.423077	0	G|0.971;A|0.029	0.029	strong	.	MLL2	1173	.	NM_003482	exon10	c.C2438T	p.P813L	AGGTGCGGCTCCT	.	PASS	Atlas-SNP
C2orf40	84417	hgsc.bcm.edu	37	2	106690493	106690493	+	Silent	SNP	C	C	T	rs41280609	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	33	74	0	0.464789	0	C|0.961;T|0.039	0.039	strong	.	C2orf40	16	.	NM_032411	exon3	c.C279T	p.D93D	CTTTGACGAAGCG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239430	31239430	+	Missense_Mutation	SNP	C	C	T	rs41543814	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	207	136	5	0.990431	0.0367647	C|0.546;T|0.454	0.454	strong	HLA-C_ENST00000383329,NS,lymphoid_neoplasm,0,2	HLA-C	92	2	NM_002117	exon2	c.G289A	p.A97T	GGTCAGCCTGTGC	.	scavenged	Atlas-SNP
EFCAB6	64800	hgsc.bcm.edu	37	22	43936219	43936219	+	Missense_Mutation	SNP	C	C	T	rs61995890	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	28	48	0	0.459016	0	C|0.860;T|0.140	0.140	strong	.	EFCAB6	177	.	NM_022785	exon28	c.G3667A	p.E1223K	GCATCTCGTTCCA	.	PASS	Atlas-SNP
ADAMTS4	9507	hgsc.bcm.edu	37	1	161161284	161161284	+	Missense_Mutation	SNP	G	G	C	rs41270041	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	46	76	0	0.429907	0	G|0.910;C|0.090	0.090	strong	.	ADAMTS4	171	.	NM_005099	exon9	c.C2158G	p.P720A	GGCCAGGGTTTCC	.	PASS	Atlas-SNP
DLL3	10683	hgsc.bcm.edu	37	19	39994711	39994711	+	Missense_Mutation	SNP	T	T	C	rs1110627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	120	124	0	1	0	T|0.400;C|0.600	0.600	strong	.	DLL3	47	.	NM_016941	exon5	c.T653C	p.L218P	CCATAGTGGTGTG	.	PASS	Atlas-SNP
TFRC	7037	hgsc.bcm.edu	37	3	195800811	195800811	+	Missense_Mutation	SNP	C	C	T	rs3817672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	100	71	0	0.990099	0	C|0.624;T|0.376	0.376	strong	.	TFRC	54	.	NM_001128148	exon4	c.G424A	p.G142S	TGGTGCCGGTGAA	.	PASS	Atlas-SNP
MASP2	10747	hgsc.bcm.edu	37	1	11097867	11097867	+	Silent	SNP	C	C	T	rs12142107	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	18	33	0	0.473684	0	C|0.914;T|0.086	0.086	strong	.	MASP2	71	.	NM_006610	exon7	c.G891A	p.A297A	AGGCTGCGCTGCG	.	PASS	Atlas-SNP
SEC14L5	9717	hgsc.bcm.edu	37	16	5064917	5064917	+	Silent	SNP	C	C	T	rs2012649	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	14	28	0	0.5	0	C|0.846;T|0.154	0.154	strong	.	SEC14L5	79	.	NM_014692	exon16	c.C2037T	p.A679A	CGCCGCCACCTCG	.	PASS	Atlas-SNP
KIAA1586	57691	hgsc.bcm.edu	37	6	56918933	56918933	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	4	88	0	0.0444444	0	.	.	none	.	KIAA1586	59	.	NM_020931	exon4	c.A1636G	p.R546G	CAGTCAAGATCAA	.	PASS	Atlas-SNP
PDYN	5173	hgsc.bcm.edu	37	20	1961134	1961134	+	Silent	SNP	A	A	G	rs6045819	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	77	136	0	0.472393	0	A|0.834;G|0.166	0.166	strong	.	PDYN	74	.	NM_001190898	exon4	c.T600C	p.H200H	GTCCTCATGGCCC	.	PASS	Atlas-SNP
ATP13A5	344905	hgsc.bcm.edu	37	3	193039597	193039597	+	Silent	SNP	G	G	A	rs61753889	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	46	61	0	0.630137	0	G|0.933;A|0.067	0.067	strong	.	ATP13A5	171	.	NM_198505	exon16	c.C1788T	p.C596C	AAACTGGCACAAG	.	PASS	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44035352	44035352	+	Silent	SNP	C	C	T	rs1065771	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	47	58	0	0.5875	0	C|0.774;T|0.226	0.226	strong	.	PTPRF	172	.	NM_002840	exon6	c.C471T	p.A157A	ATGTGCCGCAGGC	.	PASS	Atlas-SNP
MRC1	4360	hgsc.bcm.edu	37	10	17891705	17891705	+	Missense_Mutation	SNP	A	A	G	rs34039386		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	343	341	397	1	0.994169	0.00251889	.	.	weak	.	MRC1	13	.	NM_002438	exon7	c.A1186G	p.S396G	GAAGGCAGTGACC	.	PASS	Atlas-SNP
RASAL2	9462	hgsc.bcm.edu	37	1	178442222	178442222	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	105	126	0	0.625	0	.	.	none	.	RASAL2	334	.	NM_170692	exon18	c.G3691A	p.V1231M	CGGATCGTGTCCC	.	PASS	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5862532	5862532	+	Missense_Mutation	SNP	A	A	C	rs10742809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	51	79	0	0.573034	0	A|0.670;C|0.330	0.330	strong	.	OR52E6	70	.	NM_001005167	exon1	c.T596G	p.M199R	CCAAACATAATGT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276377	152276377	+	Missense_Mutation	SNP	C	C	G	rs75235053	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	44	121	0	0.26506	0	C|0.500;G|0.500	0.500	weak	FLG,extremity,malignant_melanoma,0,2	FLG	900	2	NM_002016	exon3	c.G10985C	p.S3662T	GCCTGACTACCAC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508249	195508249	+	Missense_Mutation	SNP	A	A	G	rs71187729		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	21	88	9	0.138158	0.102273	A|0.500;G|0.500	0.500	weak	MUC4_ENST00000463781,NS,carcinoma,0,7	MUC4	1505	7	NM_018406	exon2	c.T10202C	p.V3401A	GTGGATACTGAGG	.	scavenged	Atlas-SNP
KIAA1279	26128	hgsc.bcm.edu	37	10	70748784	70748784	+	Missense_Mutation	SNP	G	G	A	rs2255607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	20	28	0	0.714286	0	G|0.584;A|0.416	0.416	strong	.	KIAA1279	35	.	NM_015634	exon1	c.G196A	p.G66S	GAGGACGGCCCGG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29840038	29840038	+	Silent	SNP	A	A	G	rs3740003	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	54	121	1	0.388489	0.00826446	A|0.678;G|0.322	0.322	strong	SVIL,NS,carcinoma,0,1	SVIL	226	1	NM_003174	exon8	c.T315C	p.I105I	CCTTGCAATTCTT	.	scavenged	Atlas-SNP
C2orf70	339778	hgsc.bcm.edu	37	2	26798893	26798893	+	Missense_Mutation	SNP	A	A	T	rs13002673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	24	96	0	0.363636	0	A|0.675;T|0.325	0.325	strong	.	C2orf70	26	.	NM_001105519	exon2	c.A198T	p.Q66H	CAGCCAAGGCGGC	.	PASS	Atlas-SNP
C15orf56	644809	hgsc.bcm.edu	37	15	40544493	40544493	+	Missense_Mutation	SNP	A	A	G	rs55799438	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	14	12	0	1	0	A|0.824;G|0.176	0.176	strong	.	C15orf56	3	.	NM_001039905	exon2	c.T479C	p.I160T	CAGCTGATTCTCC	.	PASS	Atlas-SNP
TMEM190	147744	hgsc.bcm.edu	37	19	55889451	55889451	+	Silent	SNP	G	G	A	rs77912983	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	23	44	0	0.377049	0	G|0.937;A|0.063	0.063	strong	.	TMEM190	17	.	NM_139172	exon5	c.G414A	p.T138T	GAAGACGCCGTCC	.	PASS	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41033163	41033163	+	Missense_Mutation	SNP	T	T	C	rs10067611	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	289	120	243	0	0.415225	0	T|0.963;C|0.037	0.037	strong	.	.	.	.	NM_173489	exon23	c.A2341G	p.M781V	TCAGCATCTCCTT	.	PASS	Atlas-SNP
CCDC141	285025	hgsc.bcm.edu	37	2	179732845	179732845	+	Missense_Mutation	SNP	G	G	A	rs12988301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	46	98	0	0.534884	0	G|0.885;A|0.115	0.115	strong	.	CCDC141	362	.	NM_173648	exon16	c.C2482T	p.R828W	AGCACCGGAGGTG	.	PASS	Atlas-SNP
CTSB	1508	hgsc.bcm.edu	37	8	11706581	11706581	+	Silent	SNP	T	T	G	rs13332	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	55	58	0	0.982143	0	T|0.358;G|0.637;C|0.006	0.637	strong	CTSB,NS,lymphoid_neoplasm,0,1	CTSB	24	1	NM_147780	exon7	c.A420C	p.T140T	ACAGCATGTGAGC	.	PASS	Atlas-SNP
SLC7A6OS	84138	hgsc.bcm.edu	37	16	68337948	68337948	+	Missense_Mutation	SNP	T	T	C	rs11548855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	97	151	0	0.527174	0	T|0.956;C|0.044	0.044	strong	.	SLC7A6OS	22	.	NM_032178	exon3	c.A659G	p.Y220C	TGGCTGTAGGGCT	.	PASS	Atlas-SNP
PPFIA1	8500	hgsc.bcm.edu	37	11	70185325	70185325	+	Silent	SNP	C	C	T	rs1061328	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	85	129	0	0.559211	0	C|0.776;T|0.224	0.224	strong	.	PPFIA1	114	.	NM_177423	exon14	c.C1620T	p.D540D	GGCAGACGGCCAC	.	PASS	Atlas-SNP
GAB4	128954	hgsc.bcm.edu	37	22	17446157	17446157	+	Silent	SNP	G	G	T	rs1541529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	57	81	0	0.487179	0	G|0.960;T|0.040	0.040	strong	.	GAB4	95	.	NM_001037814	exon7	c.C1290A	p.A430A	TGGGTTGGCTGGA	.	PASS	Atlas-SNP
ZBTB14	7541	hgsc.bcm.edu	37	18	5292030	5292030	+	Silent	SNP	A	A	G	rs620652	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	65	64	0	1	0	A|0.148;G|0.852	0.852	strong	.	.	.	.	NM_001243702	exon4	c.T177C	p.T59T	AAAGTAAGTGCTG	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	37	9	5081780	5081780	+	Silent	SNP	G	G	A	rs2230724	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	40	75	0	0.38835	0	G|0.386;A|0.614	0.614	strong	.	JAK2	35466	.	NM_004972	exon19	c.G2490A	p.L830L	TGCCCTGGGGTTT	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4510723	4510723	+	Silent	SNP	G	G	A	rs78776990	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	13	23	0	0.619048	0	A|0.105;C|0.000;G|0.894	0.105	strong	PLIN4_ENST00000301286,NS,carcinoma,0,2	PLIN4	191	2	NM_001080400	exon3	c.C3207T	p.S1069S	TTGGGGGCTCAGG	.	PASS	Atlas-SNP
MTRF1L	54516	hgsc.bcm.edu	37	6	153315695	153315695	+	Missense_Mutation	SNP	C	C	T	rs3192723	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	124	0	1	0	C|0.800;T|0.200	0.200	strong	.	MTRF1L	21	.	NM_019041	exon4	c.G640A	p.V214I	TATGGACGCGGCC	.	PASS	Atlas-SNP
SLC6A20	54716	hgsc.bcm.edu	37	3	45837886	45837886	+	Missense_Mutation	SNP	G	G	C	rs2271615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	61	77	0	0.564815	0	G|0.891;C|0.109	0.109	strong	.	SLC6A20	96	.	NM_022405	exon1	c.C26G	p.A9G	GAGTTGGCCCACA	.	PASS	Atlas-SNP
XRN1	54464	hgsc.bcm.edu	37	3	142145605	142145605	+	Silent	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	3	93	0	0.023622	0	.	.	none	XRN1,colon,carcinoma,0,1	XRN1	138	1	NM_001042604	exon3	c.T387C	p.D129D	GTTGGAATCAAAT	.	scavenged	Atlas-SNP
LRRC6	23639	hgsc.bcm.edu	37	8	133637659	133637659	+	Missense_Mutation	SNP	G	G	A	rs2293979	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	79	180	0	0.51634	0	G|0.487;A|0.513	0.513	strong	.	LRRC6	58	.	NM_012472	exon6	c.C695T	p.T232I	TCCTCTGTGTCTG	.	PASS	Atlas-SNP
CTBS	1486	hgsc.bcm.edu	37	1	85040069	85040069	+	Silent	SNP	G	G	A	rs2911592	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	8	9	0	0.285714	0	G|0.761;A|0.239	0.239	strong	.	CTBS	24	.	NM_004388	exon1	c.C30T	p.R10R	GACGAGGCGCCAG	.	PASS	Atlas-SNP
PSD3	23362	hgsc.bcm.edu	37	8	18656820	18656820	+	Silent	SNP	G	G	A	rs150513733	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	28	58	0	0.491228	0	G|0.997;A|0.003	0.003	strong	PSD3_ENST00000440756,NS,carcinoma,0,2	PSD3	142	2	NM_015310	exon8	c.C2067T	p.T689T	TAGATCGGTATTA	.	PASS	Atlas-SNP
PIK3R3	8503	hgsc.bcm.edu	37	1	46521559	46521559	+	Missense_Mutation	SNP	A	A	T	rs785467	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	128	156	1	1	0.00641026	A|0.291;T|0.709	0.709	strong	.	PIK3R3	41	.	NM_001114172	exon8	c.T849A	p.N283K	AGCTTGATTCTTC	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	37	16	24802331	24802331	+	Silent	SNP	C	C	T	rs72770409	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	20	29	0	0.5	0	C|0.966;T|0.034	0.034	strong	.	TNRC6A	171	.	NM_014494	exon6	c.C2368T	p.L790L	CCTGCTCTGAGGT	.	PASS	Atlas-SNP
OR7D4	125958	hgsc.bcm.edu	37	19	9325116	9325116	+	Missense_Mutation	SNP	G	G	A	rs5020278	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	55	110	0	0.504587	0	G|0.845;A|0.155	0.155	strong	.	OR7D4	66	.	NM_001005191	exon1	c.C398T	p.T133M	ATGACCGTGTAGT	.	PASS	Atlas-SNP
STOX2	56977	hgsc.bcm.edu	37	4	184932088	184932088	+	Silent	SNP	C	C	T	rs61730747	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	113	212	0	0.513636	0	C|0.967;T|0.033	0.033	strong	STOX2_ENST00000308497,colon,carcinoma,+1,1	STOX2	142	1	NM_020225	exon3	c.C2097T	p.S699S	ATTTAGCAAAGAC	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	37	17	80710097	80710097	+	Missense_Mutation	SNP	G	G	T	rs11550062	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	19	6	0	0.612903	0	G|0.918;T|0.082	0.082	strong	TBCD_ENST00000355528,rectum,carcinoma,-2,1	TBCD	94	1	NM_005993	exon1	c.G28T	p.G10C	GCCGCGGGCGGCC	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88502208	88502208	+	Missense_Mutation	SNP	A	A	T	rs3812954	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	18	64	0	0.45	0	A|0.944;T|0.056	0.056	strong	.	ZNF469	121	.	NM_001127464	exon2	c.A8246T	p.D2749V	CGGAGGACAGCAG	.	PASS	Atlas-SNP
ERBB4	2066	hgsc.bcm.edu	37	2	212587119	212587119	+	Silent	SNP	T	T	C	rs77309171	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	61	132	0	0.559633	0	T|0.997;C|0.003	0.003	strong	.	ERBB4	480	.	NM_001042599	exon7	c.A882G	p.P294P	CTTACGTGGACAT	.	PASS	Atlas-SNP
CHAD	1101	hgsc.bcm.edu	37	17	48545596	48545596	+	Silent	SNP	G	G	A	rs34864120	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	62	107	0	0.574074	0	G|0.767;A|0.233	0.233	strong	.	CHAD	36	.	NM_001267	exon1	c.C579T	p.D193D	CTCCACGTCGTCC	.	PASS	Atlas-SNP
CPNE1	8904	hgsc.bcm.edu	37	20	34218673	34218673	+	Missense_Mutation	SNP	G	G	C	rs12481228	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	34	69	0	0.472222	0	G|0.904;C|0.096	0.096	strong	.	CPNE1	44	.	NM_003915	exon12	c.C1055G	p.P352R	CAGTCAGGGGGAA	.	PASS	Atlas-SNP
GRIN2A	2903	hgsc.bcm.edu	37	16	9916204	9916204	+	Silent	SNP	C	C	G	rs9806806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	240	98	234	0	0.408333	0	C|0.671;G|0.329	0.329	strong	.	GRIN2A	366	.	NM_000833	exon11	c.G2085C	p.R695R	GTTATTCCGAATG	.	PASS	Atlas-SNP
FRMD6	122786	hgsc.bcm.edu	37	14	52156575	52156575	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	9	163	0	0.05	0	.	.	none	FRMD6,NS,carcinoma,0,1	FRMD6	100	1	NM_001267046	exon2	c.T21C	p.H7H	TTTTCATAACAAC	.	scavenged	Atlas-SNP
TNFRSF1B	7133	hgsc.bcm.edu	37	1	12248942	12248942	+	Silent	SNP	A	A	G	rs945439	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	37	47	0	0.973684	0	A|0.787;G|0.213	0.213	strong	.	TNFRSF1B	28	.	NM_001066	exon2	c.A168G	p.K56K	CAGCAAATGCTCG	.	PASS	Atlas-SNP
GTSE1	51512	hgsc.bcm.edu	37	22	46709881	46709881	+	Missense_Mutation	SNP	G	G	A	rs6008622	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	24	32	0	0.545455	0	G|0.845;A|0.155	0.155	strong	.	GTSE1	100	.	NM_016426	exon6	c.G1022A	p.S341N	CATCCAGTGCGTG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1267562	1267562	+	Missense_Mutation	SNP	C	C	T	rs61737593	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	67	194	0	0.403614	0	C|0.929;T|0.071	0.071	strong	MUC5AC,NS,carcinoma,-1,1	MUC5B	473	1	NM_002458	exon31	c.C9452T	p.T3151M	GCCCCACGGCCAC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238886	31238886	+	Missense_Mutation	SNP	A	A	G	rs77935220	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	22	154	0	0.226804	0	A|0.956;G|0.044	0.044	strong	.	HLA-C	92	.	NM_002117	exon3	c.T583C	p.Y195H	CCAGGTATCTGCG	.	PASS	Atlas-SNP
TDRD7	23424	hgsc.bcm.edu	37	9	100194406	100194406	+	Missense_Mutation	SNP	T	T	C	rs2045732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	60	111	0	0.555556	0	T|0.469;C|0.531	0.531	strong	TDRD7,NS,carcinoma,0,1	TDRD7	78	1	NM_014290	exon4	c.T449C	p.V150A	ACTCTGTTGGAGT	.	PASS	Atlas-SNP
USP47	55031	hgsc.bcm.edu	37	11	11977573	11977573	+	Silent	SNP	T	T	C	rs2307073	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	43	115	0	0.505882	0	T|0.852;C|0.148	0.148	strong	.	USP47	91	.	NM_017944	exon27	c.T3715C	p.L1239L	ATGGAATTGACAG	.	PASS	Atlas-SNP
SERPINB7	8710	hgsc.bcm.edu	37	18	61471529	61471529	+	Missense_Mutation	SNP	C	C	T	rs61735186	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	15	28	0	0.394737	0	C|0.939;T|0.061	0.061	strong	.	SERPINB7	66	.	NM_001261830	exon8	c.C803T	p.T268I	GAATGACCTCTAA	.	PASS	Atlas-SNP
NME7	29922	hgsc.bcm.edu	37	1	169293721	169293721	+	Silent	SNP	G	G	A	rs1140523	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	22	48	0	0.431373	0	G|0.693;A|0.307	0.307	strong	.	NME7	34	.	NM_013330	exon2	c.C21T	p.F7F	GAAAACGAATCTT	.	PASS	Atlas-SNP
CCDC178	374864	hgsc.bcm.edu	37	18	30969567	30969567	+	Missense_Mutation	SNP	G	G	T	rs76952832	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	129	142	0	0.522267	0	G|0.982;T|0.018	0.018	strong	.	.	.	.	NM_001105528	exon4	c.C145A	p.L49I	CATATAGAACCAA	.	PASS	Atlas-SNP
LGI2	55203	hgsc.bcm.edu	37	4	25014048	25014048	+	Silent	SNP	G	G	A	rs34079294	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	67	110	0	0.443709	0	G|0.995;A|0.005	0.005	strong	.	LGI2	62	.	NM_018176	exon7	c.C729T	p.Y243Y	GGCCACGTACACA	.	PASS	Atlas-SNP
NOLC1	9221	hgsc.bcm.edu	37	10	103912218	103912218	+	Silent	SNP	C	C	A	rs117993238	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	19	55	0	0.404255	0	C|0.999;A|0.001	0.001	strong	.	NOLC1	61	.	NM_004741	exon1	c.C51A	p.L17L	TCCCCTCGTGCTC	.	PASS	Atlas-SNP
GPR50	9248	hgsc.bcm.edu	37	X	150349533	150349533	+	Missense_Mutation	SNP	G	G	A	rs62620754	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	37	73	0	1	0	G|0.903;A|0.097	0.097	strong	.	GPR50	195	.	NM_004224	exon2	c.G1478A	p.S493N	CCTTCAGTGCTGC	.	PASS	Atlas-SNP
ACAP1	9744	hgsc.bcm.edu	37	17	7246851	7246851	+	Silent	SNP	C	C	T	rs3809828	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	47	76	0	0.505376	0	C|0.944;T|0.056	0.056	strong	.	ACAP1	66	.	NM_014716	exon6	c.C498T	p.Y166Y	TGGGTACCGGGGA	.	PASS	Atlas-SNP
SHD	56961	hgsc.bcm.edu	37	19	4280207	4280207	+	Silent	SNP	G	G	C	rs56261530	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	105	0	0.493827	0	G|0.945;C|0.055	0.055	strong	SHD,colon,NS,+2,1	SHD	33	1	NM_020209	exon1	c.G147C	p.A49A	GGACGCGGAGAGC	.	PASS	Atlas-SNP
CLCNKB	1188	hgsc.bcm.edu	37	1	16378000	16378000	+	Missense_Mutation	SNP	A	A	G	rs6650119	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	226	98	212	0	0.433628	0	A|0.886;G|0.114	0.114	strong	.	CLCNKB	50	.	NM_000085	exon13	c.A1255G	p.I419V	ACCACCATCCCCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509212	195509212	+	Missense_Mutation	SNP	G	G	A	rs200749420	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	31	114	0	0.256198	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.C9239T	p.S3080L	GATGCTGAGGAAG	.	PASS	Atlas-SNP
IFIT1	3434	hgsc.bcm.edu	37	10	91162677	91162677	+	Silent	SNP	C	C	T	rs303210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	32	52	0	0.571429	0	C|0.815;T|0.185	0.185	strong	.	IFIT1	30	.	NM_001270927	exon3	c.C645T	p.D215D	TCCAGACAATGGA	.	PASS	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058821	19058821	+	Silent	SNP	A	A	G	rs10511671	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	268	124	254	1	0.462687	0.00393701	A|0.910;G|0.090	0.090	strong	.	HAUS6	66	.	NM_017645	exon16	c.T1944C	p.F648F	CTGGCCAAAATCT	.	PASS	Atlas-SNP
TMEM171	134285	hgsc.bcm.edu	37	5	72419456	72419456	+	Missense_Mutation	SNP	C	C	G	rs637450	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	43	115	0	0.457447	0	C|0.639;G|0.361	0.361	strong	.	TMEM171	41	.	NM_173490	exon2	c.C256G	p.R86G	CAGCTCCGTGCAG	.	PASS	Atlas-SNP
SAFB	6294	hgsc.bcm.edu	37	19	5654449	5654449	+	Silent	SNP	G	G	A	rs1129046	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	28	76	0	0.405797	0	G|0.783;T|0.012	.	strong	.	SAFB	74	.	NM_002967	exon13	c.G1737A	p.T579T	AAAAACGTCCGGG	.	PASS	Atlas-SNP
SEC14L3	266629	hgsc.bcm.edu	37	22	30864610	30864610	+	Missense_Mutation	SNP	A	A	G	rs4820853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	21	57	0	0.42	0	A|0.608;G|0.392	0.392	strong	SEC14L3,NS,malignant_melanoma,-1,1	SEC14L3	46	1	NM_174975	exon5	c.T308C	p.I103T	GGCCCAATGATGT	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29747221	29747221	+	Silent	SNP	G	G	A	rs41299212	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	46	118	0	0.534884	0	G|0.910;A|0.090	0.090	strong	.	SVIL	226	.	NM_021738	exon38	c.C6600T	p.P2200P	CCAGGCGGGCAGG	.	PASS	Atlas-SNP
AKR1C1	1645	hgsc.bcm.edu	37	10	5011027	5011027	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	34	171	0	0.25	0	.	.	none	.	AKR1C1	39	.	NM_001353	exon5	c.G461A	p.C154Y	AGAAGTGTAAAGA	.	PASS	Atlas-SNP
ZNF205	7755	hgsc.bcm.edu	37	16	3170188	3170188	+	Silent	SNP	C	C	T	rs12032	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	78	26	0	0.987342	0	C|0.639;T|0.361	0.361	strong	.	ZNF205	42	.	NM_003456	exon7	c.C1527T	p.C509C	GTTGTGCGGCAAG	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70170222	70170222	+	Missense_Mutation	SNP	G	G	T	rs59034887	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	29	178	0	0.189542	0	G|0.870;T|0.130	0.130	strong	PDPR,NS,carcinoma,0,1	PDPR	66	1	NM_017990	exon10	c.G1123T	p.V375L	CCTGCAGTGCAGG	.	PASS	Atlas-SNP
VCX	26609	hgsc.bcm.edu	37	X	7812052	7812052	+	Missense_Mutation	SNP	G	G	A	rs79139778	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	325	281	269	0	0.864615	0	G|0.862;A|0.138	0.138	strong	.	VCX	28	.	NM_013452	exon3	c.G616A	p.V206M	CCGAGTGTGTAGA	.	PASS	Atlas-SNP
IRAK2	3656	hgsc.bcm.edu	37	3	10251340	10251340	+	Silent	SNP	C	C	G	rs464286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	28	47	0	0.595745	0	C|0.933;G|0.067	0.067	strong	.	IRAK2	113	.	NM_001570	exon4	c.C492G	p.S164S	TCATTCCTTGAGA	.	PASS	Atlas-SNP
UGT1A6	54578	hgsc.bcm.edu	37	2	234602202	234602202	+	Missense_Mutation	SNP	A	A	C	rs1105879	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	59	148	0	0.383117	0	A|0.682;C|0.318	0.318	strong	.	UGT1A6	63	.	NM_001072	exon1	c.A552C	p.R184S	CAGCAGAAGCCCA	.	PASS	Atlas-SNP
TEKT4	150483	hgsc.bcm.edu	37	2	95542364	95542364	+	Silent	SNP	G	G	A	rs113812263	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	3	39	1	0.0789474	0.025641	G|0.972;A|0.028	0.028	strong	TEKT4,caecum,carcinoma,0,3	TEKT4	72	3	NM_144705	exon6	c.G1158A	p.A386A	AGAAGCGGAGCAG	.	scavenged	Atlas-SNP
CD247	919	hgsc.bcm.edu	37	1	167407839	167407839	+	Missense_Mutation	SNP	G	G	A	rs148513413	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	4	87	0	0.0421053	0	G|1.000;A|0.000	0.000	strong	CD247,NS,carcinoma,+1,2	CD247	25	2	NM_198053	exon4	c.C268T	p.R90C	GGCCACGTCTCTT	.	PASS	Atlas-SNP
SBF1	6305	hgsc.bcm.edu	37	22	50895020	50895020	+	Silent	SNP	C	C	T	rs5771001	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	28	30	0	0.424242	0	C|0.661;T|0.339	0.339	strong	.	SBF1	211	.	NM_002972	exon30	c.G3987A	p.A1329A	GGCCAGCGCGTCT	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188353	140188353	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	20	112	0	0.30303	0	.	.	none	.	PCDHA4	419	.	NM_031500	exon1	c.G1581A	p.E527E	CGAGGAGCTAGAG	.	PASS	Atlas-SNP
MMP9	4318	hgsc.bcm.edu	37	20	44643111	44643111	+	Missense_Mutation	SNP	G	G	A	rs17577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	28	48	0	0.717949	0	A|0.167;C|0.000;G|0.833	0.167	strong	.	MMP9	84	.	NM_004994	exon12	c.G2003A	p.R668Q	AGTACCGAGGTGA	.	PASS	Atlas-SNP
MME	4311	hgsc.bcm.edu	37	3	154859862	154859862	+	Missense_Mutation	SNP	A	A	G	rs138218277	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	97	121	0	0.642384	0	A|0.999;G|0.001	0.001	strong	.	MME	133	.	NM_007287	exon11	c.A1040G	p.Y347C	TTGTTTATGCTCC	.	PASS	Atlas-SNP
CASP1	834	hgsc.bcm.edu	37	11	104905047	104905047	+	Silent	SNP	G	G	A	rs55646419	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	312	139	322	1	0.445513	0.00310559	G|0.719;A|0.281	0.281	strong	.	CASP1	53	.	NM_001257119	exon2	c.C162T	p.T54T	AGCTCGGGTCTTA	.	PASS	Atlas-SNP
HACE1	57531	hgsc.bcm.edu	37	6	105198267	105198267	+	Silent	SNP	A	A	G	rs7752614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	53	123	0	0.46087	0	A|0.805;G|0.195	0.195	strong	HACE1,NS,adenoma,0,1	HACE1	96	1	NM_020771	exon20	c.T2292C	p.F764F	CATATGAAAGCCC	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84796603	84796603	+	Silent	SNP	A	A	G	rs12932018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	31	45	0	0.54386	0	A|0.752;G|0.248	0.248	strong	.	USP10	51	.	NM_001272075	exon10	c.A1575G	p.Q525Q	TCGACAAGAAGAT	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	141461017	141461017	+	Silent	SNP	G	G	A	rs61740786	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	27	45	0	0.529412	0	G|0.989;A|0.011	0.011	strong	.	TRAPPC9	114	.	NM_031466	exon2	c.C750T	p.I250I	TGACTCGATGAAG	.	PASS	Atlas-SNP
PPARG	5468	hgsc.bcm.edu	37	3	12475557	12475557	+	Silent	SNP	C	C	T	rs3856806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	95	146	0	0.572289	0	C|0.887;T|0.113	0.113	strong	.	PPARG	49	.	NM_015869	exon7	c.C1431T	p.H477H	GGAACACGTGCAG	.	PASS	Atlas-SNP
DCLRE1B	64858	hgsc.bcm.edu	37	1	114448389	114448389	+	Missense_Mutation	SNP	C	C	T	rs11552449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	18	54	0	0.45	0	C|0.806;G|0.000;T|0.194	0.194	strong	.	DCLRE1B	36	.	NM_022836	exon1	c.C181T	p.H61Y	CATCGTCACCTAC	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	223646	223646	+	Missense_Mutation	SNP	A	A	T	rs34635677	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	357	167	321	0	0.467787	0	A|0.968;T|0.032	0.032	strong	.	SDHA	80	.	NM_004168	exon2	c.A113T	p.D38V	CTGTTGATGGGAA	.	PASS	Atlas-SNP
NGFR	4804	hgsc.bcm.edu	37	17	47579567	47579567	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	9	26	0	0.257143	0	.	.	none	.	NGFR	46	.	NM_002507	exon2	c.208+1G>A	.	TGGACAGTGAGTA	.	PASS	Atlas-SNP
SLC29A4	222962	hgsc.bcm.edu	37	7	5338714	5338714	+	Silent	SNP	T	T	C	rs6950111	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	32	38	0	0.5	0	T|0.699;C|0.301	0.301	strong	.	SLC29A4	52	.	NM_153247	exon8	c.T978C	p.D326D	CTTTGATGTGCCG	.	PASS	Atlas-SNP
CD80	941	hgsc.bcm.edu	37	3	119263680	119263680	+	Silent	SNP	C	C	T	rs2228017	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	305	172	218	0	0.563934	0	C|0.766;T|0.234	0.234	strong	.	CD80	35	.	NM_005191	exon3	c.G135A	p.V45V	CGTTGCCACTTCT	.	PASS	Atlas-SNP
AADAC	13	hgsc.bcm.edu	37	3	151531989	151531989	+	Silent	SNP	C	C	A	rs35544417	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	65	144	0	0.353261	0	C|0.988;A|0.012	0.012	strong	AADAC,NS,carcinoma,+2,1	AADAC	49	1	NM_001086	exon1	c.C39A	p.I13I	GGGGATCCTCATA	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240982271	240982271	+	Silent	SNP	G	G	A	rs76841013	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	14	73	0	0.215385	0	G|0.755;A|0.245	0.245	strong	PRR21,NS,lymphoid_neoplasm,0,4	PRR21	53	4	NM_001080835	exon1	c.C129T	p.H43H	AGAGCCGTGGATG	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18300240	18300240	+	Silent	SNP	T	T	C	rs5992854	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	82	173	0	0.485207	0	T|0.599;C|0.401	0.401	strong	.	MICAL3	53	.	NM_015241	exon26	c.A5187G	p.L1729L	TTCTTCTAGGAGG	.	PASS	Atlas-SNP
NTRK3	4916	hgsc.bcm.edu	37	15	88576185	88576185	+	Silent	SNP	G	G	C	rs2229910	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	30	61	0	0.491803	0	G|0.647;C|0.353	0.353	strong	NTRK3_ENST00000360948,NS,carcinoma,-1,4	NTRK3	587	4	NM_001012338	exon14	c.C1488G	p.A496A	GGGCCCGGCATCC	.	PASS	Atlas-SNP
ZNF623	9831	hgsc.bcm.edu	37	8	144732319	144732319	+	Missense_Mutation	SNP	A	A	G	rs141901810	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	38	82	0	0.558824	0	A|0.998;G|0.002	0.002	strong	.	ZNF623	63	.	NM_014789	exon1	c.A277G	p.T93A	GGAGAGACAGCTC	.	PASS	Atlas-SNP
NFKBIL1	4795	hgsc.bcm.edu	37	6	31525448	31525448	+	Silent	SNP	C	C	T	rs2230365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	28	50	0	0.528302	0	C|0.865;T|0.135	0.135	strong	.	NFKBIL1	17	.	NM_005007	exon3	c.C378T	p.S126S	TCCCTCCGCCATG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152277396	152277396	+	Silent	SNP	T	T	C	rs6681433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	108	133	0	0.6	0	T|0.794;C|0.206	0.206	strong	.	FLG	900	.	NM_002016	exon3	c.A9966G	p.Q3322Q	TGAAGCTTGTCCA	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240981487	240981487	+	Missense_Mutation	SNP	A	A	G	rs60617721	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	15	28	0	0.555556	0	A|0.695;G|0.305	0.305	strong	PRR21,rectum,carcinoma,0,2	PRR21	53	2	NM_001080835	exon1	c.T913C	p.C305R	AGAGGCATGGACG	.	scavenged	Atlas-SNP
NR2C2	7182	hgsc.bcm.edu	37	3	15080696	15080696	+	Silent	SNP	G	G	A	rs2230444	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	31	93	0	0.258333	0	A|0.082;C|0.000;G|0.917	0.082	strong	.	NR2C2	44	.	NM_003298	exon14	c.G1635A	p.Q545Q	GTTGCAGGACTAT	.	PASS	Atlas-SNP
ZNF846	162993	hgsc.bcm.edu	37	19	9868278	9868278	+	Missense_Mutation	SNP	T	T	C	rs10420364	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	41	117	0	0.445652	0	T|0.774;C|0.226	0.226	strong	.	ZNF846	61	.	NM_001077624	exon6	c.A1475G	p.Y492C	TTAAGGTATGTGG	.	PASS	Atlas-SNP
TPST2	8459	hgsc.bcm.edu	37	22	26937087	26937087	+	Silent	SNP	C	C	A	rs5761587	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	31	40	0	0.553571	0	C|0.935;A|0.065	0.065	strong	.	TPST2	23	.	NM_001008566	exon3	c.G510T	p.S170S	CAGGCGCGACAGG	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44891405	44891405	+	Silent	SNP	A	A	G	rs151111866	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	23	80	0	0.353846	0	A|0.977;G|0.023	0.023	strong	.	ZNF285	86	.	NM_152354	exon4	c.T1002C	p.H334H	TCGATGATGGTTG	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187605000	187605000	+	Missense_Mutation	SNP	G	G	A	rs73979354	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	55	136	0	0.514019	0	G|0.987;A|0.013	0.013	strong	.	FAM171B	146	.	NM_177454	exon2	c.G284A	p.R95H	TCAGTCGTCAGTA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179495650	179495650	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	2	91	0	0.0253165	0	.	.	none	TTN_ENST00000359218,colon,carcinoma,0,5	TTN	18412	5	NM_001267550	exon238	c.C44035T	p.R14679X	GGGGTCGCACCAG	.	scavenged	Atlas-SNP
ASB17	127247	hgsc.bcm.edu	37	1	76397972	76397972	+	Missense_Mutation	SNP	C	C	T	rs3795251	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	32	67	0	0.457143	0	C|0.652;T|0.348	0.348	strong	.	ASB17	53	.	NM_080868	exon1	c.G5A	p.S2N	GATTTACTCATTG	.	PASS	Atlas-SNP
ITGB6	3694	hgsc.bcm.edu	37	2	161029218	161029218	+	Silent	SNP	G	G	A	rs2305818	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	40	90	0	0.547945	0	G|0.727;A|0.273	0.273	strong	.	ITGB6	68	.	NM_000888	exon6	c.C783T	p.D261D	GAGGGAGTCATTC	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49196490	49196490	+	Silent	SNP	T	T	C	rs79718244		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	307	103	346	1	0.335505	0.00289017	C|1.000;|0.000	1.000	weak	.	FOLH1	141	.	NM_004476	exon9	c.A1059G	p.T353T	AATTCTTGTCACT	.	PASS	Atlas-SNP
TGM1	7051	hgsc.bcm.edu	37	14	24728294	24728294	+	Silent	SNP	G	G	T	rs1126432	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	32	75	0	0.52459	0	G|0.828;T|0.172	0.172	strong	.	TGM1	73	.	NM_000359	exon7	c.C1146A	p.G382G	GGTCACGCCAGCA	.	PASS	Atlas-SNP
FAM187B	148109	hgsc.bcm.edu	37	19	35719020	35719020	+	Nonsense_Mutation	SNP	C	C	T	rs541169	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	53	107	0	0.504762	0	C|0.697;T|0.303	0.303	strong	.	FAM187B	28	.	NM_152481	exon1	c.G564A	p.W188X	GCTAGACCACACC	.	PASS	Atlas-SNP
ARAP3	64411	hgsc.bcm.edu	37	5	141041735	141041735	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	31	123	0	0.24031	0	.	.	none	.	ARAP3	139	.	NM_022481	exon20	c.C2888T	p.S963L	TTCACCGACCGGG	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65253749	65253749	+	Silent	SNP	C	C	T	rs72724498	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	23	47	0	0.5	0	C|0.988;T|0.012	0.012	strong	.	SPTB	378	.	NM_001024858	exon15	c.G2934A	p.E978E	TGTGGACTCCACT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9048342	9048342	+	Missense_Mutation	SNP	C	C	T	rs10854118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	77	93	0	1	0	C|0.570;T|0.430	0.430	strong	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon5	c.G33289A	p.V11097M	TCACCACTCCTGA	.	PASS	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	37	2	207170242	207170242	+	Silent	SNP	T	T	C	rs112075178	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	25	74	0	0.520833	0	T|0.979;C|0.021	0.021	strong	.	ZDBF2	531	.	NM_020923	exon5	c.T990C	p.H330H	GAACCATGAGGAA	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47253043	47253043	+	Silent	SNP	G	G	A	rs11553083	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	92	42	0	0.968421	0	G|0.878;A|0.122	0.122	strong	PREX1_ENST00000396220,colon,carcinoma,0,2	PREX1	441	2	NM_020820	exon32	c.C4125T	p.G1375G	CAGGACGCCCGTG	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104086631	104086631	+	Silent	SNP	C	C	T	rs703651	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	135	103	0	1	0	C|0.546;T|0.453	0.453	strong	STAB2,rectum,carcinoma,0,2	STAB2	370	2	NM_017564	exon31	c.C3339T	p.N1113N	GGACAACGCAGCC	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112751928	112751928	+	Missense_Mutation	SNP	G	G	A	rs7604639	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	166	155	0	1	0	G|0.415;A|0.585	0.585	strong	.	MERTK	112	.	NM_006343	exon9	c.G1397A	p.R466K	TCACCAGAGGGGG	.	PASS	Atlas-SNP
MYBPC3	4607	hgsc.bcm.edu	37	11	47371598	47371598	+	Missense_Mutation	SNP	C	C	T	rs3729986	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	85	104	0	0.508982	0	C|0.956;T|0.044	0.044	strong	.	MYBPC3	102	.	NM_000256	exon4	c.G472A	p.V158M	GCATCACGAAGAG	.	PASS	Atlas-SNP
UGT1A6	54578	hgsc.bcm.edu	37	2	234602191	234602191	+	Missense_Mutation	SNP	A	A	G	rs2070959	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	51	131	0	0.377778	0	A|0.710;G|0.290	0.290	strong	.	UGT1A6	63	.	NM_001072	exon1	c.A541G	p.T181A	GAGCATACATTCA	.	PASS	Atlas-SNP
PERP	64065	hgsc.bcm.edu	37	6	138428379	138428379	+	Silent	SNP	G	G	A	rs145663845	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	37	64	0	0.493333	0	G|0.993;A|0.007	0.007	strong	.	PERP	15	.	NM_022121	exon1	c.C99T	p.R33R	CCAGCCGCGGCCG	.	PASS	Atlas-SNP
ZNF260	339324	hgsc.bcm.edu	37	19	37004938	37004938	+	Silent	SNP	T	T	C	rs2967505	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	92	86	0	1	0	T|0.648;C|0.352	0.352	strong	.	ZNF260	34	.	NM_001166038	exon3	c.A1203G	p.S401S	GTGATGTGACTTT	.	PASS	Atlas-SNP
LATS2	26524	hgsc.bcm.edu	37	13	21563311	21563311	+	Missense_Mutation	SNP	G	G	A	rs77919685	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	23	28	0	0.522727	0	G|0.986;A|0.014	0.014	strong	.	LATS2	176	.	NM_014572	exon4	c.C608T	p.A203V	TCCAGCGCCGTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9011412	9011412	+	Missense_Mutation	SNP	C	C	T	rs114676657	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	88	128	0	0.55	0	C|0.986;T|0.014	0.014	strong	.	MUC16	4315	.	NM_024690	exon36	c.G38821A	p.E12941K	GCTGCTCTCTGTT	.	PASS	Atlas-SNP
ZNF526	116115	hgsc.bcm.edu	37	19	42729106	42729106	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	2	90	0	0.0188679	0	.	.	none	ZNF526,face,carcinoma,0,1	ZNF526	51	1	NM_133444	exon3	c.C551T	p.P184L	CACTGCCTCCACC	.	scavenged	Atlas-SNP
CASP10	843	hgsc.bcm.edu	37	2	202082459	202082459	+	Missense_Mutation	SNP	T	T	A	rs13006529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	114	142	0	0.991304	0	A|0.399;N|0.000	0.399	strong	.	CASP10	95	.	NM_032977	exon10	c.T1564A	p.L522I	CTTTCATTATAGC	.	PASS	Atlas-SNP
LMAN1	3998	hgsc.bcm.edu	37	18	57026361	57026361	+	Missense_Mutation	SNP	A	A	G	rs33926449	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	87	116	0	0.587838	0	A|0.903;G|0.097	0.097	strong	.	LMAN1	57	.	NM_005570	exon1	c.T116C	p.V39A	AACGCGACCGCGG	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42524924	42524924	+	Silent	SNP	A	A	G	rs111606937		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	195	33	135	0	0.169231	0	A|0.500;G|0.500	0.500	weak	CYP2D6_ENST00000360608,NS,carcinoma,0,4	CYP2D6	104	4	NM_000106	exon4	c.T528C	p.G176G	CAAGAGACCGTTG	.	scavenged	Atlas-SNP
C3orf70	285382	hgsc.bcm.edu	37	3	184801094	184801094	+	Missense_Mutation	SNP	G	G	A	rs61740263	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	111	158	0	0.57513	0	G|0.925;A|0.075	0.075	strong	.	C3orf70	29	.	NM_001025266	exon2	c.C454T	p.P152S	AATGTGGTGCCGG	.	PASS	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161173946	161173946	+	Silent	SNP	T	T	G	rs11060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	350	349	395	1	0.997143	0.00253165	T|0.358;G|0.642	0.642	strong	.	PLG	150	.	NM_000301	exon19	c.T2286G	p.G762G	TGGAGGTCCTCTG	.	PASS	Atlas-SNP
HEATR5B	54497	hgsc.bcm.edu	37	2	37230734	37230734	+	Silent	SNP	C	C	T	rs17497654	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	44	106	0	0.478261	0	C|0.834;T|0.166	0.166	strong	.	HEATR5B	185	.	NM_019024	exon31	c.G5001A	p.Q1667Q	TACTATCTGTTGT	.	PASS	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	37	5	140222641	140222641	+	Missense_Mutation	SNP	A	A	G	rs6580012	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	19	9	0	0.463415	0	A|0.480;G|0.520	0.520	strong	PCDHA8_ENST00000531613,NS,carcinoma,0,4	PCDHA8	366	4	NM_031856	exon1	c.A1735G	p.K579E	GCGAGCAAGCTGG	.	PASS	Atlas-SNP
DLG5	9231	hgsc.bcm.edu	37	10	79579222	79579222	+	Silent	SNP	G	G	A	rs1248634	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	14	24	0	0.583333	0	G|0.756;T|0.003	.	strong	.	DLG5	154	.	NM_004747	exon17	c.C3528T	p.G1176G	AACAGTGCCTAGA	.	PASS	Atlas-SNP
SLC7A2	6542	hgsc.bcm.edu	37	8	17396380	17396380	+	Missense_Mutation	SNP	G	G	A	rs13259948	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	42	60	0	0.608696	0	G|0.897;A|0.103	0.103	strong	.	SLC7A2	157	.	NM_001164771	exon1	c.G47A	p.R16Q	TTTGTCGAGGGTT	.	PASS	Atlas-SNP
SDR42E1	93517	hgsc.bcm.edu	37	16	82033612	82033612	+	Missense_Mutation	SNP	T	T	C	rs16956174	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	59	132	0	0.472	0	T|0.823;C|0.177	0.177	strong	.	SDR42E1	26	.	NM_145168	exon3	c.A286G	p.K96E	CTTCTTTGATCAG	.	PASS	Atlas-SNP
KRT15	3866	hgsc.bcm.edu	37	17	39674641	39674641	+	Missense_Mutation	SNP	T	T	C	rs1050784	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	55	109	0	0.433071	0	T|0.341;C|0.659	0.659	strong	.	KRT15	60	.	NM_002275	exon1	c.A439G	p.T147A	GGCTGGTTGGGGT	.	PASS	Atlas-SNP
C12orf54	121273	hgsc.bcm.edu	37	12	48888594	48888594	+	Missense_Mutation	SNP	C	C	T	rs11458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	34	76	0	0.441558	0	C|0.697;T|0.303	0.303	strong	.	C12orf54	11	.	NM_152319	exon8	c.C256T	p.P86S	AGGCCTCCAGATT	.	PASS	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	37	15	51783820	51783820	+	Silent	SNP	T	T	C	rs10851500	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	42	76	0	0.512195	0	T|0.514;C|0.486	0.486	strong	DMXL2,NS,carcinoma,0,1	DMXL2	262	1	NM_001174116	exon20	c.A4908G	p.G1636G	CCACCATCCTATG	.	PASS	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	37	1	16357147	16357147	+	Missense_Mutation	SNP	C	C	T	rs45568437		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	65	122	0	0.436242	0	.	.	weak	.	CLCNKA	56	.	NM_004070	exon15	c.C1600T	p.R534W	CTGCCACGGATTC	.	PASS	Atlas-SNP
COBL	23242	hgsc.bcm.edu	37	7	51096974	51096974	+	Missense_Mutation	SNP	C	C	T	rs2240090	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	235	159	171	0	0.676596	0	C|0.360;T|0.640	0.640	strong	.	COBL	167	.	NM_015198	exon10	c.G1819A	p.V607I	TTCCGACGTCATG	.	PASS	Atlas-SNP
ZNF276	92822	hgsc.bcm.edu	37	16	89789898	89789898	+	Missense_Mutation	SNP	T	T	C	rs6500437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	66	101	0	0.507692	0	T|0.562;C|0.438	0.438	strong	ZNF276_ENST00000443381,colon,carcinoma,0,2	ZNF276	70	2	NM_001113525	exon4	c.T787C	p.W263R	TGGCCATGGGACA	.	PASS	Atlas-SNP
FAM151B	167555	hgsc.bcm.edu	37	5	79797690	79797690	+	Nonsense_Mutation	SNP	G	G	A	rs149355931	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	99	197	0	0.475962	0	G|1.000;A|0.000	0.000	strong	.	FAM151B	25	.	NM_205548	exon2	c.G105A	p.W35X	CACCTGGTATCAT	.	PASS	Atlas-SNP
BANP	54971	hgsc.bcm.edu	37	16	88061150	88061150	+	Silent	SNP	C	C	T	rs74740586	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	203	97	157	0	0.477833	0	C|0.682;T|0.318	0.318	strong	.	BANP	67	.	NM_001173542	exon8	c.C957T	p.I319I	GAGCATCGACTCC	.	PASS	Atlas-SNP
NPTX1	4884	hgsc.bcm.edu	37	17	78444679	78444679	+	Silent	SNP	T	T	C	rs28364735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	74	64	0	1	0	T|0.780;C|0.220	0.220	strong	.	NPTX1	28	.	NM_002522	exon5	c.A1233G	p.E411E	GTGGGATTCAGCC	.	PASS	Atlas-SNP
OVCH2	341277	hgsc.bcm.edu	37	11	7727886	7727886	+	Missense_Mutation	SNP	C	C	T	rs7927138	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	65	0	0.523077	0	C|0.636;T|0.364	0.364	strong	OVCH2,NS,carcinoma,0,2	OVCH2	47	2	NM_198185	exon1	c.G56A	p.R19Q	TTACCTCGTTCAA	.	PASS	Atlas-SNP
MCM9	254394	hgsc.bcm.edu	37	6	119136759	119136759	+	Missense_Mutation	SNP	A	A	C	rs65685	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	28	64	0	0.538462	0	A|0.878;C|0.085	0.085	strong	.	MCM9	73	.	NM_017696	exon12	c.T2660G	p.M887R	TCCAGCATTCTGT	.	PASS	Atlas-SNP
MEGF11	84465	hgsc.bcm.edu	37	15	66206303	66206303	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	25	64	0	0.446429	0	.	.	none	.	MEGF11	70	.	NM_032445	exon20	c.A2482G	p.M828V	CCATCATGAGGGC	.	PASS	Atlas-SNP
CSF3	1440	hgsc.bcm.edu	37	17	38173143	38173143	+	Silent	SNP	G	G	A	rs25645	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	31	41	0	0.54386	0	G|0.705;A|0.295	0.295	strong	.	CSF3	9	.	NM_000759	exon5	c.G555A	p.L185L	GGTCCTGGTTGCC	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62595990	62595990	+	Missense_Mutation	SNP	T	T	C	rs817326	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	55	118	0	0.514019	0	T|0.852;C|0.148	0.148	strong	ZNF512B,NS,carcinoma,0,3	ZNF512B	72	3	NM_020713	exon6	c.A1114G	p.M372V	GGCCCATGGAGGA	.	PASS	Atlas-SNP
MYH15	22989	hgsc.bcm.edu	37	3	108147728	108147728	+	Missense_Mutation	SNP	T	T	C	rs3900940	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	38	82	0	0.372549	0	T|0.802;C|0.198	0.198	strong	.	MYH15	223	.	NM_014981	exon28	c.A3373G	p.T1125A	TTTGAGTCTGTAG	.	PASS	Atlas-SNP
VPS9D1	9605	hgsc.bcm.edu	37	16	89777761	89777761	+	Silent	SNP	C	C	T	rs12920315	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	58	110	0	0.449612	0	A|0.000;C|0.471;G|0.000;T|0.529	0.529	strong	C16orf7,NS,carcinoma,0,1	.	.	1	NM_004913	exon9	c.G807A	p.V269V	GCTGGTCACGAGT	.	PASS	Atlas-SNP
CNNM3	26505	hgsc.bcm.edu	37	2	97493877	97493877	+	Silent	SNP	T	T	C	rs1320149	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	74	166	0	0.506849	0	T|0.721;G|0.000	.	strong	.	CNNM3	33	.	NM_017623	exon5	c.T1731C	p.F577F	GAAGTTTGAGAAT	.	PASS	Atlas-SNP
KRTAP29-1	100533177	hgsc.bcm.edu	37	17	39458476	39458476	+	Missense_Mutation	SNP	A	A	T	rs1001191	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	38	74	0	0.575758	0	A|0.766;T|0.234	0.234	strong	.	KRTAP29-1	2	.	NM_001257309	exon1	c.T628A	p.C210S	TATAGCAGATGGG	.	PASS	Atlas-SNP
CPT2	1376	hgsc.bcm.edu	37	1	53679229	53679229	+	Missense_Mutation	SNP	A	A	G	rs1799822	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	27	65	0	0.442623	0	A|0.854;G|0.146	0.146	strong	.	CPT2	34	.	NM_000098	exon5	c.A1939G	p.M647V	GAAGACATGTTTG	.	PASS	Atlas-SNP
ZNF625	90589	hgsc.bcm.edu	37	19	12256912	12256912	+	Missense_Mutation	SNP	C	C	T	rs7258368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	53	118	0	0.441667	0	C|0.818;T|0.182	0.182	strong	ZNF625,NS,carcinoma,+2,2	ZNF625	37	2	NM_145233	exon4	c.G319A	p.V107M	GACCCACGCTGAC	.	PASS	Atlas-SNP
FPR1	2357	hgsc.bcm.edu	37	19	52249702	52249702	+	Silent	SNP	G	G	T	rs2070746	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	23	36	0	0.45098	0	G|0.682;T|0.318	0.318	strong	.	FPR1	64	.	NM_001193306	exon3	c.C546A	p.P182P	GGTCCAGGGCGAA	.	PASS	Atlas-SNP
PLD2	5338	hgsc.bcm.edu	37	17	4720469	4720469	+	Missense_Mutation	SNP	C	C	T	rs1052748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	79	157	0	0.473054	0	C|0.670;T|0.330	0.330	strong	.	PLD2	138	.	NM_001243108	exon17	c.C1730T	p.T577I	CTCCCACATACCC	.	PASS	Atlas-SNP
LRMP	4033	hgsc.bcm.edu	37	12	25243115	25243115	+	Missense_Mutation	SNP	G	G	C	rs1908946	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	24	69	0	0.347826	0	G|0.535;C|0.465	0.465	strong	.	LRMP	51	.	NM_001204126	exon12	c.G590C	p.C197S	CTAACTGTTTAAA	.	PASS	Atlas-SNP
CCDC3	83643	hgsc.bcm.edu	37	10	12940631	12940631	+	Missense_Mutation	SNP	C	C	T	rs145872952	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	51	83	0	0.46789	0	C|1.000;T|0.000	0.000	strong	.	CCDC3	27	.	NM_031455	exon3	c.G598A	p.V200I	TCTTGACGTGGTC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629847	32629847	+	Silent	SNP	A	A	G	rs1049133	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	55	102	0	1	0	A|0.213;G|0.787	0.787	strong	.	HLA-DQB1	15	.	NM_002123	exon3	c.T558C	p.T186T	CTGGAAAGTCCAG	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204587569	204587569	+	Missense_Mutation	SNP	G	G	C	rs3747631	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	33	64	0	0.286957	0	G|0.818;C|0.182	0.182	strong	.	LRRN2	81	.	NM_006338	exon3	c.C1552G	p.L518V	GGAGGAGAGCACG	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76503593	76503593	+	Missense_Mutation	SNP	T	T	C	rs9896398	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	100	90	0	0.990099	0	T|0.403;C|0.597	0.597	strong	DNAH17,NS,carcinoma,0,1	DNAH17	347	1	NM_173628	exon28	c.A4531G	p.T1511A	GCTGGGTGCGGAT	.	PASS	Atlas-SNP
SFT2D1	113402	hgsc.bcm.edu	37	6	166736362	166736362	+	Silent	SNP	C	C	T	rs7088	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	171	216	0	1	0	T|0.319;G|0.105;C|0.484;A|0.092	0.319	strong	.	SFT2D1	12	.	NM_145169	exon7	c.G423A	p.S141S	GATGTACGACAGG	.	PASS	Atlas-SNP
LNP1	348801	hgsc.bcm.edu	37	3	100170628	100170628	+	Silent	SNP	A	A	G	rs9844083	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	33	95	0	0.270492	0	A|0.500;G|0.500	0.500	strong	.	LNP1	26	.	NM_001085451	exon3	c.A222G	p.Q74Q	GGACCAAGAATTT	.	PASS	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3752515	3752515	+	Silent	SNP	G	G	A	rs61735536	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	7	12	0	0.388889	0	G|0.844;A|0.156	0.156	strong	APBA3,NS,carcinoma,0,1	APBA3	28	1	NM_004886	exon8	c.C1386T	p.A462A	GACAGCGGCCTGG	.	PASS	Atlas-SNP
ODF2L	57489	hgsc.bcm.edu	37	1	86852621	86852621	+	Silent	SNP	A	A	G	rs2390096	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	20	49	0	0.454545	0	A|0.692;G|0.308	0.308	strong	ODF2L,NS,carcinoma,0,1	ODF2L	53	1	NM_001184766	exon2	c.T90C	p.C30C	ACTGGTACACCGT	.	PASS	Atlas-SNP
SPATA4	132851	hgsc.bcm.edu	37	4	177113956	177113956	+	Silent	SNP	A	A	G	rs2291244	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	39	68	0	0.619048	0	A|0.801;G|0.199	0.199	strong	.	SPATA4	44	.	NM_144644	exon4	c.T510C	p.Y170Y	GTAGCTATAGTCC	.	PASS	Atlas-SNP
NUP54	53371	hgsc.bcm.edu	37	4	77055474	77055474	+	Silent	SNP	A	A	G	rs11097244	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	35	88	0	0.486111	0	A|0.865;G|0.135	0.135	strong	NUP54,colon,carcinoma,-2,1	NUP54	48	1	NM_017426	exon5	c.T564C	p.D188D	TAGCCCATCTTCA	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19969075	19969075	+	Silent	SNP	A	A	G	rs2073747	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	18	23	0	1	0	T|0.002;G|0.709	0.709	strong	.	ARVCF	54	.	NM_001670	exon5	c.T555C	p.S185S	ACCCCCACTGCTG	.	PASS	Atlas-SNP
MMP27	64066	hgsc.bcm.edu	37	11	102567522	102567522	+	Silent	SNP	G	G	A	rs201248506	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	36	55	0	0.5	0	G|0.999;A|0.001	0.001	strong	.	MMP27	84	.	NM_022122	exon5	c.C664T	p.L222L	GCCCCAGTGCATG	.	PASS	Atlas-SNP
PPARG	5468	hgsc.bcm.edu	37	3	12393125	12393125	+	Missense_Mutation	SNP	C	C	G	rs1801282	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	71	89	0	0.529851	0	C|0.921;G|0.079	0.079	strong	.	PPARG	49	.	NM_015869	exon1	c.C34G	p.P12A	ATTGACCCAGAAA	.	PASS	Atlas-SNP
SETBP1	26040	hgsc.bcm.edu	37	18	42456653	42456653	+	Missense_Mutation	SNP	G	G	A	rs663651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	93	173	0	0.58125	0	G|0.471;A|0.529	0.529	strong	.	SETBP1	577	.	NM_001130110	exon4	c.G664A	p.A222T	TTCCCCGCAAAAC	.	PASS	Atlas-SNP
BRSK1	84446	hgsc.bcm.edu	37	19	55815159	55815159	+	Silent	SNP	C	C	A	rs17851415	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	38	74	0	0.447059	0	C|0.936;A|0.064	0.064	strong	.	BRSK1	192	.	NM_032430	exon12	c.C1251A	p.T417T	ACCCACCCGACGG	.	PASS	Atlas-SNP
HCST	10870	hgsc.bcm.edu	37	19	36394678	36394678	+	Silent	SNP	T	T	C	rs8106495	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	52	65	0	0.504854	0	T|0.912;C|0.088	0.088	strong	.	HCST	10	.	NM_001007469	exon3	c.T114C	p.S38S	AGGCTCTTGTTCC	.	PASS	Atlas-SNP
CNOT3	4849	hgsc.bcm.edu	37	19	54656709	54656709	+	Silent	SNP	A	A	T	rs77902046	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	60	131	0	0.413793	0	A|0.973;T|0.027	0.027	strong	.	CNOT3	133	.	NM_014516	exon16	c.A2010T	p.T670T	CGAGACACTCTTC	.	PASS	Atlas-SNP
ARSH	347527	hgsc.bcm.edu	37	X	2928170	2928170	+	Silent	SNP	C	C	T	rs77183343	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	62	81	0	1	0	C|0.899;T|0.101	0.101	strong	.	ARSH	72	.	NM_001011719	exon2	c.C192T	p.T64T	CCTGACCGGCCGG	.	PASS	Atlas-SNP
DLX2	1746	hgsc.bcm.edu	37	2	172966250	172966250	+	Silent	SNP	T	T	C	rs2228184	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	34	57	0	0.53125	0	T|0.667;C|0.333	0.333	strong	.	DLX2	29	.	NM_004405	exon2	c.A525G	p.Q175Q	CAAGTATTGAGTC	.	PASS	Atlas-SNP
UCP3	7352	hgsc.bcm.edu	37	11	73715542	73715542	+	Silent	SNP	G	G	A	rs2075577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	63	117	0	0.512195	0	G|0.383;A|0.617	0.617	strong	.	UCP3	31	.	NM_003356	exon5	c.C630T	p.Y210Y	CAGGTGGTAGTCC	.	PASS	Atlas-SNP
SLITRK6	84189	hgsc.bcm.edu	37	13	86370317	86370317	+	Silent	SNP	A	A	G	rs35119660	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	37	109	0	0.4625	0	A|0.983;G|0.017	0.017	strong	SLITRK6,colon,carcinoma,-2,1	SLITRK6	150	1	NM_032229	exon2	c.T327C	p.N109N	AAGGCCATTAAAT	.	PASS	Atlas-SNP
MYRIP	25924	hgsc.bcm.edu	37	3	40231383	40231383	+	Missense_Mutation	SNP	C	C	T	rs55785561	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	23	61	0	0.410714	0	C|0.931;T|0.069	0.069	strong	.	MYRIP	98	.	NM_015460	exon10	c.C1094T	p.P365L	CACCCCCCACCCG	.	PASS	Atlas-SNP
DIS3	22894	hgsc.bcm.edu	37	13	73349359	73349359	+	Missense_Mutation	SNP	G	G	C	rs7332388	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	80	205	0	0.512821	0	G|0.526;C|0.474	0.474	strong	DIS3,colon,carcinoma,+1,1	DIS3	103	1	NM_014953	exon6	c.C977G	p.T326R	CGTTCTGTCTCTT	.	PASS	Atlas-SNP
GPR155	151556	hgsc.bcm.edu	37	2	175300997	175300997	+	Silent	SNP	G	G	A	rs6757461	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	45	127	0	0.409091	0	G|0.734;A|0.266	0.266	strong	GPR155,NS,carcinoma,-1,1	GPR155	76	1	NM_001033045	exon17	c.C2460T	p.N820N	ATACTCGTTGGTA	.	PASS	Atlas-SNP
FAM161B	145483	hgsc.bcm.edu	37	14	74404756	74404756	+	Missense_Mutation	SNP	T	T	C	rs28927675	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	198	81	188	0	0.409091	0	T|0.585;C|0.415	0.415	strong	.	FAM161B	67	.	NM_152445	exon6	c.A1649G	p.K550R	TTCTTTTTGTGTA	.	PASS	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	37	1	223985963	223985963	+	Missense_Mutation	SNP	C	C	G	rs61824007	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	37	72	0	0.41573	0	C|0.990;G|0.010	0.010	strong	.	TP53BP2	144	.	NM_001031685	exon12	c.G1902C	p.Q634H	CGCGCTCTGCACA	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76525759	76525759	+	Missense_Mutation	SNP	G	G	C	rs61741523	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	57	128	0	0.495652	0	G|0.839;C|0.161	0.161	strong	.	DNAH17	347	.	NM_173628	exon22	c.C3302G	p.A1101G	ATGAAGGCTTCCA	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158607935	158607935	+	Missense_Mutation	SNP	T	T	G	rs857725	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	32	78	0	0.340426	0	G|0.277;N|0.000	0.277	strong	.	SPTA1	720	.	NM_003126	exon36	c.A5077C	p.K1693Q	AACGCTTGTTGAC	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94935901	94935901	+	Missense_Mutation	SNP	G	G	C	rs12879019	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	32	68	0	0.492308	0	G|0.779;C|0.221	0.221	strong	.	SERPINA9	105	.	NM_175739	exon2	c.C331G	p.Q111E	GAATCTGGGTCTT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239621	31239621	+	Missense_Mutation	SNP	T	T	A	rs1071650	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	18	53	0	0.5	0	T|0.936;G|0.058;A|0.007	0.007	strong	HLA-C_ENST00000383329,NS,neuroblastoma,-1,2	HLA-C	92	2	NM_002117	exon2	c.A98T	p.D33V	GCGGTGTCGAAAT	.	scavenged	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46899857	46899857	+	Silent	SNP	C	C	T	rs1131101	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	27	44	0	0.482143	0	C|0.888;T|0.112	0.112	strong	.	COL18A1	129	.	NM_030582	exon9	c.C1830T	p.D610D	AGGGGACGTAGGT	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56716922	56716922	+	Missense_Mutation	SNP	T	T	G	rs958755	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	93	47	0	0.989362	0	T|0.246;G|0.754	0.754	strong	.	FAM208A	113	.	NM_001112736	exon1	c.A113C	p.Q38P	TTTTGTTGGGAGG	.	PASS	Atlas-SNP
ZNF439	90594	hgsc.bcm.edu	37	19	11979164	11979164	+	Missense_Mutation	SNP	T	T	C	rs10500209	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	19	45	0	0.422222	0	T|0.842;C|0.158	0.158	strong	.	ZNF439	67	.	NM_152262	exon3	c.T1280C	p.L427S	TTCAATTGCATGG	.	PASS	Atlas-SNP
C9orf84	158401	hgsc.bcm.edu	37	9	114484837	114484837	+	Silent	SNP	G	G	T	rs62569959	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	24	63	0	0.510638	0	G|0.931;T|0.069	0.069	strong	.	C9orf84	207	.	NM_173521	exon13	c.C1791A	p.L597L	TGCTTCGAGGAGG	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96140151	96140151	+	Silent	SNP	C	C	T	rs61741188	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	37	91	0	0.41573	0	C|0.977;T|0.023	0.023	strong	.	UNC5C	141	.	NM_003728	exon9	c.G1614A	p.S538S	TCCCAGCGAGTTG	.	PASS	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50771609	50771609	+	Silent	SNP	G	G	A	rs3745504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	39	40	0	0.975	0	G|0.514;A|0.486	0.486	strong	.	MYH14	261	.	NM_001145809	exon24	c.G3018A	p.L1006L	GAGGCTGCAGCAG	.	PASS	Atlas-SNP
F11	2160	hgsc.bcm.edu	37	4	187205301	187205301	+	Silent	SNP	T	T	C	rs5970	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	42	86	0	0.47191	0	T|0.839;C|0.161	0.161	strong	.	F11	65	.	NM_000128	exon11	c.T1191C	p.G397G	TCGTGGTGAGTGG	.	PASS	Atlas-SNP
HNRPLL	92906	hgsc.bcm.edu	37	2	38829682	38829682	+	Silent	SNP	C	C	T	rs13028141	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	12	9	0	0.4	0	C|0.997;T|0.003	0.003	strong	.	HNRPLL	19	.	NM_138394	exon1	c.G87A	p.E29E	CTCCCCCTCCTCG	.	PASS	Atlas-SNP
WDR92	116143	hgsc.bcm.edu	37	2	68361859	68361859	+	Missense_Mutation	SNP	C	C	T	rs138784630	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	78	151	0	0.47561	0	C|0.989;T|0.011	0.011	strong	WDR92,colon,carcinoma,+2,1	WDR92	21	1	NM_001256476	exon7	c.G841A	p.A281T	CGCCGGCGCCTCC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910730	29910730	+	Missense_Mutation	SNP	T	T	A	rs199474436	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	43	146	3	0.212871	0.0205479	A|0.321;T|0.679	0.321	strong	HLA-A,NS,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon2	c.T270A	p.N90K	ACGGAATGTGAAG	.	scavenged	Atlas-SNP
AJAP1	55966	hgsc.bcm.edu	37	1	4772053	4772053	+	Silent	SNP	T	T	C	rs1061968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	27	62	0	0.421875	0	T|0.549;C|0.451	0.451	strong	AJAP1,NS,carcinoma,0,1	AJAP1	68	1	NM_018836	exon2	c.T123C	p.C41C	CGCCTGTGAGGCC	.	PASS	Atlas-SNP
FSCB	84075	hgsc.bcm.edu	37	14	44975510	44975510	+	Silent	SNP	C	C	T	rs3809430	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	60	139	0	0.504202	0	C|0.674;T|0.326	0.326	strong	.	FSCB	173	.	NM_032135	exon1	c.G681A	p.P227P	AAGTACCGGGGGA	.	PASS	Atlas-SNP
ILK	3611	hgsc.bcm.edu	37	11	6631016	6631016	+	Silent	SNP	C	C	T	rs2292195	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	60	146	0	0.508475	0	C|0.793;T|0.207	0.207	strong	.	ILK	41	.	NM_001014794	exon10	c.C918T	p.A306A	CATGGCCTTCCTA	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3215030	3215030	+	Silent	SNP	C	C	A	rs9964300	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	11	13	0	0.55	0	C|0.932;A|0.068	0.068	strong	.	MYOM1	192	.	NM_003803	exon2	c.G192T	p.A64A	GGCGGACGCCCGA	.	PASS	Atlas-SNP
GIF	2694	hgsc.bcm.edu	37	11	59611362	59611362	+	Silent	SNP	G	G	A	rs35792306	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	83	156	0	0.553333	0	G|0.937;A|0.063	0.063	strong	.	GIF	43	.	NM_005142	exon2	c.C246T	p.S82S	GTTGTCGCTGGAC	.	PASS	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18504916	18504916	+	Silent	SNP	T	T	A	rs2277160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	31	32	0	1	0	T|0.415;A|0.585	0.585	strong	.	ADAMTSL1	306	.	NM_052866	exon2	c.T153A	p.G51G	CGGGGGTGGGGCC	.	PASS	Atlas-SNP
DAW1	164781	hgsc.bcm.edu	37	2	228758580	228758580	+	Silent	SNP	G	G	C	rs16824157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	40	78	0	0.519481	0	G|0.928;C|0.072	0.072	strong	WDR69,colon,carcinoma,+1,2	.	.	2	NM_178821	exon5	c.G387C	p.T129T	GAACACGCTGGAG	.	PASS	Atlas-SNP
CA10	56934	hgsc.bcm.edu	37	17	49713300	49713300	+	Silent	SNP	G	G	A	rs11870209	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	48	91	0	0.551724	0	G|0.606;A|0.394	0.394	strong	CA10,NS,carcinoma,0,2	CA10	84	2	NM_001082534	exon8	c.C705T	p.Y235Y	CCCATCGTAAGTG	.	PASS	Atlas-SNP
AP4M1	9179	hgsc.bcm.edu	37	7	99704104	99704104	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	22	46	0	0.468085	0	.	.	none	.	AP4M1	39	.	NM_004722	exon14	c.G1104A	p.V368V	TCGGGTGCAAGGA	.	PASS	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	37	17	73732428	73732428	+	Silent	SNP	G	G	A	rs2290460	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	41	80	0	0.518987	0	G|0.932;A|0.068	0.068	strong	.	ITGB4	165	.	NM_001005731	exon15	c.G1821A	p.S607S	GCAGTCGCTCTAC	.	PASS	Atlas-SNP
PYROXD2	84795	hgsc.bcm.edu	37	10	100148176	100148176	+	Missense_Mutation	SNP	A	A	G	rs2147896	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	76	57	0	1	0	T|0.003;G|0.526	0.526	strong	.	PYROXD2	43	.	NM_032709	exon13	c.T1382C	p.M461T	TAGGGCATGTACT	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164764719	164764719	+	Silent	SNP	C	C	A	rs9838509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	141	169	0	0.643836	0	C|0.416;A|0.584	0.584	strong	SI,NS,carcinoma,0,1	SI	500	1	NM_001041	exon16	c.G1797T	p.A599A	CCAATGCGCAGCA	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629955	32629955	+	Silent	SNP	C	C	T	rs9280019	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	29	139	0	1	0	C|0.370;T|0.630	0.630	strong	.	HLA-DQB1	15	.	NM_002123	exon3	c.G450A	p.S150S	TGTCACCGAGCAG	.	PASS	Atlas-SNP
PTPN21	11099	hgsc.bcm.edu	37	14	88946622	88946622	+	Missense_Mutation	SNP	G	G	A	rs2401751	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	45	69	0	0.576923	0	G|0.651;N|0.000	.	strong	.	PTPN21	113	.	NM_007039	exon13	c.C1153T	p.L385F	CGTTGAGGTCAAT	.	PASS	Atlas-SNP
PIKFYVE	200576	hgsc.bcm.edu	37	2	209190649	209190649	+	Silent	SNP	A	A	G	rs999891	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	43	91	0	0.505882	0	A|0.882;G|0.118	0.118	strong	PIKFYVE,colon,carcinoma,+1,1	PIKFYVE	223	1	NM_015040	exon20	c.A3114G	p.R1038R	TAAACGAAAGACT	.	PASS	Atlas-SNP
MAN2A1	4124	hgsc.bcm.edu	37	5	109110537	109110537	+	Silent	SNP	T	T	A	rs6894260	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	59	85	0	0.967213	0	A|0.390;N|0.000	0.390	strong	MAN2A1,extremity,malignant_melanoma,+2,1	MAN2A1	136	1	NM_002372	exon8	c.T1245A	p.R415R	TTTTCGTACCAAA	.	PASS	Atlas-SNP
ZNF729	100287226	hgsc.bcm.edu	37	19	22498943	22498943	+	Silent	SNP	T	T	C	rs8104705	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	14	8	0	1	0	T|0.467;C|0.533	0.533	strong	.	ZNF729	78	.	NM_001242680	exon4	c.T2724C	p.C908C	ACCCTGTAAATGT	.	PASS	Atlas-SNP
PFAS	5198	hgsc.bcm.edu	37	17	8172506	8172506	+	Missense_Mutation	SNP	T	T	G	rs62637606	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	45	92	0	0.483871	0	T|0.957;G|0.043	0.043	strong	.	PFAS	91	.	NM_012393	exon28	c.T3941G	p.F1314C	CTCCATTTGATAC	.	PASS	Atlas-SNP
OR2H2	7932	hgsc.bcm.edu	37	6	29555778	29555778	+	Silent	SNP	A	A	G	rs2235698	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	151	140	0	1	0	A|0.764;G|0.236	0.236	strong	OR2H2,NS,carcinoma,+1,1	OR2H2	29	1	NM_007160	exon1	c.A57G	p.P19P	ACACCCAGGGCTG	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56388238	56388238	+	Missense_Mutation	SNP	C	C	G	rs2680704	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	38	84	0	0.431818	0	C|0.730;G|0.270	0.270	strong	BZRAP1_ENST00000355701,NS,carcinoma,0,4	BZRAP1	287	4	NM_004758	exon19	c.G3418C	p.A1140P	CTTTTGCCATCTC	.	PASS	Atlas-SNP
USP47	55031	hgsc.bcm.edu	37	11	11976628	11976628	+	Silent	SNP	G	G	A	rs7933089	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	169	193	1	1	0.00518135	G|0.303;A|0.697	0.697	strong	.	USP47	91	.	NM_017944	exon26	c.G3606A	p.Q1202Q	TCATCAGGATTTA	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609126	32609126	+	Missense_Mutation	SNP	T	T	C	rs1071630	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	60	159	0	1	0	T|0.423;C|0.577	0.577	strong	.	HLA-DQA1	52	.	NM_002122	exon2	c.T122C	p.F41S	ACCAGTTTTACGG	.	PASS	Atlas-SNP
CEP57	9702	hgsc.bcm.edu	37	11	95555133	95555133	+	Silent	SNP	A	A	G	rs61903295	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	49	82	0	0.505155	0	A|0.971;G|0.029	0.029	strong	.	CEP57	40	.	NM_001243777	exon7	c.A798G	p.P266P	AAAACCACCAGAA	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	984554	984554	+	Silent	SNP	C	C	G	rs4806884	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	20	28	0	1	0	C|0.614;G|0.386	0.386	strong	.	WDR18	20	.	NM_024100	exon1	c.C201G	p.L67L	GGAGCTCCAGCGG	.	PASS	Atlas-SNP
KRT6A	3853	hgsc.bcm.edu	37	12	52884735	52884735	+	Silent	SNP	A	A	G	rs61730611	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	91	192	0	0.54491	0	A|0.703;G|0.297	0.297	strong	.	KRT6A	89	.	NM_005554	exon4	c.T819C	p.D273D	ATCCACATCCTGG	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167645888	167645888	+	Silent	SNP	T	T	C	rs1363560	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	170	138	0	1	0	T|0.589;C|0.411	0.411	strong	.	.	.	.	NM_001122679	exon23	c.T4965C	p.N1655N	CACCAATGGAGGC	.	PASS	Atlas-SNP
LY75-CD302	100526664	hgsc.bcm.edu	37	2	160639970	160639970	+	Silent	SNP	T	T	C	rs2114626	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	33	46	0	1	0	T|0.650;C|0.350	0.350	strong	.	.	.	.	NM_001198759	exon35	c.A5001G	p.S1667S	AGTAGATGAAGGA	.	PASS	Atlas-SNP
CCBP2	1238	hgsc.bcm.edu	37	3	42907112	42907112	+	Missense_Mutation	SNP	A	A	C	rs2228468	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	76	143	2	0.496732	0.013986	A|0.607;C|0.392;T|0.001	0.392	strong	CCBP2,caecum,carcinoma,0,1	CCBP2	49	1	NM_001296	exon3	c.A1118C	p.Y373S	AGAACTACCCTAA	.	scavenged	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	37	10	108432670	108432670	+	Missense_Mutation	SNP	G	G	A	rs143914023		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	26	67	0	0.361111	0	G|1.000;A|0.000	0.000	weak	.	SORCS1	534	.	NM_001206572	exon15	c.C2014T	p.R672W	CACACCGTCTATC	.	PASS	Atlas-SNP
SAMD15	161394	hgsc.bcm.edu	37	14	77843814	77843814	+	Missense_Mutation	SNP	T	T	C	rs11844594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	21	58	1	0.333333	0.0172414	T|0.457;C|0.543	0.543	strong	SAMD15,NS,carcinoma,0,1	SAMD15	60	1	NM_001010860	exon1	c.T53C	p.L18P	GAGAGCTGGAGCC	.	scavenged	Atlas-SNP
ENTPD4	9583	hgsc.bcm.edu	37	8	23294761	23294761	+	Missense_Mutation	SNP	T	T	C	rs2272641	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	75	0	0.506667	0	T|0.868;G|0.001	.	strong	.	ENTPD4	56	.	NM_004901	exon10	c.A1060G	p.K354E	TCTGTTTACCCAG	.	PASS	Atlas-SNP
ANKLE1	126549	hgsc.bcm.edu	37	19	17394124	17394124	+	Missense_Mutation	SNP	T	T	G	rs2363956	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	22	74	0	0.34375	0	T|0.509;G|0.491	0.491	strong	.	ANKLE1	27	.	NM_152363	exon5	c.T551G	p.L184W	TTGGCTTGGAGGC	.	PASS	Atlas-SNP
CELF5	60680	hgsc.bcm.edu	37	19	3281298	3281298	+	Silent	SNP	G	G	A	rs36030381	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	17	32	0	0.62963	0	G|0.917;A|0.083	0.083	strong	.	CELF5	32	.	NM_021938	exon6	c.G705A	p.P235P	GACGCCGTCCCTC	.	PASS	Atlas-SNP
TTYH1	57348	hgsc.bcm.edu	37	19	54946784	54946784	+	Silent	SNP	A	A	G	rs3745420	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	73	132	1	0.5	0.00757576	A|0.569;G|0.431	0.431	strong	TTYH1_ENST00000376531,NS,carcinoma,0,2	TTYH1	78	2	NM_020659	exon11	c.A1188G	p.L396L	CCTGCTACTCTTC	.	scavenged	Atlas-SNP
EMR1	2015	hgsc.bcm.edu	37	19	6913811	6913811	+	Missense_Mutation	SNP	A	A	G	rs457857	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	70	100	0	1	0	A|0.286;G|0.714	0.714	strong	.	EMR1	153	.	NM_001256253	exon11	c.A1270G	p.I424V	GCAAATATCACTC	.	PASS	Atlas-SNP
ACAP1	9744	hgsc.bcm.edu	37	17	7245371	7245371	+	Silent	SNP	A	A	G	rs4796407	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	26	62	0	0.376812	0	A|0.642;G|0.358	0.358	strong	.	ACAP1	66	.	NM_014716	exon3	c.A216G	p.P72P	TCCACCAGAGCCC	.	PASS	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	37	7	135304215	135304215	+	Silent	SNP	C	C	T	rs11550518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	57	89	0	0.44186	0	C|0.960;T|0.040	0.040	strong	.	NUP205	198	.	NM_015135	exon29	c.C4008T	p.A1336A	GGTCGCCGGGGCA	.	PASS	Atlas-SNP
TSC1	7248	hgsc.bcm.edu	37	9	135771682	135771682	+	Silent	SNP	C	C	T	rs140352085	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	63	151	0	0.414474	0	C|1.000;T|0.000	0.000	strong	.	TSC1	167	.	NM_000368	exon23	c.G3435A	p.P1145P	ACTGTCCGGGGTC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152282311	152282311	+	Missense_Mutation	SNP	C	C	T	rs12407807	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	108	149	0	0.617143	0	C|0.829;T|0.171	0.171	strong	.	FLG	900	.	NM_002016	exon3	c.G5051A	p.R1684H	TGGTGGCGGGATC	.	PASS	Atlas-SNP
IQCF1	132141	hgsc.bcm.edu	37	3	51930850	51930850	+	Missense_Mutation	SNP	T	T	C	rs57859638	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	91	112	0	0.538462	0	T|0.851;C|0.149	0.149	strong	IQCF1,tonsil,carcinoma,0,1	IQCF1	26	1	NM_152397	exon3	c.A169G	p.K57E	ATACTTTTTCTGA	.	PASS	Atlas-SNP
IFT80	57560	hgsc.bcm.edu	37	3	159997061	159997061	+	Missense_Mutation	SNP	T	T	A	rs6778728	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	109	150	0	0.516588	0	T|0.699;A|0.301	0.301	strong	.	IFT80	68	.	NM_020800	exon16	c.A1756T	p.T586S	ATGGTGTTATGCT	.	PASS	Atlas-SNP
SLFN5	162394	hgsc.bcm.edu	37	17	33592621	33592621	+	Missense_Mutation	SNP	C	C	T	rs2291189	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	43	104	0	0.518072	0	C|0.883;T|0.117	0.117	strong	.	SLFN5	92	.	NM_144975	exon5	c.C2390T	p.A797V	CCAAAGCAAGTGA	.	PASS	Atlas-SNP
OR4S1	256148	hgsc.bcm.edu	37	11	48328644	48328644	+	Silent	SNP	C	C	T	rs753095	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	61	129	0	0.432624	0	C|0.618;T|0.382	0.382	strong	.	OR4S1	52	.	NM_001004725	exon1	c.C870T	p.N290N	GAACAACGATGTG	.	PASS	Atlas-SNP
HADHA	3030	hgsc.bcm.edu	37	2	26455127	26455127	+	Silent	SNP	G	G	A	rs11552518	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	13	34	0	0.361111	0	G|0.834;C|0.000;A|0.165	0.165	strong	.	HADHA	87	.	NM_000182	exon6	c.C474T	p.Y158Y	TATTCTGTATTGG	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3155698	3155698	+	Silent	SNP	C	C	T	rs4881086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	21	61	0	0.381818	0	C|0.734;T|0.266	0.266	strong	PFKP_ENST00000381075,NS,carcinoma,0,2	PFKP	182	2	NM_002627	exon13	c.C1359T	p.F453F	CGGCTTCGCCAAG	.	PASS	Atlas-SNP
FASN	2194	hgsc.bcm.edu	37	17	80044214	80044214	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	4	71	0	0.0506329	0	.	.	none	.	FASN	154	.	NM_004104	exon22	c.C3648T	p.S1216S	GAGGCCGCTGAGC	.	PASS	Atlas-SNP
KLHL12	59349	hgsc.bcm.edu	37	1	202863792	202863792	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	71	144	0	0.369792	0	.	.	none	.	KLHL12	50	.	NM_021633	exon9	c.C1221T	p.S407S	CAGCATGCTCCAC	.	PASS	Atlas-SNP
RAC1	5879	hgsc.bcm.edu	37	7	6441971	6441971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	2	44	0	0.0152672	0	.	.	none	RAC1_ENST00000356142,NS,carcinoma,-1,2	RAC1	101	2	NM_018890	exon7	c.C530T	p.S177L	AGTGCTCGGCGCT	.	scavenged	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43155718	43155718	+	Missense_Mutation	SNP	G	G	A	rs145911635	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	20	36	0	0.540541	0	G|0.995;A|0.005	0.005	strong	.	CUL9	248	.	NM_015089	exon7	c.G1849A	p.E617K	AAGGCCGAGGCCC	.	PASS	Atlas-SNP
TAS2R4	50832	hgsc.bcm.edu	37	7	141478308	141478308	+	Missense_Mutation	SNP	T	T	C	rs2233998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	63	133	0	0.512195	0	T|0.571;C|0.429	0.429	strong	.	TAS2R4	25	.	NM_016944	exon1	c.T20C	p.F7S	TCTATTTCTCTGC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238126	31238126	+	Silent	SNP	G	G	A	rs2308618	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	26	122	0	0.313253	0	G|0.908;A|0.092	0.092	strong	.	HLA-C	92	.	NM_002117	exon4	c.C756T	p.T252T	AAGCTCGGTGTCC	.	PASS	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45122723	45122723	+	Missense_Mutation	SNP	G	G	A	rs61740895	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	33	76	0	0.259843	0	G|0.739;A|0.261	0.261	strong	.	NACAD	44	.	NM_001146334	exon2	c.C3056T	p.A1019V	GAATCCGCATCTT	.	PASS	Atlas-SNP
PRRG2	5639	hgsc.bcm.edu	37	19	50086806	50086806	+	Silent	SNP	C	C	T	rs3745474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	20	48	0	0.408163	0	C|0.741;T|0.259	0.259	strong	PRRG2,NS,carcinoma,0,1	PRRG2	13	1	NM_000951	exon3	c.C93T	p.F31F	AGTCTTCCTGGGT	.	PASS	Atlas-SNP
ANKDD1A	348094	hgsc.bcm.edu	37	15	65235776	65235776	+	Missense_Mutation	SNP	A	A	G	rs34988193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	60	116	0	0.434783	0	A|0.742;G|0.258	0.258	strong	ANKDD1A,NS,carcinoma,0,1	ANKDD1A	47	1	NM_182703	exon11	c.A1063G	p.K355E	AGAGATAAGGTAC	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121629167	121629167	+	Silent	SNP	G	G	A	rs9398629	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	71	194	0	0.449367	0	G|0.704;A|0.296	0.296	strong	.	C6orf170	146	.	NM_152730	exon5	c.C645T	p.C215C	TTTTTCGCAGAGA	.	PASS	Atlas-SNP
RANBP9	10048	hgsc.bcm.edu	37	6	13711279	13711279	+	Silent	SNP	A	A	G	rs6905991	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	58	69	0	0.58	0	A|0.575;C|0.000;G|0.424;T|0.000	0.424	strong	RANBP9,NS,carcinoma,0,1	RANBP9	42	1	NM_005493	exon1	c.T459C	p.R153R	GTAGAGACGCTTC	.	PASS	Atlas-SNP
PRR15	222171	hgsc.bcm.edu	37	7	29606316	29606316	+	Missense_Mutation	SNP	C	C	A	rs112093295	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	30	76	0	0.29703	0	A|0.036;C|0.963;G|0.000	0.036	strong	PRR15,NS,carcinoma,0,3	PRR15	6	3	NM_175887	exon2	c.C371A	p.P124H	GTGACCCCCACGA	.	PASS	Atlas-SNP
GPR116	221395	hgsc.bcm.edu	37	6	46846060	46846060	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	54	219	0	0.259615	0	.	.	none	.	GPR116	133	.	NM_015234	exon10	c.G1119A	p.L373L	ATTTGCCAAAATT	.	PASS	Atlas-SNP
SLC24A4	123041	hgsc.bcm.edu	37	14	92922900	92922900	+	Silent	SNP	G	G	A	rs77671856	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	35	33	0	0.921053	0	G|0.792;A|0.208	0.208	strong	SLC24A4,colon,carcinoma,0,1	SLC24A4	112	1	NM_153646	exon12	c.G1203A	p.P401P	ACCACCGCCAGAG	.	PASS	Atlas-SNP
GPR108	56927	hgsc.bcm.edu	37	19	6737516	6737516	+	Silent	SNP	C	C	T	rs11539591	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	13	13	17	0	1	0	C|0.900;T|0.100	0.100	strong	.	GPR108	35	.	NM_001080452	exon1	c.G72A	p.V24V	CAGCAGCACCAGA	.	PASS	Atlas-SNP
CA9	768	hgsc.bcm.edu	37	9	35674053	35674053	+	Missense_Mutation	SNP	G	G	A	rs2071676	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	41	69	0	0.577465	0	G|0.707;A|0.293	0.293	strong	.	CA9	48	.	NM_001216	exon1	c.G97A	p.V33M	CTTCTGGTGCCTG	.	PASS	Atlas-SNP
SIGLEC8	27181	hgsc.bcm.edu	37	19	51961519	51961519	+	Silent	SNP	C	C	A	rs140904107	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	196	89	178	0	0.454082	0	C|0.999;A|0.001	0.001	strong	SIGLEC8,NS,carcinoma,-2,1	SIGLEC8	130	1	NM_014442	exon1	c.G123T	p.L41L	GACACACAGGCCC	.	PASS	Atlas-SNP
FGFR4	2264	hgsc.bcm.edu	37	5	176517797	176517797	+	Missense_Mutation	SNP	C	C	T	rs376618	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	65	85	0	0.528455	0	C|0.247;T|0.753	0.753	strong	.	FGFR4	174	.	NM_022963	exon3	c.C407T	p.P136L	GGGACCCCTCGAA	.	PASS	Atlas-SNP
ANKRD18A	253650	hgsc.bcm.edu	37	9	38577101	38577101	+	Missense_Mutation	SNP	G	G	A	rs2996335	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	39	134	0	0.336207	0	G|0.966;A|0.034	0.034	strong	.	ANKRD18A	49	.	NM_147195	exon14	c.C2690T	p.A897V	GCAAAGGCTTCCT	.	PASS	Atlas-SNP
GRID2IP	392862	hgsc.bcm.edu	37	7	6550540	6550540	+	Silent	SNP	G	G	A	rs61732373	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	94	87	0	0.661972	0	G|0.984;A|0.016	0.016	strong	.	GRID2IP	82	.	NM_001145118	exon9	c.C1554T	p.C518C	CTTACCGCAGCTG	.	PASS	Atlas-SNP
CHFR	55743	hgsc.bcm.edu	37	12	133435716	133435716	+	Silent	SNP	T	T	G	rs35011845	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	35	77	0	0.411765	0	T|0.796;G|0.204	0.204	strong	.	CHFR	83	.	NM_001161344	exon8	c.A885C	p.P295P	CTTGTCTGGCTTC	.	PASS	Atlas-SNP
MYRF	745	hgsc.bcm.edu	37	11	61551356	61551356	+	Silent	SNP	T	T	C	rs174535	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	35	115	1	0.384615	0.00869565	T|0.705;C|0.295	0.295	strong	C11orf9,colon,carcinoma,0,1	.	.	1	NM_001127392	exon24	c.T3153C	p.S1051S	TGTCAGTAGTGGC	.	scavenged	Atlas-SNP
CXorf64	100130613	hgsc.bcm.edu	37	X	125955428	125955428	+	Silent	SNP	G	G	A	rs2269777	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	30	47	0	1	0	G|0.667;0|0.006	.	strong	.	.	.	.	NM_001122716	exon2	c.G807A	p.P269P	TCCTCCGATATTT	.	PASS	Atlas-SNP
MFF	56947	hgsc.bcm.edu	37	2	228194480	228194480	+	Missense_Mutation	SNP	A	A	T	rs3211097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	59	163	0	0.401361	0	A|0.744;T|0.256	0.256	strong	.	MFF	48	.	NM_020194	exon3	c.A19T	p.S7C	ACAAGCAGTGACA	.	PASS	Atlas-SNP
MAF1	84232	hgsc.bcm.edu	37	8	145161823	145161823	+	Missense_Mutation	SNP	G	G	A	rs11546144	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	32	33	0	1	0	G|0.144;A|0.856	0.856	strong	.	MAF1	16	.	NM_032272	exon7	c.G706A	p.G236R	AGAAGCGGGGGCA	.	PASS	Atlas-SNP
LRRTM1	347730	hgsc.bcm.edu	37	2	80530819	80530819	+	Silent	SNP	C	C	A	rs186584392	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	31	0	0.5	0	C|0.983;A|0.017	0.017	strong	LRRTM1_ENST00000295057,NS,carcinoma,0,2	LRRTM1	251	2	NM_178839	exon2	c.G126T	p.L42L	CCGGCACAGCTGC	.	PASS	Atlas-SNP
APLP1	333	hgsc.bcm.edu	37	19	36370011	36370011	+	Silent	SNP	G	G	A	rs2227909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	10	29	0	0.384615	0	G|0.886;A|0.114	0.114	strong	.	APLP1	77	.	NM_001024807	exon16	c.G1749A	p.V583V	GGCTGTGTCGGGT	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	7034508	7034508	+	Missense_Mutation	SNP	T	T	G	rs566655	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	75	112	0	0.524476	0	T|0.807;G|0.193	0.193	strong	.	LAMA1	458	.	NM_005559	exon14	c.A2021C	p.N674T	TTGTAGTTGGCTC	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90079811	90079811	+	Silent	SNP	C	C	T	rs41311745	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	60	90	0	0.47619	0	A|0.001;C|0.992;T|0.006	0.006	strong	.	GPR98	605	.	NM_032119	exon67	c.C13590T	p.P4530P	TAATCCCAATTCC	.	PASS	Atlas-SNP
OR5B2	390190	hgsc.bcm.edu	37	11	58190112	58190112	+	Missense_Mutation	SNP	A	A	G	rs10466659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	42	72	1	0.583333	0.0138889	A|0.781;G|0.219	0.219	strong	OR5B2,NS,carcinoma,0,1	OR5B2	75	1	NM_001005566	exon1	c.T623C	p.V208A	AGAAGAACAAAAA	.	scavenged	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74205878	74205878	+	Silent	SNP	C	C	T	rs17782128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	62	95	0	0.553571	0	C|0.861;T|0.139	0.139	strong	C14orf43,bladder,carcinoma,-1,1	.	.	1	NM_194278	exon2	c.G834A	p.P278P	TTGCTGCGGCATG	.	PASS	Atlas-SNP
SLC5A1	6523	hgsc.bcm.edu	37	22	32487744	32487744	+	Silent	SNP	C	C	T	rs17683448	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	16	42	0	0.5	0	C|0.955;T|0.045	0.045	strong	.	SLC5A1	80	.	NM_000343	exon11	c.C1275T	p.A425A	GATTGCCGGAAGG	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141751592	141751592	+	Silent	SNP	G	G	A	rs13007735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	110	111	0	0.982143	0	G|0.558;A|0.442	0.442	strong	LRP1B,NS,lymphoid_neoplasm,-2,1	LRP1B	1315	1	NM_018557	exon16	c.C2616T	p.D872D	GCTTCCGTCTAGG	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135721036	135721036	+	Silent	SNP	C	C	T	rs34629706	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	27	51	0	0.415385	0	C|0.945;T|0.055	0.055	strong	PPP2R3A,colon,carcinoma,+1,1	PPP2R3A	114	1	NM_002718	exon2	c.C696T	p.C232C	GATGTGCTTGGAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195474159	195474159	+	Missense_Mutation	SNP	G	G	A	rs62284986	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	263	53	154	0	0.201521	0	G|0.849;A|0.151	0.151	strong	.	MUC4	1505	.	NM_018406	exon25	c.C16127T	p.A5376V	CCCAGGGCCCCAA	.	PASS	Atlas-SNP
OR2C3	81472	hgsc.bcm.edu	37	1	247694949	247694949	+	Missense_Mutation	SNP	G	G	C	rs6702693	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	99	107	0	1	0	G|0.854;C|0.146	0.146	strong	.	OR2C3	92	.	NM_198074	exon2	c.C865G	p.L289V	AAATAAGTGGGTT	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962134	151962134	+	Nonsense_Mutation	SNP	G	G	T	rs146238849		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	24	131	1	0.12973	0.00763359	.	.	weak	MLL3_ENST00000355193,NS,malignant_melanoma,0,2	MLL3	1564	2	NM_170606	exon8	c.C1173A	p.C391X	GTTCTGGCACACT	.	scavenged	Atlas-SNP
ITGB5	3693	hgsc.bcm.edu	37	3	124515509	124515509	+	Silent	SNP	G	G	A	rs2291088	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	44	81	0	0.392857	0	G|0.851;A|0.149	0.149	strong	.	ITGB5	66	.	NM_002213	exon10	c.C1419T	p.S473S	CCTGGCGCTGTTG	.	PASS	Atlas-SNP
SLC6A2	6530	hgsc.bcm.edu	37	16	55690874	55690874	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	20	67	0	0.47619	0	.	.	none	SLC6A2_ENST00000219833,colon,carcinoma,0,2	SLC6A2	189	2	NM_001172501	exon2	c.G268A	p.G90S	AAGAACGGCGGCG	.	PASS	Atlas-SNP
PTPN2	5771	hgsc.bcm.edu	37	18	12814237	12814237	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	2	94	0	0.0186916	0	.	.	none	PTPN2,bladder,carcinoma,+1,1	PTPN2	37	1	NM_001207013	exon8	c.G892A	p.G298R	TTGCTCCTTCTAT	.	scavenged	Atlas-SNP
MIER2	54531	hgsc.bcm.edu	37	19	307345	307345	+	Missense_Mutation	SNP	G	G	A	rs34129568	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	48	101	0	0.377953	0	G|0.988;A|0.012	0.012	strong	.	MIER2	51	.	NM_017550	exon13	c.C1390T	p.P464S	CGTCTGGCTCCGG	.	PASS	Atlas-SNP
GPR113	165082	hgsc.bcm.edu	37	2	26533898	26533898	+	Missense_Mutation	SNP	C	C	T	rs72811754	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	40	65	0	0.606061	0	C|0.998;T|0.002	0.002	strong	.	GPR113	134	.	NM_001145168	exon11	c.G2698A	p.V900I	GGGTGACACCTGC	.	PASS	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72346918	72346918	+	Silent	SNP	C	C	T	rs73995260	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	68	99	0	0.557377	0	C|0.906;T|0.094	0.094	strong	.	KIF19	102	.	NM_153209	exon12	c.C1461T	p.D487D	TAAGGACGACAGC	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156882996	156882996	+	Silent	SNP	G	G	C	rs822441	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	27	95	1	0.243243	0.0105263	G|0.714;C|0.285	0.285	strong	PEAR1,NS,carcinoma,+2,1	PEAR1	118	1	NM_001080471	exon19	c.G2433C	p.P811P	CCCTCCGAGCTAC	.	scavenged	Atlas-SNP
NTNG2	84628	hgsc.bcm.edu	37	9	135073877	135073877	+	Silent	SNP	C	C	T	rs3824574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	56	136	0	0.466667	0	C|0.711;T|0.289	0.289	strong	NTNG2,NS,carcinoma,0,1	NTNG2	66	1	NM_032536	exon3	c.C738T	p.F246F	GGAGTTCTTCACC	.	PASS	Atlas-SNP
FAM78B	149297	hgsc.bcm.edu	37	1	166039898	166039898	+	Silent	SNP	C	C	G	rs41269662	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	34	44	0	0.618182	0	C|0.820;G|0.180	0.180	strong	.	FAM78B	51	.	NM_001017961	exon2	c.G366C	p.V122V	CAGGGTCACAGTT	.	PASS	Atlas-SNP
ZP3	7784	hgsc.bcm.edu	37	7	76069629	76069629	+	Silent	SNP	G	G	A	rs79425252		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	867	273	702	0	0.314879	0	.	.	weak	.	ZP3	32	.	NM_001110354	exon6	c.G894A	p.K298K	CAACAAGGCCTGT	.	PASS	Atlas-SNP
CCDC122	160857	hgsc.bcm.edu	37	13	44411432	44411432	+	Missense_Mutation	SNP	A	A	G	rs9567280	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	99	154	0	0.535135	0	A|0.943;G|0.057	0.057	strong	.	CCDC122	21	.	NM_144974	exon7	c.T806C	p.I269T	ATTCCAATGCATT	.	PASS	Atlas-SNP
TM7SF2	7108	hgsc.bcm.edu	37	11	64882789	64882789	+	Missense_Mutation	SNP	C	C	T	rs1129195	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	106	120	1	1	0.00833333	C|0.636;T|0.364	0.364	strong	.	TM7SF2	30	.	NM_003273	exon8	c.C896T	p.T299I	CAGCTACTGGTTA	.	PASS	Atlas-SNP
ZBTB40	9923	hgsc.bcm.edu	37	1	22852880	22852880	+	Missense_Mutation	SNP	G	G	C	rs45502998	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	25	57	0	0.431034	0	G|0.974;C|0.026	0.026	strong	.	ZBTB40	87	.	NM_001083621	exon19	c.G3711C	p.E1237D	TGGTGAGGCCAAA	.	PASS	Atlas-SNP
CCDC144NL	339184	hgsc.bcm.edu	37	17	20799194	20799194	+	Missense_Mutation	SNP	A	A	G	rs9907420	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	51	101	0	0.455357	0	A|0.897;G|0.103	0.103	strong	.	CCDC144NL	34	.	NM_001004306	exon1	c.T140C	p.L47S	AAGCCCAAGGACC	.	PASS	Atlas-SNP
AVPR1B	553	hgsc.bcm.edu	37	1	206225011	206225011	+	Missense_Mutation	SNP	G	G	C	rs33990840	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	60	78	0	0.594059	0	G|0.938;C|0.062	0.062	strong	.	AVPR1B	47	.	NM_000707	exon1	c.G571C	p.G191R	GACTTCGGCTTCC	.	PASS	Atlas-SNP
ARHGEF10	9639	hgsc.bcm.edu	37	8	1877480	1877480	+	Missense_Mutation	SNP	T	T	G	rs17683288	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	94	159	1	0.598726	0.00628931	T|0.954;G|0.046	0.046	strong	ARHGEF10_ENST00000398564,NS,carcinoma,0,2	ARHGEF10	255	2	NM_014629	exon25	c.T2950G	p.S984A	CAAGGCTCCAAGA	.	scavenged	Atlas-SNP
RGAG4	340526	hgsc.bcm.edu	37	X	71349774	71349774	+	Silent	SNP	T	T	C	rs12393722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	48	55	0	1	0	T|0.599;C|0.401	0.401	strong	.	RGAG4	63	.	NM_001024455	exon1	c.A1617G	p.G539G	GCGTTGTCCTAAA	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91497631	91497631	+	Missense_Mutation	SNP	T	T	A	rs1062465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	44	75	0	0.458333	0	T|0.696;A|0.304	0.304	strong	.	KIF20B	191	.	NM_016195	exon20	c.T2913A	p.D971E	CAGGGATCTGTCA	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136555659	136555659	+	Missense_Mutation	SNP	T	T	C	rs2322659	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	23	72	0	0.442308	0	T|0.466;C|0.534	0.534	strong	LCT,NS,carcinoma,-1,2	LCT	309	2	NM_002299	exon13	c.A4916G	p.N1639S	ACCTCATTGTAAT	.	PASS	Atlas-SNP
CAPRIN1	4076	hgsc.bcm.edu	37	11	34107955	34107955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	2	75	0	0.0277778	0	.	.	none	CAPRIN1_ENST00000389645,colon,carcinoma,+1,2	CAPRIN1	110	2	NM_203364	exon11	c.C1226T	p.P409L	TTTGCCCTCCAGG	.	scavenged	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103124135	103124135	+	Silent	SNP	T	T	G	rs11225634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	95	183	0	0.492228	0	T|0.824;G|0.176	0.176	strong	.	DYNC2H1	246	.	NM_001080463	exon67	c.T10185G	p.T3395T	TGTTACTGAGGTT	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55582905	55582905	+	Silent	SNP	G	G	T	rs10825114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	35	95	0	0.479452	0	G|0.809;T|0.191	0.191	strong	PCDH15_ENST00000417177,NS,malignant_melanoma,-2,4	PCDH15	1715	4	NM_001142763	exon35	c.C4602A	p.P1534P	ATAAAGGGGATTA	.	PASS	Atlas-SNP
LPCAT3	10162	hgsc.bcm.edu	37	12	7091918	7091918	+	Silent	SNP	C	C	T	rs3764031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	57	124	0	0.452381	0	C|0.809;T|0.191	0.191	strong	.	LPCAT3	33	.	NM_005768	exon3	c.G285A	p.L95L	AATACACAGCAGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179611851	179611851	+	Silent	SNP	C	C	T	rs72648910	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	32	131	0	0.216216	0	C|0.965;T|0.035	0.035	strong	TTN_ENST00000360870,NS,carcinoma,-2,1	TTN	18412	1	NM_133379	exon46	c.G15276A	p.L5092L	TCTCTCCAGAGTC	.	PASS	Atlas-SNP
UTS2	10911	hgsc.bcm.edu	37	1	7913029	7913029	+	Missense_Mutation	SNP	A	A	G	rs34305100	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	217	108	170	0	0.497696	0	A|0.874;G|0.126	0.126	strong	UTS2_ENST00000361696,NS,carcinoma,-1,1	UTS2	18	1	NM_006786	exon1	c.T35C	p.I12T	AATCCTATGAAAA	.	PASS	Atlas-SNP
PYROXD2	84795	hgsc.bcm.edu	37	10	100167396	100167396	+	Silent	SNP	G	G	A	rs12763326	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	13	44	0	0.270833	0	G|0.643;A|0.356	0.356	strong	.	PYROXD2	43	.	NM_032709	exon4	c.C258T	p.R86R	GGACGCGCGGGAG	.	PASS	Atlas-SNP
TNKS2	80351	hgsc.bcm.edu	37	10	93608142	93608142	+	Silent	SNP	G	G	A	rs3758499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	26	45	0	0.530612	0	G|0.687;A|0.313	0.313	strong	.	TNKS2	103	.	NM_025235	exon19	c.G2361A	p.A787A	CTAGGCGGATGAT	.	PASS	Atlas-SNP
CTSF	8722	hgsc.bcm.edu	37	11	66335548	66335548	+	Silent	SNP	A	A	G	rs1127894	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	38	46	9	0.603175	0.195652	A|0.416;G|0.584	0.584	strong	CTSF,rectum,carcinoma,0,5	CTSF	42	5	NM_003793	exon2	c.T219C	p.G73G	CCCCTGACCCGCC	.	scavenged	Atlas-SNP
IL12RB2	3595	hgsc.bcm.edu	37	1	67833643	67833643	+	Missense_Mutation	SNP	G	G	A	rs2307153	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	34	89	0	0.425	0	G|0.986;A|0.014	0.014	strong	.	IL12RB2	94	.	NM_001559	exon10	c.G1394A	p.G465D	CAGGGGGTGACAC	.	PASS	Atlas-SNP
IGF2R	3482	hgsc.bcm.edu	37	6	160453978	160453978	+	Silent	SNP	A	A	G	rs1570070	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	24	41	0	0.510638	0	A|0.643;G|0.357	0.357	strong	.	IGF2R	251	.	NM_000876	exon9	c.A1050G	p.S350S	AGGTTCATCCTAT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1537874	1537874	+	Missense_Mutation	SNP	G	G	A	rs7202502	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	48	78	0	0.578313	0	G|0.894;A|0.106	0.106	strong	PTX4,colon,carcinoma,0,1	PTX4	46	1	NM_001013658	exon2	c.C224T	p.A75V	TCTTCCGCCAGGC	.	PASS	Atlas-SNP
SPTLC3	55304	hgsc.bcm.edu	37	20	13140720	13140720	+	Missense_Mutation	SNP	G	G	A	rs61738161	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	23	52	0	0.433962	0	G|0.964;A|0.036	0.036	strong	.	SPTLC3	78	.	NM_018327	exon11	c.G1486A	p.A496T	CCCCTCGCAGAAG	.	PASS	Atlas-SNP
MASTL	84930	hgsc.bcm.edu	37	10	27458886	27458886	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	20	73	0	0.338983	0	.	.	none	.	MASTL	81	.	NM_032844	exon8	c.C998T	p.A333V	ATGAAGCATTGGG	.	PASS	Atlas-SNP
FBXW12	285231	hgsc.bcm.edu	37	3	48419898	48419898	+	Missense_Mutation	SNP	G	G	A	rs79525977	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	62	75	0	0.632653	0	G|0.964;A|0.036	0.036	strong	.	FBXW12	44	.	NM_207102	exon6	c.G497A	p.R166Q	TGGATCGGAAAAA	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144992900	144992900	+	Silent	SNP	G	G	A	rs17062686	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	39	58	0	0.534247	0	G|0.970;A|0.030	0.030	strong	.	PLEC	1144	.	NM_201380	exon32	c.C11500T	p.L3834L	CGGGCAGGTAGAC	.	PASS	Atlas-SNP
PLAU	5328	hgsc.bcm.edu	37	10	75673101	75673101	+	Missense_Mutation	SNP	T	T	C	rs2227564	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	82	100	0	1	0	T|0.183;C|0.817	0.817	strong	.	PLAU	47	.	NM_002658	exon6	c.T422C	p.L141P	TAAAGCTGCTTGT	.	PASS	Atlas-SNP
FBXL16	146330	hgsc.bcm.edu	37	16	746884	746884	+	Silent	SNP	A	A	C	rs4984683	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	25	50	0	0.510204	0	A|0.718;C|0.282	0.282	strong	.	FBXL16	25	.	NM_153350	exon2	c.T522G	p.V174V	GACGCCAACCAGG	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136594158	136594158	+	Silent	SNP	G	G	A	rs2236783	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	83	192	0	0.417085	0	G|0.584;A|0.416	0.416	strong	.	LCT	309	.	NM_002299	exon1	c.C582T	p.T194T	ACTGAGGGTCTGG	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24417415	24417415	+	Missense_Mutation	SNP	T	T	C	rs6700245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	59	92	0	0.513043	0	T|0.841;C|0.159	0.159	strong	.	MYOM3	131	.	NM_152372	exon12	c.A1304G	p.Q435R	AGGCCTTGGATTG	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38385707	38385707	+	Silent	SNP	G	G	A	rs189713744	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	29	57	0	0.453125	0	G|1.000;A|0.000	0.000	strong	.	WDR87	191	.	NM_031951	exon4	c.C519T	p.A173A	ACACAGGGCCAGG	.	PASS	Atlas-SNP
ZNF835	90485	hgsc.bcm.edu	37	19	57176198	57176198	+	Silent	SNP	T	T	G	rs8108756	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	37	47	0	0.627119	0	T|0.587;G|0.413	0.413	strong	.	ZNF835	106	.	NM_001005850	exon2	c.A369C	p.S123S	GAACGCTGAACAG	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17831419	17831419	+	Silent	SNP	G	G	A	rs2277080	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	51	117	0	0.463636	0	G|0.777;A|0.223	0.223	strong	.	KIF13A	276	.	NM_001105567	exon13	c.C1314T	p.S438S	GATACCGGACATC	.	PASS	Atlas-SNP
NCKAP5L	57701	hgsc.bcm.edu	37	12	50186585	50186585	+	Silent	SNP	T	T	C	rs138292278	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	34	54	0	0.435897	0	T|0.993;C|0.007	0.007	strong	.	NCKAP5L	142	.	NM_001037806	exon11	c.A3525G	p.T1175T	CTCCAGTGTGTGG	.	PASS	Atlas-SNP
UCP1	7350	hgsc.bcm.edu	37	4	141483471	141483471	+	Missense_Mutation	SNP	T	T	A	rs2270565	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	51	86	0	0.476636	0	T|0.932;A|0.068	0.068	strong	.	UCP1	33	.	NM_021833	exon5	c.A685T	p.M229L	AGGACATAGCTGT	.	PASS	Atlas-SNP
CMPK1	51727	hgsc.bcm.edu	37	1	47799639	47799639	+	Missense_Mutation	SNP	G	G	C	rs7543016	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	66	59	0	0.985075	0	G|0.428;C|0.572	0.572	strong	.	CMPK1	13	.	NM_016308	exon1	c.G22C	p.G8R	CGCAGCGGGCTGC	.	PASS	Atlas-SNP
OR6C74	254783	hgsc.bcm.edu	37	12	55641255	55641255	+	Nonsense_Mutation	SNP	C	C	T	rs4522268	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	83	167	0	0.441489	0	C|0.743;N|0.000	.	strong	OR6C74,colon,carcinoma,0,6	OR6C74	52	6	NM_001005490	exon1	c.C184T	p.R62X	TTCCTCCGAAATT	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11589911	11589911	+	Silent	SNP	G	G	A	rs2076468	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	56	103	0	0.440945	0	G|0.816;A|0.184	0.184	strong	.	PTCHD2	193	.	NM_020780	exon15	c.G2997A	p.P999P	GAAGCCGGCGGTG	.	PASS	Atlas-SNP
SERPINC1	462	hgsc.bcm.edu	37	1	173878862	173878862	+	Silent	SNP	T	T	C	rs5877	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	46	94	0	0.335766	0	T|0.474;C|0.526	0.526	strong	.	SERPINC1	57	.	NM_000488	exon5	c.A981G	p.V327V	CTTCTCTACCTTG	.	PASS	Atlas-SNP
ARHGEF35	445328	hgsc.bcm.edu	37	7	143884216	143884216	+	Missense_Mutation	SNP	G	G	C	rs200777966	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	458	88	294	0	0.19214	0	G|0.999;C|0.001	0.001	strong	.	ARHGEF35	11	.	NM_001003702	exon2	c.C1261G	p.L421V	GAAACAGGTCACA	.	PASS	Atlas-SNP
SLC39A9	55334	hgsc.bcm.edu	37	14	69908982	69908982	+	Silent	SNP	C	C	T	rs373683599		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	3	159	1	0.014218	0.00628931	.	.	weak	SLC39A9,caecum,carcinoma,0,1	SLC39A9	27	1	NM_001252150	exon3	c.C402T	p.D134D	TACTGACGGTGAG	.	scavenged	Atlas-SNP
CCRL1	51554	hgsc.bcm.edu	37	3	132319361	132319361	+	Silent	SNP	A	A	C	rs61748105	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	646	254	504	0	0.393189	0	A|0.953;C|0.047	0.047	strong	.	CCRL1	30	.	NM_178445	exon1	c.A120C	p.A40A	ATTTGCAAAAGTT	.	PASS	Atlas-SNP
PCNXL2	80003	hgsc.bcm.edu	37	1	233225848	233225848	+	Silent	SNP	T	T	C	rs12059884	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	46	110	0	0.370968	0	T|0.854;C|0.146	0.146	strong	.	PCNXL2	204	.	NM_014801	exon23	c.A4035G	p.T1345T	ATATGATGTGATG	.	PASS	Atlas-SNP
RASSF2	9770	hgsc.bcm.edu	37	20	4768282	4768282	+	Silent	SNP	G	G	A	rs6052876	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	36	114	0	0.367347	0	G|0.954;A|0.046	0.046	strong	.	RASSF2	75	.	NM_014737	exon10	c.C810T	p.Y270Y	CACGTCGTAGGTG	.	PASS	Atlas-SNP
NEK5	341676	hgsc.bcm.edu	37	13	52667228	52667228	+	Silent	SNP	G	G	A	rs55715265	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	56	132	0	0.405797	0	G|0.967;A|0.033	0.033	strong	.	NEK5	189	.	NM_199289	exon13	c.C1170T	p.Y390Y	CTGACCGTAATCC	.	PASS	Atlas-SNP
CLIP1	6249	hgsc.bcm.edu	37	12	122825398	122825398	+	Missense_Mutation	SNP	C	C	T	rs61954403	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	93	175	0	0.534483	0	C|0.990;T|0.010	0.010	strong	.	CLIP1	126	.	NM_001247997	exon11	c.G2353A	p.E785K	TACCTTCGGAACT	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890117	7890117	+	Missense_Mutation	SNP	T	T	C	rs2640909	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	39	107	0	0.419355	0	T|0.783;C|0.217	0.217	strong	.	PER3	95	.	NM_016831	exon18	c.T3083C	p.M1028T	TGTCCATGGGATT	.	PASS	Atlas-SNP
CLEC12B	387837	hgsc.bcm.edu	37	12	10163379	10163379	+	Silent	SNP	C	C	T	rs1359083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	63	0	0.454545	0	C|0.683;T|0.317	0.317	strong	.	CLEC12B	25	.	NM_001129998	exon1	c.C21T	p.Y7Y	GACCTACGCGACA	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124265687	124265687	+	Missense_Mutation	SNP	T	T	C	rs11057353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	124	1	1	0.00806452	T|0.310;C|0.690	0.690	strong	.	DNAH10	888	.	NM_207437	exon6	c.T499C	p.S167P	GTCACATCTGGAG	.	PASS	Atlas-SNP
YARS	8565	hgsc.bcm.edu	37	1	33246709	33246709	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	31	53	0	0.5	0	.	.	none	.	YARS	34	.	NM_003680	exon10	c.A1080G	p.P360P	CTCCTCTGGTTCT	.	PASS	Atlas-SNP
HHIPL2	79802	hgsc.bcm.edu	37	1	222712108	222712108	+	Missense_Mutation	SNP	G	G	T	rs116359984	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	63	119	0	0.533898	0	G|0.995;T|0.005	0.005	strong	.	HHIPL2	122	.	NM_024746	exon5	c.C1459A	p.L487M	TTGGCAGAACATC	.	PASS	Atlas-SNP
FGGY	55277	hgsc.bcm.edu	37	1	59787350	59787350	+	Missense_Mutation	SNP	T	T	G	rs835409	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	67	102	0	0.57265	0	T|0.565;G|0.435	0.435	strong	FGGY_ENST00000303721,NS,carcinoma,0,1	FGGY	99	1	NM_001113411	exon2	c.T129G	p.N43K	TAAGAATTGGGAG	.	PASS	Atlas-SNP
ZFP106	64397	hgsc.bcm.edu	37	15	42744094	42744094	+	Missense_Mutation	SNP	A	A	G	rs12440118	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	46	89	0	0.469388	0	A|0.907;G|0.093	0.093	strong	.	ZFP106	117	.	NM_022473	exon2	c.T307C	p.W103R	GTCTCCATTGGGG	.	PASS	Atlas-SNP
KRTAP5-10	387273	hgsc.bcm.edu	37	11	71276681	71276681	+	Silent	SNP	T	T	C	rs113879786	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	20	109	0	0.243902	0	T|0.717;C|0.283	0.283	strong	.	KRTAP5-10	37	.	NM_001012710	exon1	c.T48C	p.G16G	TGGGGGTTGTGGC	.	PASS	Atlas-SNP
PSORS1C1	170679	hgsc.bcm.edu	37	6	31106499	31106499	+	Missense_Mutation	SNP	G	G	A	rs9263726	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	63	108	0	0.583333	0	G|0.879;A|0.121	0.121	strong	.	PSORS1C1	11	.	NM_014068	exon5	c.G110A	p.R37H	AAACTCGTCCCCC	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42872779	42872779	+	Silent	SNP	C	C	T	rs2273951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	64	98	0	0.556522	0	C|0.887;T|0.113	0.113	strong	.	AKAP11	146	.	NM_016248	exon7	c.C462T	p.Y154Y	AAGGTACACCTTG	.	PASS	Atlas-SNP
ACOXL	55289	hgsc.bcm.edu	37	2	111850515	111850515	+	Missense_Mutation	SNP	C	C	T	rs17041850	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	36	89	1	0.418605	0.011236	C|0.930;T|0.070	0.070	strong	ACOXL_ENST00000439055,right_upper_lobe,carcinoma,-1,2	ACOXL	93	2	NM_001142807	exon17	c.C1514T	p.P505L	TGACTCCCATGGC	.	scavenged	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	37	18	76753588	76753588	+	Missense_Mutation	SNP	A	A	G	rs7240860	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	4	4	1	1	1	1	A|0.251;G|0.749	0.749	strong	SALL3,NS,carcinoma,0,1	SALL3	162	1	NM_171999	exon2	c.A1597G	p.T533A	CCGCCCACTGTCC	.	scavenged	Atlas-SNP
MRPL1	65008	hgsc.bcm.edu	37	4	78792906	78792906	+	Missense_Mutation	SNP	C	C	T	rs373565703		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	51	126	0	0.472222	0	.	.	weak	.	MRPL1	37	.	NM_020236	exon2	c.C40T	p.H14Y	TTGATACATCATC	.	PASS	Atlas-SNP
TRPC4	7223	hgsc.bcm.edu	37	13	38225406	38225406	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	237	112	254	1	0.472574	0.00393701	.	.	none	.	TRPC4	389	.	NM_003306	exon8	c.T2075C	p.I692T	ACCCCTATTGTTC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280759	152280759	+	Silent	SNP	A	A	G	rs2338554	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	364	97	243	1	0.266484	0.00411523	A|0.718;G|0.282	0.282	strong	FLG,NS,carcinoma,-2,2	FLG	900	2	NM_002016	exon3	c.T6603C	p.D2201D	AGAGCCATCTCCT	.	scavenged	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51947257	51947257	+	Silent	SNP	G	G	A	rs6901799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	54	84	0	0.514286	0	G|0.920;A|0.080	0.080	strong	.	PKHD1	927	.	NM_170724	exon4	c.C214T	p.L72L	TCCGCAGTGCGGG	.	PASS	Atlas-SNP
BCL2L13	23786	hgsc.bcm.edu	37	22	18209718	18209718	+	Silent	SNP	C	C	T	rs2535688	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	17	27	0	0.548387	0	C|0.897;T|0.103	0.103	strong	.	BCL2L13	27	.	NM_001270726	exon6	c.C948T	p.N316N	CAGCAACGGAGCT	.	PASS	Atlas-SNP
BIN1	274	hgsc.bcm.edu	37	2	127811561	127811561	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	67	173	0	0.41358	0	.	.	none	.	BIN1	85	.	NM_139343	exon13	c.C1159T	p.Q387X	TGGCCTGCTCCGA	.	PASS	Atlas-SNP
STXBP4	252983	hgsc.bcm.edu	37	17	53158492	53158492	+	Silent	SNP	G	G	A	rs8069999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	65	153	0	0.503876	0	G|0.813;A|0.187	0.187	strong	.	STXBP4	41	.	NM_178509	exon16	c.G1437A	p.A479A	GCTGGCGCTTGAA	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89866043	89866043	+	Missense_Mutation	SNP	T	T	C	rs7190823	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	55	101	2	0.533981	0.019802	T|0.408;C|0.592	0.592	strong	FANCA,colon,carcinoma,+1,1	FANCA	99	1	NM_000135	exon9	c.A796G	p.T266A	CAACCGTGACCTG	.	scavenged	Atlas-SNP
COQ3	51805	hgsc.bcm.edu	37	6	99825348	99825348	+	Missense_Mutation	SNP	T	T	C	rs11548336	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	27	0	1	0	T|0.701;C|0.299	0.299	strong	.	COQ3	19	.	NM_017421	exon4	c.A400G	p.K134E	TTGTTTTCAGAAG	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115931593	115931593	+	Silent	SNP	G	G	A	rs1128122	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	55	134	0	0.407407	0	G|0.953;A|0.047	0.047	strong	FKBP15_ENST00000238256,NS,carcinoma,-1,2	FKBP15	128	2	NM_015258	exon26	c.C3396T	p.T1132T	GGGACCGGTGGAG	.	PASS	Atlas-SNP
MED24	9862	hgsc.bcm.edu	37	17	38179492	38179492	+	Silent	SNP	A	A	G	rs2302777	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	50	87	0	0.49505	0	A|0.706;G|0.294	0.294	strong	.	MED24	89	.	NM_014815	exon20	c.T2142C	p.I714I	GGCAAAAATGTCC	.	PASS	Atlas-SNP
OR8J1	219477	hgsc.bcm.edu	37	11	56128081	56128081	+	Missense_Mutation	SNP	A	A	G	rs10896290	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	60	165	0	0.434783	0	A|0.712;G|0.288	0.288	strong	OR8J1,head_neck,carcinoma,0,1	OR8J1	87	1	NM_001005205	exon1	c.A359G	p.Y120C	TGGCCTATGACCG	.	PASS	Atlas-SNP
WNT16	51384	hgsc.bcm.edu	37	7	120969769	120969769	+	Missense_Mutation	SNP	G	G	A	rs2908004	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	13	31	0	0.5	0	G|0.462;A|0.538	0.538	strong	WNT16_ENST00000361301,brain,glioma,0,2	WNT16	97	2	NM_057168	exon2	c.G244A	p.G82R	GAGTGCGGGAGCC	.	PASS	Atlas-SNP
MAN2B1	4125	hgsc.bcm.edu	37	19	12774208	12774208	+	Missense_Mutation	SNP	G	G	C	rs1054486	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	33	55	0	0.589286	0	G|0.717;C|0.283	0.283	strong	.	MAN2B1	91	.	NM_001173498	exon6	c.C832G	p.L278V	CCACCAGCGGCTG	.	PASS	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127215778	127215778	+	Missense_Mutation	SNP	C	C	T	rs67997410	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	14	26	0	0.777778	0	C|0.271;T|0.729	0.729	strong	GPR144,rectum,carcinoma,0,1	GPR144	33	1	NM_001161808	exon4	c.C802T	p.L268F	CACGCCCTCAGCG	.	PASS	Atlas-SNP
DGKH	160851	hgsc.bcm.edu	37	13	42772717	42772717	+	Silent	SNP	G	G	T	rs9533031	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	94	96	0	0.979167	0	G|0.519;T|0.481	0.481	strong	.	DGKH	106	.	NM_001204504	exon19	c.G2271T	p.P757P	TGACCCGGATCTA	.	PASS	Atlas-SNP
SP8	221833	hgsc.bcm.edu	37	7	20824953	20824953	+	Silent	SNP	G	G	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	9	2	0	1	0	.	.	none	.	SP8	43	.	NM_182700	exon2	c.C483G	p.G161G	GCCGCCGCCCCCG	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	2808730	2808730	+	Missense_Mutation	SNP	T	T	A	rs34337712	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	26	84	0	0.288889	0	T|0.962;A|0.038	0.038	strong	.	CSMD1	1469	.	NM_033225	exon66	c.A10107T	p.Q3369H	GGCGGGTTGTCTT	.	PASS	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	37	9	123917045	123917045	+	Missense_Mutation	SNP	A	A	G	rs149632088	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	39	56	0	0.6	0	A|0.999;G|0.001	0.001	strong	.	CNTRL	161	.	NM_007018	exon25	c.A4219G	p.I1407V	CTAGAAATAGAAA	.	PASS	Atlas-SNP
MTMR7	9108	hgsc.bcm.edu	37	8	17218629	17218629	+	Silent	SNP	G	G	A	rs1024355	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	78	81	0	1	0	G|0.778;A|0.222	0.222	strong	MTMR7,NS,carcinoma,-1,2	MTMR7	75	2	NM_004686	exon4	c.C465T	p.Y155Y	CACTCTGTAGTCT	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220354108	220354108	+	Missense_Mutation	SNP	A	A	G	rs55760516	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	42	82	0	0.575342	0	A|0.648;G|0.352	0.352	strong	.	SPEG	272	.	NM_005876	exon36	c.A8368G	p.R2790G	ACCTCAAGGCCAG	.	PASS	Atlas-SNP
WDR33	55339	hgsc.bcm.edu	37	2	128528508	128528508	+	Silent	SNP	C	C	T	rs55916728	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	75	121	0	0.503356	0	C|0.972;T|0.028	0.028	strong	.	WDR33	136	.	NM_001006623	exon2	c.G48A	p.R16R	CTGGAACCTTGGC	.	PASS	Atlas-SNP
TBX4	9496	hgsc.bcm.edu	37	17	59560751	59560751	+	Silent	SNP	G	G	A	rs117324438	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	53	94	0	0.514563	0	G|0.999;A|0.001	0.001	strong	.	TBX4	69	.	NM_018488	exon8	c.G1512A	p.K504K	GAGGAAGCCACCC	.	PASS	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56676233	56676233	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	7	187	0	0.035533	0	.	.	none	CS,NS,adenoma,+1,1	CS	44	1	NM_004077	exon6	c.C559T	p.Q187X	TACCCTGTGCATA	.	scavenged	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	37	1	75037845	75037845	+	Silent	SNP	A	A	G	rs12723334	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	45	102	0	0.459184	0	A|0.649;G|0.351	0.351	strong	.	C1orf173	380	.	NM_001002912	exon14	c.T3549C	p.S1183S	GGCTTCACTCAGT	.	PASS	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	37	1	75055741	75055741	+	Missense_Mutation	SNP	A	A	C	rs74513893	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	46	100	0	0.534884	0	A|0.999;C|0.001	0.001	strong	.	C1orf173	380	.	NM_001002912	exon12	c.T1750G	p.S584A	TGGATGAGGTTGA	.	PASS	Atlas-SNP
MFSD6	54842	hgsc.bcm.edu	37	2	191301368	191301368	+	Missense_Mutation	SNP	A	A	G	rs9646748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	49	117	0	0.426087	0	A|0.532;G|0.468	0.468	strong	.	MFSD6	58	.	NM_017694	exon3	c.A613G	p.R205G	GAAACAAGGCTCA	.	PASS	Atlas-SNP
FASTKD2	22868	hgsc.bcm.edu	37	2	207631461	207631461	+	Missense_Mutation	SNP	G	G	A	rs3762568	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	88	139	0	0.53012	0	G|0.885;A|0.115	0.115	strong	.	FASTKD2	49	.	NM_001136193	exon2	c.G44A	p.S15N	TGGAGAGCAAAAT	.	PASS	Atlas-SNP
GDPD2	54857	hgsc.bcm.edu	37	X	69652762	69652762	+	Silent	SNP	A	A	G	rs2296542	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	111	0	1	0	A|0.161;G|0.839	0.839	strong	.	GDPD2	80	.	NM_001171192	exon16	c.A1692G	p.R564R	CCACAGAAGATTT	.	PASS	Atlas-SNP
HKR1	284459	hgsc.bcm.edu	37	19	37854580	37854580	+	Missense_Mutation	SNP	C	C	T	rs3745764	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	44	86	0	0.517647	0	C|0.794;T|0.206	0.206	strong	.	HKR1	74	.	NM_181786	exon6	c.C1883T	p.T628I	AGAGGACACATTC	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240981262	240981262	+	Missense_Mutation	SNP	A	A	C	rs6728493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	20	41	0	0.571429	0	A|0.620;C|0.380	0.380	strong	.	PRR21	53	.	NM_001080835	exon1	c.T1138G	p.S380A	TGTTAGAAACAAG	.	PASS	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	37	11	117391966	117391966	+	Silent	SNP	G	G	A	rs2276340	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	33	66	0	0.568965	0	G|0.848;A|0.152	0.152	strong	DSCAML1,colon,carcinoma,-1,1	DSCAML1	286	1	NM_020693	exon6	c.C1272T	p.R424R	GAGCCCGCGGATG	.	PASS	Atlas-SNP
USP1	7398	hgsc.bcm.edu	37	1	62907883	62907883	+	Silent	SNP	C	C	G	rs34521477	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	51	121	0	0.447368	0	C|0.975;G|0.025	0.025	strong	.	USP1	51	.	NM_001017415	exon4	c.C309G	p.P103P	TTGTCCCGGTTTT	.	PASS	Atlas-SNP
HLTF	6596	hgsc.bcm.edu	37	3	148786085	148786085	+	Missense_Mutation	SNP	T	T	C	rs2305868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	33	78	0	0.340206	0	T|0.977;C|0.023	0.023	strong	.	HLTF	87	.	NM_139048	exon8	c.A932G	p.N311S	TGGAAGTTGGTAA	.	PASS	Atlas-SNP
P2RX4	5025	hgsc.bcm.edu	37	12	121666646	121666646	+	Missense_Mutation	SNP	A	A	G	rs25644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	47	117	0	0.405172	0	A|0.860;G|0.140	0.140	strong	.	P2RX4	27	.	NM_001256796	exon8	c.A772G	p.S258G	GGACACAGTTTCC	.	PASS	Atlas-SNP
RTN4RL1	146760	hgsc.bcm.edu	37	17	1840677	1840677	+	Missense_Mutation	SNP	C	C	T	rs181444163	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	35	70	0	0.555556	0	C|0.995;T|0.005	0.005	strong	RTN4RL1,NS,carcinoma,0,1	RTN4RL1	21	1	NM_178568	exon2	c.G439A	p.G147S	GCAGGCCGCCAAA	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204589101	204589101	+	Missense_Mutation	SNP	G	G	A	rs3789044	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	45	82	0	0.381356	0	G|0.822;A|0.178	0.178	strong	LRRN2,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,2	LRRN2	81	2	NM_006338	exon3	c.C20T	p.P7L	AAGAGTGGGGCCA	.	PASS	Atlas-SNP
RIN3	79890	hgsc.bcm.edu	37	14	93118229	93118229	+	Missense_Mutation	SNP	C	C	T	rs117068593	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	36	38	0	0.654545	0	C|0.886;T|0.114	0.114	strong	.	RIN3	81	.	NM_024832	exon6	c.C835T	p.R279C	CCACGCCGCCCAC	.	PASS	Atlas-SNP
DOCK1	1793	hgsc.bcm.edu	37	10	128807018	128807018	+	Silent	SNP	A	A	C	rs35541322	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	39	95	0	0.565217	0	A|0.964;C|0.036	0.036	strong	.	DOCK1	188	.	NM_001380	exon11	c.A1008C	p.I336I	TATAATAAATGGA	.	PASS	Atlas-SNP
AGPAT2	10555	hgsc.bcm.edu	37	9	139571430	139571430	+	Missense_Mutation	SNP	G	G	A	rs142993240	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	40	81	0	0.43956	0	G|0.997;A|0.003	0.003	strong	.	AGPAT2	17	.	NM_001012727	exon3	c.C475T	p.R159C	CCATGCGCTCGCC	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	37	22	32754103	32754103	+	Missense_Mutation	SNP	A	A	C	rs58637580	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	215	96	194	0	0.446512	0	A|0.883;C|0.108;T|0.009	0.108	strong	.	RFPL3	91	.	NM_001098535	exon1	c.A45C	p.Q15H	ACCTCAAGGAAAT	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104639519	104639519	+	Silent	SNP	C	C	G	rs61743517	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	16	36	0	0.410256	0	C|0.973;G|0.027	0.027	strong	.	KIF26A	84	.	NM_015656	exon8	c.C1626G	p.L542L	CAGCCTCCAGGAC	.	PASS	Atlas-SNP
CAMKK2	10645	hgsc.bcm.edu	37	12	121691096	121691096	+	Missense_Mutation	SNP	G	G	A	rs1132780	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	71	129	0	0.5	0	G|0.795;A|0.205	0.205	strong	.	CAMKK2	87	.	NM_153500	exon10	c.C1087T	p.R363C	TCTTGCGGGTCTC	.	PASS	Atlas-SNP
PEMT	10400	hgsc.bcm.edu	37	17	17409140	17409140	+	Missense_Mutation	SNP	G	G	A	rs140621950	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	64	152	0	0.423841	0	G|0.999;A|0.001	0.001	strong	.	PEMT	12	.	NM_148172	exon7	c.C676T	p.R226W	TCTGCCGGTAGAT	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57573261	57573261	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	2	122	0	0.0148148	0	.	.	none	LRP1,NS,carcinoma,0,1	LRP1	428	1	NM_002332	exon29	c.T4888C	p.Y1630H	CGTGTGTACTGGT	.	scavenged	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183286	11183286	+	Missense_Mutation	SNP	G	G	C	rs10845294	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	112	136	0	0.973913	0	G|0.834;C|0.166	0.166	strong	.	TAS2R31	24	.	NM_176885	exon1	c.C649G	p.Q217E	GATCTTGAGATCC	.	PASS	Atlas-SNP
SELE	6401	hgsc.bcm.edu	37	1	169694918	169694918	+	Silent	SNP	A	A	G	rs5356	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	67	90	0	0.51145	0	A|0.886;G|0.114	0.114	strong	.	SELE	84	.	NM_000450	exon13	c.T1800C	p.D600D	GCTTCCATCTGAT	.	PASS	Atlas-SNP
PRKCZ	5590	hgsc.bcm.edu	37	1	1991014	1991014	+	Silent	SNP	A	A	G	rs1878745	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	63	121	0	0.443662	0	A|0.809;G|0.191	0.191	strong	PRKCZ_ENST00000378567,NS,carcinoma,+1,4	PRKCZ	84	4	NM_002744	exon4	c.A318G	p.P106P	CCTGCCATGTCCG	.	PASS	Atlas-SNP
C19orf40	91442	hgsc.bcm.edu	37	19	33467576	33467576	+	Silent	SNP	G	G	A	rs7258185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	20	60	0	0.392157	0	G|0.753;A|0.247	0.247	strong	.	C19orf40	21	.	NM_152266	exon5	c.G636A	p.T212T	CTTCACGCAGCCC	.	PASS	Atlas-SNP
NASP	4678	hgsc.bcm.edu	37	1	46073489	46073489	+	Silent	SNP	G	G	A	rs2230657	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	82	103	3	1	0.0291262	G|0.444;A|0.556	0.556	strong	NASP,colon,carcinoma,0,1	NASP	77	1	NM_002482	exon6	c.G906A	p.P302P	AGACCCGACAGTC	.	scavenged	Atlas-SNP
BNIPL	149428	hgsc.bcm.edu	37	1	151011325	151011325	+	Missense_Mutation	SNP	C	C	T	rs61751619	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	82	87	0	0.607407	0	C|0.909;T|0.091	0.091	strong	BNIPL,colon,carcinoma,-1,1	BNIPL	45	1	NM_138278	exon4	c.C256T	p.R86C	CGCAAGCGTCTTT	.	PASS	Atlas-SNP
ARC	23237	hgsc.bcm.edu	37	8	143694775	143694775	+	Silent	SNP	G	G	C	rs28686812	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	41	37	1	0.97619	0.027027	G|0.488;C|0.512	0.512	strong	ARC,NS,carcinoma,-2,1	ARC	34	1	NM_015193	exon1	c.C858G	p.R286R	CAGCTCGCGCTGG	.	scavenged	Atlas-SNP
ZNF645	158506	hgsc.bcm.edu	37	X	22291942	22291942	+	Silent	SNP	G	G	A	rs138094158	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	160	156	0	0.993789	0	G|0.997;A|0.003	0.003	strong	.	ZNF645	67	.	NM_152577	exon1	c.G834A	p.Q278Q	ACCTCAGAAACAG	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	37	9	77377410	77377410	+	Missense_Mutation	SNP	C	C	T	rs3750425	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	40	79	0	0.547945	0	C|0.855;T|0.145	0.145	strong	.	TRPM6	377	.	NM_017662	exon26	c.G4177A	p.V1393I	AGACAACTGGGGT	.	PASS	Atlas-SNP
IL34	146433	hgsc.bcm.edu	37	16	70694000	70694000	+	Nonsense_Mutation	SNP	C	C	A	rs4985556	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	58	140	0	0.345238	0	C|0.927;A|0.073	0.073	strong	.	IL34	26	.	NM_152456	exon7	c.C639A	p.Y213X	GCTGTACCCTCCG	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152722368	152722368	+	Missense_Mutation	SNP	A	A	G	rs138004884	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	63	159	0	0.403846	0	A|0.999;G|0.001	0.001	strong	.	SYNE1	3227	.	NM_033071	exon47	c.T6955C	p.F2319L	TAATAAACTTCTC	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3413868	3413868	+	Missense_Mutation	SNP	C	C	G	rs4648506	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	20	20	0	0.487805	0	C|0.736;G|0.264	0.264	strong	.	MEGF6	91	.	NM_001409	exon27	c.G3410C	p.G1137A	GCAGCGCCAGGCG	.	PASS	Atlas-SNP
BAGE3	85318	hgsc.bcm.edu	37	21	11058322	11058322	+	Missense_Mutation	SNP	C	C	T	rs2951027	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	238	14	200	0	0.0588235	0	C|0.750;T|0.250	0.250	strong	.	.	.	.	NM_182481	exon3	c.G118A	p.D40N	GCACATCGCTGAA	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61828954	61828954	+	Silent	SNP	G	G	A	rs7923682	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	487	241	414	0	0.494867	0	G|0.981;A|0.019	0.019	strong	.	ANK3	703	.	NM_020987	exon37	c.C11685T	p.S3895S	TTTCTCGGATTGA	.	PASS	Atlas-SNP
TRUB1	142940	hgsc.bcm.edu	37	10	116719543	116719543	+	Missense_Mutation	SNP	G	G	A	rs7099565	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	34	61	0	0.465753	0	G|0.500;A|0.500	0.500	strong	.	TRUB1	30	.	NM_139169	exon4	c.G500A	p.R167K	CGGGGAGGGTAAC	.	PASS	Atlas-SNP
KCTD8	386617	hgsc.bcm.edu	37	4	44176960	44176960	+	Silent	SNP	T	T	C	rs13143747	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	79	212	2	0.424731	0.00943396	T|0.929;C|0.071	0.071	strong	KCTD8,NS,carcinoma,-1,1	KCTD8	96	1	NM_198353	exon2	c.A1269G	p.T423T	CAGATTTGTTTCC	.	scavenged	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29779914	29779914	+	Missense_Mutation	SNP	C	C	T	rs148355552	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	34	60	0	0.414634	0	C|0.979;T|0.021	0.021	strong	.	SVIL	226	.	NM_021738	exon22	c.G4054A	p.V1352I	GCCTAACTGCCCG	.	PASS	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	37	12	108035903	108035903	+	Silent	SNP	T	T	C	rs9919712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	80	137	0	0.516129	0	T|0.779;C|0.221	0.221	strong	.	BTBD11	122	.	NM_001018072	exon14	c.T2877C	p.D959D	AAATGATGGCACC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103384824	103384824	+	Missense_Mutation	SNP	G	G	A	rs9300756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	46	80	0	0.489362	0	G|0.321;A|0.679	0.679	strong	.	.	.	.	NM_001146197	exon4	c.C18223T	p.R6075C	CTTTACGTTTGGG	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6554941	6554941	+	Missense_Mutation	SNP	C	C	A	rs4282961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	38	95	0	0.527778	0	C|0.773;A|0.227	0.227	strong	.	DNHD1	198	.	NM_144666	exon14	c.C2536A	p.L846M	GTCGAGCTGGAGG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323262	31323262	+	Missense_Mutation	SNP	G	G	A	rs77665001	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	32	120	0	0.22695	0	A|0.049;G|0.951	0.049	strong	.	HLA-B	54	.	NM_005514	exon4	c.C727T	p.R243W	CATCCCGCTGCCA	.	PASS	Atlas-SNP
GRM8	2918	hgsc.bcm.edu	37	7	126542667	126542667	+	Missense_Mutation	SNP	A	A	T	rs78124913	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	74	160	0	0.468354	0	A|0.896;T|0.104	0.104	strong	GRM8,NS,carcinoma,0,1	GRM8	377	1	NM_000845	exon5	c.T1085A	p.F362Y	TCCCAGAATTCTG	.	PASS	Atlas-SNP
BAZ2A	11176	hgsc.bcm.edu	37	12	56995907	56995907	+	Missense_Mutation	SNP	G	G	A	rs202169462	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	45	87	0	0.517241	0	G|0.999;A|0.001	0.001	strong	.	BAZ2A	263	.	NM_013449	exon20	c.C3500T	p.A1167V	AAGAGGGCAGGGT	.	PASS	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	37	2	207171311	207171311	+	Missense_Mutation	SNP	C	C	T	rs192597586	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	36	86	0	0.486486	0	C|0.999;T|0.001	0.001	strong	.	ZDBF2	531	.	NM_020923	exon5	c.C2059T	p.R687C	ATAGAGCGTCAGA	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3417545	3417545	+	Missense_Mutation	SNP	A	A	G	rs41303857	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	57	83	0	0.448819	0	A|0.998;G|0.002	0.002	strong	.	MEGF6	91	.	NM_001409	exon20	c.T2560C	p.F854L	AGCTAAAGCCGGT	.	PASS	Atlas-SNP
MADD	8567	hgsc.bcm.edu	37	11	47306630	47306630	+	Nonsense_Mutation	SNP	C	C	T	rs35233100	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	14	49	0	0.297872	0	C|0.962;T|0.038	0.038	strong	.	MADD	172	.	NM_130470	exon13	c.C2296T	p.R766X	CGCCGGCGAATCT	.	PASS	Atlas-SNP
LRCH4	4034	hgsc.bcm.edu	37	7	100172858	100172858	+	Missense_Mutation	SNP	C	C	T	rs3197597	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	21	26	0	0.677419	0	C|0.922;T|0.078	0.078	strong	.	LRCH4	53	.	NM_002319	exon18	c.G1924A	p.V642M	GCTTCACGGCCTC	.	PASS	Atlas-SNP
CSTA	1475	hgsc.bcm.edu	37	3	122060404	122060404	+	Missense_Mutation	SNP	C	C	T	rs34173813	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	46	36	0	0.638889	0	T|0.104;G|0.000;C|0.895	0.104	strong	.	CSTA	11	.	NM_005213	exon3	c.C287T	p.T96M	AGCTGACGGGCTT	.	PASS	Atlas-SNP
PIK3CA	5290	hgsc.bcm.edu	37	3	178936082	178936082	+	Missense_Mutation	SNP	G	G	A	rs121913273		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	372	85	275	1	0.228495	0.00363636	.	.	weak	PIK3CA_ENST00000263967,NS,carcinoma,0,745	PIK3CA	8460	745	NM_006218	exon10	c.G1624A	p.E542K	CTCTCTGAAATCA	.	scavenged	Atlas-SNP
ATG4B	23192	hgsc.bcm.edu	37	2	242610738	242610738	+	Silent	SNP	T	T	C	rs11538896	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	51	97	0	0.504951	0	T|0.776;C|0.224	0.224	strong	.	ATG4B	35	.	NM_178326	exon12	c.T1026C	p.L342L	TCTGCTTGGAGGT	.	PASS	Atlas-SNP
IQCG	84223	hgsc.bcm.edu	37	3	197670652	197670652	+	Silent	SNP	G	G	A	rs3828371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	72	105	0	0.571429	0	G|0.937;A|0.063	0.063	strong	.	IQCG	44	.	NM_032263	exon4	c.C279T	p.C93C	TACCACGCAGATG	.	PASS	Atlas-SNP
MAP3K8	1326	hgsc.bcm.edu	37	10	30728101	30728101	+	Silent	SNP	T	T	C	rs1042058	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	109	130	0	0.990909	0	T|0.582;C|0.418	0.418	strong	.	MAP3K8	46	.	NM_001244134	exon2	c.T234C	p.Y78Y	CAGATATGGAACT	.	PASS	Atlas-SNP
PHLPP2	23035	hgsc.bcm.edu	37	16	71712786	71712786	+	Silent	SNP	A	A	G	rs61733126	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	52	86	0	0.485981	0	A|0.899;G|0.101	0.101	strong	.	PHLPP2	96	.	NM_015020	exon7	c.T1140C	p.F380F	TTGACTAAAGTTG	.	PASS	Atlas-SNP
OR4K1	79544	hgsc.bcm.edu	37	14	20404736	20404736	+	Missense_Mutation	SNP	G	G	A	rs2792146	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	12	48	0	0.342857	0	G|0.548;A|0.452	0.452	strong	.	OR4K1	108	.	NM_001004063	exon1	c.G911A	p.R304H	GAAACCGTCATGT	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155451352	155451352	+	Missense_Mutation	SNP	G	G	A	rs931312	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	58	35	0	1	0	G|0.815;A|0.185	0.185	strong	.	TIAM2	161	.	NM_012454	exon3	c.G995A	p.R332H	GCAACCGTGTCTC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276772	152276772	+	Missense_Mutation	SNP	C	C	A	rs72697000	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	263	147	200	1	0.558935	0.005	C|0.842;A|0.158	0.158	strong	.	FLG	900	.	NM_002016	exon3	c.G10590T	p.R3530S	GCTTGTCCTGGGC	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	4046101	4046101	+	Missense_Mutation	SNP	A	A	G	rs1454121	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	5	5	0	0	1	.	A|0.188;G|0.812	0.812	strong	.	ZZEF1	195	.	NM_015113	exon1	c.T89C	p.V30A	CCCGAGACCGCGG	.	PASS	Atlas-SNP
UGGT1	56886	hgsc.bcm.edu	37	2	128939817	128939817	+	Silent	SNP	G	G	A	rs1699	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	146	113	0	1	0	G|0.589;A|0.411	0.411	strong	.	UGGT1	126	.	NM_020120	exon37	c.G4197A	p.K1399K	CTGGAAGTCAGGG	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17834213	17834213	+	Silent	SNP	T	T	C	rs4716190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	39	105	0	0.541667	0	T|0.528;C|0.472	0.472	strong	.	KIF13A	276	.	NM_001105567	exon12	c.A1245G	p.R415R	TGTTTTTCTCAGC	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	146977963	146977963	+	Silent	SNP	A	A	C	rs79354452	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	74	139	0	0.471338	0	A|0.992;C|0.008	0.008	strong	.	ADGB	93	.	NM_024694	exon5	c.A459C	p.G153G	TGGAGGAATTTTG	.	PASS	Atlas-SNP
IMPG1	3617	hgsc.bcm.edu	37	6	76640781	76640781	+	Missense_Mutation	SNP	C	C	T	rs3734313	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	61	115	0	0.451852	0	C|0.826;T|0.174	0.174	strong	IMPG1,NS,carcinoma,-1,1	IMPG1	143	1	NM_001563	exon15	c.G2132A	p.R711H	TTGCAGCGACACT	.	PASS	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	37	16	722548	722548	+	Silent	SNP	A	A	G	rs1128550	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	47	84	1	0.522222	0.0119048	A|0.452;G|0.548	0.548	strong	RHOT2,NS,carcinoma,0,1	RHOT2	35	1	NM_138769	exon16	c.A1386G	p.G462G	CAATGGACAGGAG	.	scavenged	Atlas-SNP
FAM208B	54906	hgsc.bcm.edu	37	10	5799613	5799613	+	Missense_Mutation	SNP	A	A	G	rs2275774	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	81	178	0	0.50625	0	A|0.887;G|0.113	0.113	strong	.	.	.	.	NM_017782	exon17	c.A6863G	p.K2288R	ATGACAAGATACT	.	PASS	Atlas-SNP
SLC22A14	9389	hgsc.bcm.edu	37	3	38357067	38357067	+	Missense_Mutation	SNP	T	T	C	rs34256819	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	31	64	0	0.292453	0	T|0.997;C|0.003	0.003	strong	.	SLC22A14	64	.	NM_004803	exon8	c.T1397C	p.L466P	TCAGACTCAAGTG	.	PASS	Atlas-SNP
PTPN5	84867	hgsc.bcm.edu	37	11	18751041	18751041	+	Silent	SNP	C	C	T	rs1550870	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	35	33	0	1	0	C|0.633;T|0.367	0.367	strong	.	PTPN5	163	.	NM_032781	exon14	c.G1563A	p.V521V	GTCCACCACACCC	.	PASS	Atlas-SNP
SKOR1	390598	hgsc.bcm.edu	37	15	68124665	68124665	+	Silent	SNP	C	C	A	rs72751453	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	32	70	0	0.426667	0	C|0.702;A|0.298	0.298	strong	.	SKOR1	144	.	NM_001258024	exon12	c.C2350A	p.R784R	CTGGAACGGGAAT	.	PASS	Atlas-SNP
HK1	3098	hgsc.bcm.edu	37	10	71142492	71142492	+	Silent	SNP	C	C	T	rs140498607	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	17	51	0	0.346939	0	C|0.997;T|0.003	0.003	strong	.	HK1	170	.	NM_033498	exon13	c.C1527T	p.N509N	GCACAACAATGCC	.	PASS	Atlas-SNP
RPGRIP1	57096	hgsc.bcm.edu	37	14	21790040	21790040	+	Missense_Mutation	SNP	G	G	T	rs10151259	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	89	76	0	1	0	A|0.059;C|0.298	.	strong	.	RPGRIP1	213	.	NM_020366	exon13	c.G1639T	p.A547S	ACAAAAGCTGACA	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117142707	117142707	+	Missense_Mutation	SNP	G	G	A	rs201515387	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	4	62	0	0.0555556	0	G|0.995;A|0.005	0.005	strong	IGSF3_ENST00000369483,NS,carcinoma,0,2	IGSF3	294	2	NM_001542	exon8	c.C1945T	p.R649C	TTAGGCGGACGTT	.	scavenged	Atlas-SNP
ZCCHC2	54877	hgsc.bcm.edu	37	18	60241732	60241732	+	Silent	SNP	C	C	T	rs3744926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	98	140	0	0.485149	0	C|0.533;T|0.467	0.467	strong	.	ZCCHC2	64	.	NM_017742	exon13	c.C2418T	p.P806P	TACTCCCGCTTTG	.	PASS	Atlas-SNP
SETDB2	83852	hgsc.bcm.edu	37	13	50057633	50057633	+	Silent	SNP	A	A	G	rs11619265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	133	152	0	0.985185	0	A|0.477;G|0.523	0.523	strong	.	SETDB2	48	.	NM_031915	exon11	c.A1452G	p.Q484Q	AATTCAATATCAT	.	PASS	Atlas-SNP
UBXN2B	137886	hgsc.bcm.edu	37	8	59329407	59329407	+	Splice_Site	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	10	54	0	0.30303	0	.	.	none	.	UBXN2B	36	.	NM_001077619	exon2	c.85-2A>T	.	TTATGTAGTTGGC	.	PASS	Atlas-SNP
ZNF615	284370	hgsc.bcm.edu	37	19	52497250	52497250	+	Missense_Mutation	SNP	G	G	A	rs1978717	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	27	63	0	0.428571	0	G|0.596;A|0.404	0.404	strong	ZNF615,NS,carcinoma,0,2	ZNF615	111	2	NM_001199324	exon7	c.C1112T	p.T371I	TGTGCAGTAAGAC	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204425028	204425028	+	Silent	SNP	G	G	A	rs3765156	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	42	68	0	0.403846	0	G|0.839;A|0.161	0.161	strong	.	PIK3C2B	142	.	NM_002646	exon12	c.C1899T	p.F633F	GACAGTGAAGGCC	.	PASS	Atlas-SNP
GLI2	2736	hgsc.bcm.edu	37	2	121747429	121747429	+	Silent	SNP	A	A	G	rs10167980	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	61	150	0	0.451852	0	A|0.400;G|0.600	0.600	strong	.	GLI2	187	.	NM_005270	exon13	c.A3939G	p.P1313P	AGTGCCACCACCT	.	PASS	Atlas-SNP
SELP	6403	hgsc.bcm.edu	37	1	169566308	169566308	+	Silent	SNP	G	G	A	rs6132	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	42	116	0	0.242775	0	G|0.764;A|0.236	0.236	strong	.	SELP	132	.	NM_003005	exon11	c.C1812T	p.N604N	AAAGCCGTTGTCA	.	PASS	Atlas-SNP
SLC38A10	124565	hgsc.bcm.edu	37	17	79220224	79220224	+	Missense_Mutation	SNP	G	G	C	rs2725405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	61	45	0	1	0	G|0.561;C|0.439	0.439	strong	.	SLC38A10	133	.	NM_001037984	exon16	c.C2492G	p.A831G	AGCTTGGCCTGGG	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536323	1536323	+	Silent	SNP	A	A	G	rs2667671	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	22	39	0	0.458333	0	A|0.662;G|0.338	0.338	strong	PTX4,NS,carcinoma,0,1	PTX4	46	1	NM_001013658	exon3	c.T1039C	p.L347L	GCTGCAAGGGCAG	.	PASS	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	37	15	73562532	73562532	+	Silent	SNP	C	C	T	rs2680348	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	37	70	0	0.552239	0	C|0.911;T|0.089	0.089	strong	.	NEO1	102	.	NM_001172623	exon17	c.C2676T	p.T892T	CTACACCGTCCGA	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962168	151962168	+	Missense_Mutation	SNP	C	C	A	rs78352960		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	279	38	192	0	0.136201	0	C|0.500;A|0.500	0.500	weak	MLL3_ENST00000355193,extremity,malignant_melanoma,0,6	MLL3	1564	6	NM_170606	exon8	c.G1139T	p.R380L	CCTGCACGTTTTA	.	scavenged	Atlas-SNP
CACNA2D3	55799	hgsc.bcm.edu	37	3	54930794	54930794	+	Silent	SNP	C	C	T	rs17054524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	34	86	0	0.269841	0	C|0.885;T|0.115	0.115	strong	.	CACNA2D3	159	.	NM_018398	exon26	c.C2265T	p.G755G	AGCTGGCGACAAG	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39140417	39140417	+	Missense_Mutation	SNP	T	T	C	rs1510069	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	45	100	0	0.478723	0	C|0.339;N|0.005	0.339	strong	.	KRT40	27	.	NM_182497	exon3	c.A109G	p.T37A	CACAGGTACCGGG	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179315757	179315757	+	Missense_Mutation	SNP	T	T	G	rs9406386	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	18	15	0	0.375	0	T|0.825;G|0.175	0.175	strong	.	PRKRA	56	.	NM_003690	exon1	c.A1C	p.M1L	GGGACATGGCGAG	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101748234	101748234	+	Missense_Mutation	SNP	G	G	A	rs2075662	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	37	50	0	0.569231	0	G|0.772;A|0.227	0.227	strong	.	COL15A1	211	.	NM_001855	exon3	c.G488A	p.R163H	GGAACCGCTTCGC	.	PASS	Atlas-SNP
HIGD1C	613227	hgsc.bcm.edu	37	12	51354803	51354803	+	Silent	SNP	C	C	T	rs12306808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	67	141	0	0.455782	0	C|0.758;T|0.242	0.242	strong	.	HIGD1C	4	.	NM_001109619	exon2	c.C147T	p.Y49Y	AAAGTACAGAAGA	.	PASS	Atlas-SNP
ERCC1	2067	hgsc.bcm.edu	37	19	45923598	45923598	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	38	68	0	0.644068	0	.	.	none	.	ERCC1	46	.	NM_001983	exon4	c.T409C	p.C137R	GGGCACAGGTGCT	.	PASS	Atlas-SNP
RIN3	79890	hgsc.bcm.edu	37	14	93107590	93107590	+	Silent	SNP	C	C	T	rs34101393	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	43	107	0	0.43	0	C|0.957;T|0.043	0.043	strong	.	RIN3	81	.	NM_024832	exon5	c.C448T	p.L150L	GACTTACTGCCCT	.	PASS	Atlas-SNP
DHRS4L1	728635	hgsc.bcm.edu	37	14	24505722	24505722	+	Missense_Mutation	SNP	C	C	G	rs8005834	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	77	63	0	0.974684	0	C|0.569;G|0.431	0.431	strong	.	.	.	.	NM_001082488	exon1	c.C13G	p.R5G	AAGGCGCGGCTAC	.	PASS	Atlas-SNP
KRT6B	3854	hgsc.bcm.edu	37	12	52843581	52843581	+	Silent	SNP	A	A	G	rs382894		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	10	189	0	0.0490196	0	A|1.000;|0.000	.	weak	KRT6B,NS,carcinoma,0,5	KRT6B	90	5	NM_005555	exon4	c.T873C	p.L291L	ATCTGTAAGAGTG	.	scavenged	Atlas-SNP
NEK1	4750	hgsc.bcm.edu	37	4	170345893	170345893	+	Silent	SNP	C	C	T	rs7655924	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	50	91	0	0.574713	0	C|0.907;T|0.093	0.093	strong	.	NEK1	203	.	NM_001199397	exon31	c.G3033A	p.P1011P	TGGTTCCGGTTGC	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104170350	104170350	+	Silent	SNP	A	A	G	rs1047968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	61	143	0	0.465649	0	A|0.931;G|0.069	0.069	strong	.	ZNF189	79	.	NM_003452	exon3	c.A300G	p.T100T	AGAAACATTTGAA	.	PASS	Atlas-SNP
RABGAP1	23637	hgsc.bcm.edu	37	9	125748669	125748669	+	Silent	SNP	A	A	G	rs376096787		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	107	199	0	0.521951	0	.	.	weak	.	RABGAP1	164	.	NM_012197	exon4	c.A561G	p.S187S	CCTTTCAGTGCCG	.	PASS	Atlas-SNP
LRR1	122769	hgsc.bcm.edu	37	14	50074520	50074520	+	Missense_Mutation	SNP	C	C	T	rs7148147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	26	72	0	0.472727	0	C|0.792;T|0.208	0.208	strong	.	LRR1	35	.	NM_152329	exon3	c.C685T	p.R229W	TCACTTCGGAGTT	.	PASS	Atlas-SNP
FAM221B	392307	hgsc.bcm.edu	37	9	35826038	35826038	+	Missense_Mutation	SNP	T	T	C	rs13294245	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	31	76	0	0.402597	0	T|0.758;C|0.242	0.242	strong	.	FAM221B	38	.	NM_001012446	exon2	c.A121G	p.K41E	AAGGCTTCAAGAA	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241835379	241835379	+	Silent	SNP	G	G	A	rs12105122	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	14	31	0	0.56	0	G|0.494;A|0.506	0.506	strong	C2orf54,rectum,carcinoma,0,1	C2orf54	14	1	NM_001085437	exon1	c.C36T	p.A12A	CTGCACGGCCATG	.	PASS	Atlas-SNP
ZNF668	79759	hgsc.bcm.edu	37	16	31072909	31072909	+	Missense_Mutation	SNP	G	G	A	rs8046978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	17	15	0	0.73913	0	G|0.851;A|0.149	0.149	strong	.	ZNF668	121	.	NM_001172669	exon4	c.C1409T	p.A470V	CCTGCTGCCGGGG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169511755	169511755	+	Missense_Mutation	SNP	T	T	C	rs4524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	262	155	195	0	0.591603	0	T|0.760;C|0.240	0.240	strong	.	F5	301	.	NM_000130	exon13	c.A2573G	p.K858R	TGACTTTTGAATT	.	PASS	Atlas-SNP
RTEL1	51750	hgsc.bcm.edu	37	20	62297400	62297400	+	Silent	SNP	T	T	C	rs73920935	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	27	58	0	0.428571	0	T|0.915;C|0.085	0.085	strong	.	RTEL1	114	.	NM_032957	exon7	c.T654C	p.I218I	GGACATTGAGGAC	.	PASS	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	198001319	198001319	+	Silent	SNP	A	A	G	rs3731569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	31	66	0	0.476923	0	A|0.672;G|0.328	0.328	strong	ANKRD44,NS,carcinoma,0,1	ANKRD44	281	1	NM_153697	exon4	c.T258C	p.S86S	CACTTCACTTCTG	.	PASS	Atlas-SNP
NACC2	138151	hgsc.bcm.edu	37	9	138903671	138903671	+	Silent	SNP	A	A	G	rs9626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	10	5	0	1	0	A|0.317;G|0.683	0.683	strong	.	NACC2	16	.	NM_144653	exon6	c.T1455C	p.P485P	CGCGGCAGGCGGG	.	PASS	Atlas-SNP
OR10G9	219870	hgsc.bcm.edu	37	11	123894352	123894352	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	324	4	280	0	0.0123457	0	.	.	none	OR10G9,NS,carcinoma,0,1	OR10G9	80	1	NM_001001953	exon1	c.C633T	p.L211L	CTTTCTCCTGATA	.	scavenged	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103155864	103155864	+	Silent	SNP	A	A	G	rs56345626	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	34	65	0	0.414634	0	A|0.829;G|0.171	0.171	strong	.	RELN	593	.	NM_173054	exon50	c.T7887C	p.P2629P	AGCATCAGGAGGG	.	PASS	Atlas-SNP
KIF4B	285643	hgsc.bcm.edu	37	5	154395682	154395682	+	Missense_Mutation	SNP	G	G	A	rs56080630	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	231	113	264	0	0.489177	0	G|0.888;A|0.112	0.112	strong	.	KIF4B	307	.	NM_001099293	exon1	c.G2263A	p.V755I	GTTATGGTCAGTA	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57588433	57588433	+	Silent	SNP	G	G	A	rs1800141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	15	33	0	0.46875	0	G|0.933;A|0.067	0.067	strong	LRP1,colon,carcinoma,0,2	LRP1	428	2	NM_002332	exon50	c.G8142A	p.T2714T	CTGGACGTGTGAC	.	PASS	Atlas-SNP
MFI2	4241	hgsc.bcm.edu	37	3	196742243	196742243	+	Missense_Mutation	SNP	C	C	T	rs45625439	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	66	91	0	0.616822	0	C|0.991;T|0.009	0.009	strong	.	MFI2	88	.	NM_005929	exon9	c.G1226A	p.R409Q	TGGATCCGCTCCA	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40392347	40392347	+	Missense_Mutation	SNP	C	C	G	rs2542318	bycluster;byfrequency;by2hit2allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	13	430	3	0.866667	0.00697674	C|0.333;G|0.667	0.667	strong	FCGBP,NS,carcinoma,0,2	FCGBP	416	2	NM_003890	exon16	c.G8157C	p.Q2719H	CTCCACCTGGCCT	.	scavenged	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10725498	10725498	+	Silent	SNP	G	G	A	rs284322	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	24	25	0	0.444444	0	G|0.817;A|0.183	0.183	strong	.	CASZ1	150	.	NM_001079843	exon5	c.C147T	p.D49D	GCCGGCGTCAGCT	.	PASS	Atlas-SNP
KRT33B	3884	hgsc.bcm.edu	37	17	39525750	39525750	+	Missense_Mutation	SNP	C	C	T	rs61729509		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	60	105	0	0.594059	0	C|0.986;T|0.014	0.014	weak	.	KRT33B	46	.	NM_002279	exon1	c.G253A	p.E85K	GGTTCTCCAGCTC	.	PASS	Atlas-SNP
CYP2A7	1549	hgsc.bcm.edu	37	19	41386033	41386033	+	Missense_Mutation	SNP	T	T	C	rs73032311	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	86	152	0	0.505882	0	T|0.862;C|0.138	0.138	strong	.	CYP2A7	71	.	NM_000764	exon4	c.A610G	p.M204V	GCATCATGCTCAG	.	PASS	Atlas-SNP
GSDMB	55876	hgsc.bcm.edu	37	17	38062503	38062503	+	Missense_Mutation	SNP	T	T	C	rs35104165	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	53	116	0	0.427419	0	T|0.974;C|0.026	0.026	strong	GSDMB_ENST00000418519,colon,carcinoma,0,8	GSDMB	87	8	NM_001165958	exon8	c.A749G	p.D250G	CTGGAATCCTCCG	.	PASS	Atlas-SNP
CTBS	1486	hgsc.bcm.edu	37	1	85040070	85040070	+	Missense_Mutation	SNP	C	C	A	rs115347546	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	8	9	0	0.285714	0	C|0.863;A|0.137	0.137	strong	.	CTBS	24	.	NM_004388	exon1	c.G29T	p.R10L	ACGAGGCGCCAGC	.	PASS	Atlas-SNP
MYBL2	4605	hgsc.bcm.edu	37	20	42331457	42331457	+	Missense_Mutation	SNP	A	A	G	rs2070235	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	50	115	0	0.45045	0	A|0.837;G|0.163	0.163	strong	.	MYBL2	82	.	NM_002466	exon8	c.A1279G	p.S427G	GAGAATAGCACCA	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11272479	11272479	+	Missense_Mutation	SNP	G	G	A	rs74163631	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	13	10	0	0.5	0	.	.	weak	.	CLEC16A	101	.	NM_015226	exon23	c.G3094A	p.A1032T	CCGGCTGCCGCCT	.	PASS	Atlas-SNP
PTK2	5747	hgsc.bcm.edu	37	8	141840574	141840574	+	Silent	SNP	G	G	A	rs148611560	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	82	160	0	0.49697	0	G|0.998;A|0.002	0.002	strong	.	PTK2	311	.	NM_005607	exon8	c.C711T	p.V237V	TACCTTGACAGAA	.	PASS	Atlas-SNP
PIGF	5281	hgsc.bcm.edu	37	2	46839477	46839477	+	Silent	SNP	T	T	C	rs1824050	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	43	67	0	0.5375	0	T|0.798;C|0.202	0.202	strong	.	PIGF	9	.	NM_002643	exon4	c.A327G	p.A109A	TTCCAATGCCAAC	.	PASS	Atlas-SNP
CCDC60	160777	hgsc.bcm.edu	37	12	119961587	119961587	+	Missense_Mutation	SNP	G	G	A	rs78218795	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	32	68	0	0.533333	0	G|0.968;A|0.032	0.032	strong	.	CCDC60	84	.	NM_178499	exon11	c.G1193A	p.G398D	AGGCTGGCTTCTG	.	PASS	Atlas-SNP
ASIC2	40	hgsc.bcm.edu	37	17	31618551	31618551	+	Silent	SNP	G	G	A	rs9890913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	20	29	0	0.555556	0	G|0.896;A|0.104	0.104	strong	.	.	.	.	NM_183377	exon1	c.C583T	p.L195L	GAGGCAGGAAGAG	.	PASS	Atlas-SNP
PRKX	5613	hgsc.bcm.edu	37	X	3631167	3631167	+	Missense_Mutation	SNP	A	A	G	rs3752362	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	17	14	0	1	0	A|0.340;G|0.660	0.660	strong	.	PRKX	29	.	NM_005044	exon1	c.T128C	p.V43A	CTGTACACAGGCG	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27356203	27356203	+	Missense_Mutation	SNP	A	A	G	rs1805010	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	99	86	0	1	0	A|0.524;G|0.476	0.476	strong	.	IL4R	70	.	NM_000418	exon5	c.A223G	p.I75V	ACGTGTATCCCTG	.	PASS	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058734	19058734	+	Missense_Mutation	SNP	T	T	A	rs143374581	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	269	132	281	0	0.490706	0	T|0.997;A|0.003	0.003	strong	.	HAUS6	66	.	NM_017645	exon16	c.A2031T	p.E677D	TGGTGGTTCATCT	.	PASS	Atlas-SNP
ZNF561	93134	hgsc.bcm.edu	37	19	9721401	9721401	+	Silent	SNP	A	A	T	rs28445940	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	41	77	0	0.44086	0	A|0.733;T|0.267	0.267	strong	.	ZNF561	64	.	NM_152289	exon6	c.T936A	p.T312T	ACAGTAAGTACAC	.	PASS	Atlas-SNP
TSC1	7248	hgsc.bcm.edu	37	9	135804239	135804239	+	Silent	SNP	G	G	A	rs145987906	byfrequency;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	52	84	0	0.634146	0	G|1.000;C|0.000	.	alt	.	TSC1	167	.	NM_000368	exon3	c.C21T	p.V7V	CTCCCCGACATTT	.	PASS	Atlas-SNP
NAPEPLD	222236	hgsc.bcm.edu	37	7	102760511	102760511	+	Missense_Mutation	SNP	A	A	C	rs12540583	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	106	115	0	0.972477	0	A|0.876;C|0.124	0.124	strong	.	NAPEPLD	49	.	NM_001122838	exon3	c.T454G	p.S152A	CACGAGAGCTAAA	.	PASS	Atlas-SNP
NASP	4678	hgsc.bcm.edu	37	1	46078884	46078884	+	Silent	SNP	C	C	T	rs2230659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	75	0	1	0	C|0.295;T|0.705	0.705	strong	.	NASP	77	.	NM_002482	exon7	c.C1470T	p.T490T	TAAGACCGAAGAA	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31602967	31602967	+	Missense_Mutation	SNP	G	G	A	rs1046089	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	26	59	0	0.320988	0	G|0.611;A|0.389	0.389	strong	.	PRRC2A	152	.	NM_004638	exon22	c.G5219A	p.R1740H	CACAGCGTACAGA	.	PASS	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5862845	5862845	+	Missense_Mutation	SNP	A	A	G	rs4592451	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	60	121	0	0.5	0	A|0.608;G|0.392	0.392	strong	.	OR52E6	70	.	NM_001005167	exon1	c.T283C	p.S95P	CAAAAGATATTTC	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167051769	167051769	+	Missense_Mutation	SNP	T	T	C	rs11923054	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	24	47	0	0.387097	0	T|0.719;C|0.281	0.281	strong	.	ZBBX	299	.	NM_024687	exon10	c.A533G	p.K178R	TGAGATTTTGCCT	.	PASS	Atlas-SNP
ARHGAP40	343578	hgsc.bcm.edu	37	20	37257590	37257590	+	Silent	SNP	C	C	G	rs6070809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	86	130	0	0.521212	0	C|0.699;G|0.301	0.301	strong	.	ARHGAP40	50	.	NM_001164431	exon4	c.C576G	p.G192G	GAATGGCGACTCC	.	PASS	Atlas-SNP
BRMS1	25855	hgsc.bcm.edu	37	11	66109033	66109033	+	Silent	SNP	T	T	C	rs11537993	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	43	72	0	0.452632	0	T|0.796;C|0.204	0.204	strong	.	BRMS1	42	.	NM_015399	exon3	c.A201G	p.L67L	CTTCTCTAGGTCC	.	PASS	Atlas-SNP
DUS4L	11062	hgsc.bcm.edu	37	7	107217020	107217020	+	Missense_Mutation	SNP	G	G	A	rs6957510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	42	98	0	0.461538	0	G|0.956;A|0.044	0.044	strong	.	DUS4L	27	.	NM_001270419	exon7	c.G689A	p.R230Q	TGTGGCGGATTAC	.	PASS	Atlas-SNP
C11orf49	79096	hgsc.bcm.edu	37	11	47185680	47185680	+	Silent	SNP	G	G	A	rs11039114	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	56	91	0	0.504505	0	G|0.847;A|0.153	0.153	strong	.	C11orf49	41	.	NM_001003678	exon9	c.G858A	p.Q286Q	ACGGCAGCACAGA	.	PASS	Atlas-SNP
AMZ1	155185	hgsc.bcm.edu	37	7	2752487	2752487	+	Missense_Mutation	SNP	G	G	A	rs7776970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	67	91	0	0.527559	0	G|0.664;A|0.336	0.336	strong	.	AMZ1	41	.	NM_133463	exon7	c.G1472A	p.R491H	CCCCCCGTCCCTG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25016008	25016008	+	Silent	SNP	C	C	T	rs80008060		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	57	75	0	1	0	.	.	weak	.	PARP4	142	.	NM_006437	exon30	c.G3642A	p.E1214E	TTGGGGCTCCCCC	.	PASS	Atlas-SNP
EGF	1950	hgsc.bcm.edu	37	4	110901198	110901198	+	Missense_Mutation	SNP	G	G	A	rs2237051	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	61	137	0	0.465649	0	G|0.425;A|0.575	0.575	strong	.	EGF	113	.	NM_001963	exon14	c.G2124A	p.M708I	AGTAATGAGAGTA	.	PASS	Atlas-SNP
OR51I1	390063	hgsc.bcm.edu	37	11	5462085	5462085	+	Silent	SNP	G	G	A	rs11037444	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	57	120	0	0.57	0	G|0.801;A|0.199	0.199	strong	.	OR51I1	66	.	NM_001005288	exon1	c.C660T	p.Y220Y	CAATGCGTAGGAA	.	PASS	Atlas-SNP
GAS8	2622	hgsc.bcm.edu	37	16	90102835	90102835	+	Silent	SNP	A	A	G	rs868045	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	77	65	0	1	0	A|0.644;G|0.356	0.356	strong	.	GAS8	29	.	NM_001481	exon6	c.A597G	p.E199E	GGACGAACTCGAC	.	PASS	Atlas-SNP
GPER	2852	hgsc.bcm.edu	37	7	1132384	1132384	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	64	121	0	0.367816	0	.	.	none	.	GPER	25	.	NM_001505	exon2	c.G1020A	p.E340E	CATTGAGCAGAAA	.	PASS	Atlas-SNP
LRRC61	65999	hgsc.bcm.edu	37	7	150034378	150034378	+	Missense_Mutation	SNP	A	A	G	rs3735169	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	15	35	0	0.405405	0	A|0.744;G|0.256	0.256	strong	.	LRRC61	17	.	NM_023942	exon2	c.A428G	p.N143S	GTGCCAACCCCTC	.	PASS	Atlas-SNP
NSUN5	55695	hgsc.bcm.edu	37	7	72721583	72721583	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	4	41	0	0.0645161	0	.	.	none	.	NSUN5	47	.	NM_148956	exon3	c.C388A	p.P130T	TACCTGGACCAGG	.	PASS	Atlas-SNP
PTK2	5747	hgsc.bcm.edu	37	8	141685537	141685537	+	Missense_Mutation	SNP	G	G	A	rs191246950	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	54	105	0	0.409091	0	G|0.998;A|0.002	0.002	strong	.	PTK2	311	.	NM_001199649	exon28	c.C2624T	p.A875V	CTTTCCGCCCAAT	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187517758	187517758	+	Silent	SNP	G	G	A	rs3822060	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	39	73	0	0.513158	0	G|0.938;A|0.062	0.062	strong	.	FAT1	500	.	NM_005245	exon25	c.C12936T	p.P4312P	TGAAGGGGGTGGG	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77662486	77662486	+	Missense_Mutation	SNP	G	G	T	rs71607374	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	68	99	0	0.539683	0	G|0.935;T|0.065	0.065	strong	SHROOM3,NS,carcinoma,0,1	SHROOM3	134	1	NM_020859	exon5	c.G3160T	p.V1054L	AGCAGCGTGGCCG	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84609249	84609249	+	Silent	SNP	A	A	T	rs116948895	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	29	65	0	0.414286	0	A|0.993;T|0.007	0.007	strong	.	.	.	.	NM_001001670	exon4	c.A3864T	p.P1288P	TTTCCCACCAGCT	.	PASS	Atlas-SNP
KRTAP4-9	100132386	hgsc.bcm.edu	37	17	39261693	39261693	+	Missense_Mutation	SNP	A	A	T	rs113059833	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	7	41	5	0.189189	0.121951	T|1.000;|0.000	1.000	weak	KRTAP4-9,NS,carcinoma,0,6	KRTAP4-9	110	6	NM_001146041	exon1	c.A53T	p.D18V	GCCAAGACCTCTG	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280864	152280864	+	Silent	SNP	A	A	G	rs75034106		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	287	203	189	1	0.707317	0.00529101	.	.	weak	.	FLG	900	.	NM_002016	exon3	c.T6498C	p.S2166S	GTGATGAGACCCT	.	PASS	Atlas-SNP
LGALS9	3965	hgsc.bcm.edu	37	17	25958304	25958304	+	Missense_Mutation	SNP	G	G	A	rs3751093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	77	136	0	0.452941	0	G|0.811;A|0.189	0.189	strong	.	LGALS9	29	.	NM_009587	exon1	c.G13A	p.G5S	TTCAGCGGTTCCC	.	PASS	Atlas-SNP
LMBR1	64327	hgsc.bcm.edu	37	7	156554830	156554830	+	Missense_Mutation	SNP	T	T	C	rs6957768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	54	83	0	0.514286	0	T|0.914;C|0.086	0.086	strong	.	LMBR1	35	.	NM_022458	exon8	c.A682G	p.T228A	TTACTGTTGGCTT	.	PASS	Atlas-SNP
CALML3	810	hgsc.bcm.edu	37	10	5567366	5567366	+	Silent	SNP	G	G	A	rs1142825	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	16	66	0	0.355556	0	G|0.641;A|0.359	0.359	strong	.	CALML3	12	.	NM_005185	exon1	c.G318A	p.L106L	CGAGCTGCGACAC	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37505141	37505141	+	Missense_Mutation	SNP	G	G	A	rs1200876	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	55	111	0	0.617977	0	G|0.826;A|0.174	0.174	strong	.	ANKRD30A	448	.	NM_052997	exon32	c.G2734A	p.V912I	GATACAGTTCATT	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64469828	64469828	+	Missense_Mutation	SNP	C	C	T	rs17751301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	32	68	0	0.432432	0	C|0.961;T|0.039	0.039	strong	.	SYNE2	577	.	NM_182914	exon30	c.C4177T	p.R1393W	GCTGAACGGGGTG	.	PASS	Atlas-SNP
ZP3	7784	hgsc.bcm.edu	37	7	76069881	76069881	+	Missense_Mutation	SNP	A	A	G	rs2906998	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	14	162	0	0.0782123	0	A|0.885;G|0.115	0.115	strong	.	ZP3	32	.	NM_001110354	exon7	c.A1013G	p.H338R	AGCCTCATGTCAT	.	PASS	Atlas-SNP
DDRGK1	65992	hgsc.bcm.edu	37	20	3180666	3180666	+	Missense_Mutation	SNP	C	C	A	rs35327491	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	23	29	0	0.605263	0	C|0.986;A|0.014	0.014	strong	.	DDRGK1	21	.	NM_023935	exon4	c.G491T	p.R164L	TCCAGGCGAAGCC	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	37	12	7967076	7967076	+	Silent	SNP	A	A	G	rs10845983	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	70	98	0	1	0	A|0.760;G|0.240	0.240	strong	SLC2A14,NS,carcinoma,+2,1	SLC2A14	78	1	NM_153449	exon12	c.T1399C	p.L467L	AGGCCAAGAAGGT	.	PASS	Atlas-SNP
ACSS1	84532	hgsc.bcm.edu	37	20	25003705	25003705	+	Silent	SNP	A	A	C	rs41308619	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	16	46	0	0.355556	0	A|0.960;C|0.040	0.040	strong	.	ACSS1	46	.	NM_001252677	exon5	c.T831G	p.V277V	GGCGCAAACAGGG	.	PASS	Atlas-SNP
CDH15	1013	hgsc.bcm.edu	37	16	89259993	89259993	+	Silent	SNP	A	A	G	rs3815615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	82	87	0	1	0	A|0.565;G|0.435	0.435	strong	.	CDH15	54	.	NM_004933	exon12	c.A1971G	p.Q657Q	TGAGCAAGGAGGC	.	PASS	Atlas-SNP
ZNF616	90317	hgsc.bcm.edu	37	19	52620269	52620269	+	Missense_Mutation	SNP	G	G	A	rs35582075	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	46	112	0	0.479167	0	G|0.921;A|0.079	0.079	strong	.	ZNF616	109	.	NM_178523	exon4	c.C148T	p.P50S	ATTTAGGAGAGAT	.	PASS	Atlas-SNP
MAGI2	9863	hgsc.bcm.edu	37	7	77789403	77789403	+	Silent	SNP	A	A	G	rs1009524	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	64	124	0	0.477612	0	A|0.879;G|0.121	0.121	strong	.	MAGI2	246	.	NM_012301	exon16	c.T2784C	p.N928N	GCCCTCATTCTCT	.	PASS	Atlas-SNP
ARMC1	55156	hgsc.bcm.edu	37	8	66525548	66525548	+	Silent	SNP	T	T	C	rs11559265	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	86	140	0	0.558442	0	T|0.731;C|0.269	0.269	strong	.	ARMC1	22	.	NM_018120	exon4	c.A396G	p.Q132Q	AAAAAATTGAGCT	.	PASS	Atlas-SNP
FAF1	11124	hgsc.bcm.edu	37	1	51121198	51121198	+	Silent	SNP	T	T	C	rs11205753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	22	56	0	0.44	0	T|0.918;C|0.082	0.082	strong	.	FAF1	64	.	NM_007051	exon8	c.A660G	p.V220V	TCTCTTTACCTAT	.	PASS	Atlas-SNP
GSTA4	2941	hgsc.bcm.edu	37	6	52850270	52850270	+	Missense_Mutation	SNP	T	T	C	rs151284340	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	62	129	0	0.405229	0	T|0.999;C|0.001	0.001	strong	GSTA4,right_upper_lobe,carcinoma,+1,1	GSTA4	20	1	NM_001512	exon4	c.A251G	p.K84R	AGGTTCTTGCCAA	.	PASS	Atlas-SNP
PAPOLB	56903	hgsc.bcm.edu	37	7	4900095	4900095	+	Silent	SNP	A	A	G	rs1553960	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	306	87	184	0	0.284314	0	A|0.574;G|0.426	0.426	strong	PAPOLB,NS,carcinoma,0,1	PAPOLB	93	1	NM_020144	exon1	c.T1347C	p.N449N	TTCAGAATTATCT	.	PASS	Atlas-SNP
CEACAM7	1087	hgsc.bcm.edu	37	19	42192071	42192071	+	Silent	SNP	T	T	C	rs1860331	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	21	45	0	0.477273	0	T|0.988;C|0.012	0.012	strong	.	CEACAM7	33	.	NM_006890	exon1	c.A24G	p.P8P	TCTGTATGGACAG	.	PASS	Atlas-SNP
ZMIZ2	83637	hgsc.bcm.edu	37	7	44800176	44800176	+	Missense_Mutation	SNP	G	G	T	rs3735478	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	118	103	0	0.651934	0	G|0.821;T|0.179	0.179	strong	.	ZMIZ2	82	.	NM_031449	exon9	c.G1224T	p.L408F	CTCCTTGCACTCA	.	PASS	Atlas-SNP
RBM12	10137	hgsc.bcm.edu	37	20	34243017	34243017	+	Silent	SNP	C	C	T	rs6121015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	255	253	241	2	0.992157	0.00829876	C|0.753;T|0.247	0.247	strong	.	RBM12	93	.	NM_001198840	exon2	c.G228A	p.K76K	TTCCGTCTTACTA	.	PASS	Atlas-SNP
BMP4	652	hgsc.bcm.edu	37	14	54417522	54417522	+	Missense_Mutation	SNP	A	A	G	rs17563	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	21	24	0	1	0	A|0.593;G|0.407	0.407	strong	.	BMP4	45	.	NM_130851	exon4	c.T455C	p.V152A	GAGATCACCTCGT	.	PASS	Atlas-SNP
LILRA4	23547	hgsc.bcm.edu	37	19	54849942	54849942	+	Missense_Mutation	SNP	G	G	A	rs2241384	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	9	25	0	0.428571	0	G|0.827;A|0.173	0.173	strong	.	LILRA4	91	.	NM_012276	exon3	c.C80T	p.P27L	GGTTTGGGTAGGT	.	PASS	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	37	6	109827716	109827716	+	Missense_Mutation	SNP	C	C	T	rs2277114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	79	159	0	0.552448	0	C|0.610;T|0.390	0.390	strong	.	AKD1	223	.	NM_001145128	exon35	c.G4663A	p.V1555I	CAGCTACAATTTG	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20841707	20841707	+	Missense_Mutation	SNP	C	C	T	rs1713449	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	32	89	0	0.426667	0	C|0.712;T|0.288	0.288	strong	TEP1,NS,carcinoma,0,1	TEP1	224	1	NM_007110	exon46	c.G6640A	p.V2214I	GCCCGACGGTTAC	.	PASS	Atlas-SNP
SLC6A13	6540	hgsc.bcm.edu	37	12	333267	333267	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	42	79	0	0.5	0	.	.	none	.	SLC6A13	62	.	NM_016615	exon11	c.C1202T	p.A401V	ACCAGCGCTGTCA	.	PASS	Atlas-SNP
DCAF11	80344	hgsc.bcm.edu	37	14	24587639	24587639	+	Missense_Mutation	SNP	G	G	A	rs3825584	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	62	112	0	0.439716	0	G|0.685;A|0.315	0.315	strong	.	.	.	.	NM_025230	exon7	c.G620A	p.R207H	GTTTCCGTAAATT	.	PASS	Atlas-SNP
IGFALS	3483	hgsc.bcm.edu	37	16	1842209	1842209	+	Silent	SNP	A	A	G	rs3751893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	21	11	0	1	0	A|0.191;G|0.809	0.809	strong	IGFALS,NS,carcinoma,0,1	IGFALS	29	1	NM_001146006	exon2	c.T324C	p.D108D	GACTCCATCAGGC	.	PASS	Atlas-SNP
LSP1	4046	hgsc.bcm.edu	37	11	1887806	1887806	+	Missense_Mutation	SNP	T	T	A	rs7938342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	39	81	0	0.534247	0	T|0.346;A|0.654	0.654	strong	.	LSP1	59	.	NM_001242932	exon2	c.T102A	p.H34Q	ACCTCATCCCAGC	.	PASS	Atlas-SNP
ZNF583	147949	hgsc.bcm.edu	37	19	56935527	56935527	+	Silent	SNP	A	A	G	rs3810340	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	19	31	0	0.513514	0	A|0.423;G|0.577	0.577	strong	.	ZNF583	83	.	NM_001159861	exon5	c.A1500G	p.A500A	GAAAGCATTTAGC	.	PASS	Atlas-SNP
TMEM244	253582	hgsc.bcm.edu	37	6	130154686	130154686	+	Missense_Mutation	SNP	A	A	G	rs4629709	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	25	63	0	0.480769	0	A|0.296;G|0.704	0.704	strong	.	.	.	.	NM_001010876	exon4	c.T238C	p.F80L	CAAAAAACAATCC	.	PASS	Atlas-SNP
TMCO6	55374	hgsc.bcm.edu	37	5	140023238	140023238	+	Missense_Mutation	SNP	C	C	G	rs17208187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	74	127	0	0.510345	0	C|0.780;G|0.220	0.220	strong	.	TMCO6	30	.	NM_018502	exon8	c.C896G	p.T299S	AGAAAACCGAGGA	.	PASS	Atlas-SNP
PDZRN3	23024	hgsc.bcm.edu	37	3	73433369	73433369	+	Missense_Mutation	SNP	G	G	A	rs3205537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	32	54	0	0.581818	0	G|0.729;A|0.271	0.271	strong	.	PDZRN3	196	.	NM_015009	exon10	c.C2348T	p.A783V	CCCTCCGCCGCTC	.	PASS	Atlas-SNP
CETP	1071	hgsc.bcm.edu	37	16	57015091	57015091	+	Missense_Mutation	SNP	G	G	C	rs5880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	32	33	0	0.438356	0	G|0.966;C|0.034	0.034	strong	.	CETP	50	.	NM_000078	exon12	c.G1168C	p.A390P	GTCCAGGCCTCCT	.	PASS	Atlas-SNP
VPS9D1	9605	hgsc.bcm.edu	37	16	89774870	89774870	+	Silent	SNP	C	C	T	rs369209003		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	104	177	0	0.507317	0	.	.	weak	C16orf7,colon,carcinoma,-1,1	.	.	1	NM_004913	exon14	c.G1767A	p.S589S	GCACTCCGACACC	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23874523	23874523	+	Silent	SNP	C	C	T	rs2277474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	46	73	0	0.433962	0	C|0.794;A|0.002	.	strong	.	MYH6	274	.	NM_002471	exon5	c.G411A	p.E137E	CACCACCTCGGCA	.	PASS	Atlas-SNP
TXNDC2	84203	hgsc.bcm.edu	37	18	9886890	9886890	+	Silent	SNP	A	A	G	rs601874	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	46	73	0	0.582278	0	A|0.762;G|0.238	0.238	strong	.	TXNDC2	168	.	NM_001098529	exon2	c.A414G	p.S138S	GTCCTCAGAAAAA	.	PASS	Atlas-SNP
MAN2B1	4125	hgsc.bcm.edu	37	19	12772090	12772090	+	Missense_Mutation	SNP	C	C	T	rs1133330	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	125	1	1	0.008	C|0.675;T|0.325	0.325	strong	MAN2B1,NS,meningioma,0,1	MAN2B1	91	1	NM_001173498	exon7	c.G1010A	p.R337Q	ACCAGCCGGATGA	.	PASS	Atlas-SNP
TIE1	7075	hgsc.bcm.edu	37	1	43784956	43784956	+	Silent	SNP	A	A	G	rs1199039	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	57	108	0	0.513514	0	A|0.697;G|0.303	0.303	strong	.	TIE1	132	.	NM_005424	exon18	c.A2973G	p.L991L	GAACCTAGCCTCC	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651352	1651352	+	Silent	SNP	C	C	T	rs75391124	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	49	105	1	0.453704	0.00952381	C|0.929;T|0.071	0.071	strong	KRTAP5-5,NS,haematopoietic_neoplasm,0,1	KRTAP5-5	86	1	NM_001001480	exon1	c.C282T	p.G94G	CGGGGGCTCCAAG	.	scavenged	Atlas-SNP
QSER1	79832	hgsc.bcm.edu	37	11	32996805	32996805	+	Silent	SNP	C	C	T	rs11032076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	23	58	0	0.38983	0	C|0.907;T|0.093	0.093	strong	QSER1,caecum,carcinoma,0,1	QSER1	153	1	NM_001076786	exon12	c.C4983T	p.V1661V	TGCTGTCGATCCA	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18300879	18300879	+	Silent	SNP	G	G	A	rs11704809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	31	68	0	0.364706	0	G|0.800;A|0.200	0.200	strong	.	MICAL3	53	.	NM_015241	exon26	c.C4548T	p.S1516S	CTCCACGCTCTCC	.	PASS	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	37	11	65348725	65348725	+	Silent	SNP	G	G	A	rs79021529	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	33	52	0	0.492537	0	G|0.951;A|0.049	0.049	strong	.	EHBP1L1	64	.	NM_001099409	exon8	c.G747A	p.V249V	CCCTGTGAGTGCT	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96116808	96116808	+	Silent	SNP	G	G	A	rs17481856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	64	134	0	0.48855	0	G|0.917;A|0.083	0.083	strong	.	ERAP1	59	.	NM_001198541	exon17	c.C2542T	p.L848L	AGGCCAGTGGGTA	.	PASS	Atlas-SNP
TRIM42	287015	hgsc.bcm.edu	37	3	140406947	140406947	+	Missense_Mutation	SNP	G	G	A	rs28594654	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	36	67	0	0.590164	0	G|0.527;A|0.473	0.473	strong	.	TRIM42	143	.	NM_152616	exon3	c.G1423A	p.V475M	AACTACGTGCCCT	.	PASS	Atlas-SNP
FLII	2314	hgsc.bcm.edu	37	17	18148485	18148485	+	Silent	SNP	G	G	A	rs7498	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	119	82	0	1	0	G|0.728;A|0.272	0.272	strong	.	FLII	79	.	NM_002018	exon30	c.C3777T	p.H1259H	CCAGGCGTGGAAG	.	PASS	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5842329	5842329	+	Missense_Mutation	SNP	T	T	G	rs74377989	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	85	185	0	0.408654	0	T|0.939;G|0.061	0.061	strong	.	OR52N2	58	.	NM_001005174	exon1	c.T764G	p.V255G	CCTATGTTGCTGC	.	PASS	Atlas-SNP
GTF2F1	2962	hgsc.bcm.edu	37	19	6392906	6392906	+	Missense_Mutation	SNP	G	G	T	rs151336104	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	35	70	0	0.4375	0	G|0.999;T|0.001	0.001	strong	.	GTF2F1	39	.	NM_002096	exon2	c.C21A	p.S7R	CTGGCTGCTAGGG	.	PASS	Atlas-SNP
VPS36	51028	hgsc.bcm.edu	37	13	52997751	52997751	+	Silent	SNP	G	G	A	rs148697614	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	6	10	0	0.375	0	G|0.997;A|0.003	0.003	strong	.	VPS36	38	.	NM_016075	exon10	c.C798T	p.L266L	CTCCGTGAGTGAC	.	PASS	Atlas-SNP
MYO9B	4650	hgsc.bcm.edu	37	19	17212925	17212925	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	14	40	0	0.424242	0	.	.	none	.	MYO9B	264	.	NM_001130065	exon2	c.G398A	p.R133Q	CCACCCGGCGCCT	.	PASS	Atlas-SNP
FHL5	9457	hgsc.bcm.edu	37	6	97058574	97058574	+	Missense_Mutation	SNP	G	G	A	rs2252816	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	82	156	0	0.5	0	G|0.688;A|0.312	0.312	strong	.	FHL5	73	.	NM_020482	exon6	c.G631A	p.V211M	TTCTGCGTGGACT	.	PASS	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	37	12	52913668	52913668	+	Missense_Mutation	SNP	C	C	T	rs11170164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	86	118	0	0.565789	0	C|0.956;T|0.044	0.044	strong	.	KRT5	88	.	NM_000424	exon1	c.G413A	p.G138E	ATACCTCCAGGAG	.	PASS	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	37	15	40661013	40661013	+	Silent	SNP	G	G	T	rs61734053	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	39	76	0	0.541667	0	G|0.965;T|0.035	0.035	strong	.	DISP2	86	.	NM_033510	exon8	c.G2700T	p.L900L	CAGCCTGGCCGCC	.	PASS	Atlas-SNP
POFUT2	23275	hgsc.bcm.edu	37	21	46705621	46705621	+	Silent	SNP	G	G	A	rs2297285	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	30	74	0	0.483871	0	G|0.821;A|0.179	0.179	strong	POFUT2,NS,carcinoma,-1,1	POFUT2	77	1	NM_015227	exon2	c.C354T	p.P118P	GATGACGGGGATG	.	PASS	Atlas-SNP
ALS2CL	259173	hgsc.bcm.edu	37	3	46713457	46713457	+	Silent	SNP	C	C	G	rs7625303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	120	72	0	1	0	C|0.780;G|0.220	0.220	strong	.	ALS2CL	78	.	NM_001190707	exon24	c.G2601C	p.T867T	CGACACCGTGCCC	.	PASS	Atlas-SNP
ZNF224	7767	hgsc.bcm.edu	37	19	44611957	44611957	+	Silent	SNP	T	T	C	rs3746322	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	43	58	0	0.558442	0	T|0.850;C|0.150	0.150	strong	ZNF224,NS,carcinoma,0,1	ZNF224	70	1	NM_013398	exon6	c.T1644C	p.S548S	GAAGAGTTTTGGC	.	PASS	Atlas-SNP
LY75-CD302	100526664	hgsc.bcm.edu	37	2	160628466	160628466	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	3	117	0	0.0217391	0	.	.	none	CD302,bladder,carcinoma,+1,1	.	.	1	NM_001198759	exon39	c.T5518C	p.S1840P	AACGAGAATCAGA	.	scavenged	Atlas-SNP
HK1	3098	hgsc.bcm.edu	37	10	71142420	71142420	+	Silent	SNP	G	G	A	rs748235	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	55	64	0	0.982143	0	G|0.201;A|0.799	0.799	strong	.	HK1	170	.	NM_033498	exon13	c.G1455A	p.K485K	CACCAAGGACATG	.	PASS	Atlas-SNP
DNAJC5B	85479	hgsc.bcm.edu	37	8	66992737	66992737	+	Silent	SNP	G	G	A	rs7006209	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	48	98	0	0.470588	0	G|0.909;A|0.091	0.091	strong	.	DNAJC5B	42	.	NM_033105	exon5	c.G459A	p.V153V	CTATGTGTCCCCA	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151927016	151927016	+	Missense_Mutation	SNP	T	T	C	rs79608986		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	403	39	390	1	0.0967742	0.0025641	.	.	weak	MLL3_ENST00000355193,extremity,malignant_melanoma,0,6	MLL3	1564	6	NM_170606	exon18	c.A2968G	p.S990G	TAATACTGACACA	.	scavenged	Atlas-SNP
ECM2	1842	hgsc.bcm.edu	37	9	95279985	95279985	+	Silent	SNP	C	C	A	rs968040	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	32	116	0	0.463768	0	C|0.602;A|0.398	0.398	strong	.	ECM2	147	.	NM_001393	exon3	c.G465T	p.P155P	GCAGACCGGGCAG	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453243	195453243	+	Missense_Mutation	SNP	C	C	T	rs3828408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	85	137	0	0.586207	0	C|0.677;T|0.323	0.323	strong	.	MUC20	84	.	NM_152673	exon3	c.C1256T	p.P419L	AGACACCGACCAT	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156878531	156878531	+	Silent	SNP	T	T	C	rs11264580	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	25	66	0	0.328947	0	T|0.780;C|0.220	0.220	strong	PEAR1,colon,carcinoma,0,1	PEAR1	118	1	NM_001080471	exon10	c.T1200C	p.H400H	CACGCATGGGCCA	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1269627	1269627	+	Silent	SNP	C	C	T	rs4963056	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	218	85	202	0	0.389908	0	C|0.749;T|0.251	0.251	strong	.	MUC5B	473	.	NM_002458	exon31	c.C11517T	p.T3839T	TACCACCACGGCC	.	PASS	Atlas-SNP
GSDMB	55876	hgsc.bcm.edu	37	17	38062196	38062196	+	Missense_Mutation	SNP	G	G	A	rs2305480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	47	116	0	0.419643	0	G|0.674;A|0.326	0.326	strong	GSDMB,NS,carcinoma,0,1	GSDMB	87	1	NM_001165958	exon9	c.C931T	p.P311S	TGTCTGGGTCCTC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632717	32632717	+	Silent	SNP	G	G	A	rs1049073	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	16	87	0	0.695652	0	G|0.712;A|0.288	0.288	strong	.	HLA-DQB1	15	.	NM_002123	exon2	c.C237T	p.Y79Y	CGCGCGGTACACC	.	PASS	Atlas-SNP
ARFRP1	10139	hgsc.bcm.edu	37	20	62333231	62333231	+	Missense_Mutation	SNP	G	G	A	rs139547982	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	59	120	0	0.479675	0	G|0.999;A|0.001	0.001	strong	ARFRP1,colon,carcinoma,+1,1	ARFRP1	17	1	NM_001134758	exon6	c.C368T	p.A123V	CACAGCGCCTCGC	.	PASS	Atlas-SNP
ETS1	2113	hgsc.bcm.edu	37	11	128333503	128333503	+	Silent	SNP	T	T	C	rs2230004	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	40	43	0	0.655738	0	T|0.524;C|0.476	0.476	strong	.	ETS1	123	.	NM_001143820	exon9	c.A1143G	p.L381L	CTGCCATAGCTGG	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115933978	115933978	+	Silent	SNP	G	G	A	rs1128117	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	43	90	0	0.505882	0	G|0.940;A|0.060	0.060	strong	.	FKBP15	128	.	NM_015258	exon24	c.C2541T	p.A847A	CTGGAGGGCTAAA	.	PASS	Atlas-SNP
UGT1A6	54578	hgsc.bcm.edu	37	2	234601965	234601965	+	Silent	SNP	A	A	G	rs1105880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	38	87	0	0.469136	0	A|0.659;G|0.341	0.341	strong	.	UGT1A6	63	.	NM_001072	exon1	c.A315G	p.L105L	ATTCCTAACTGCT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13829799	13829799	+	Silent	SNP	G	G	A	rs1348689	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	27	84	0	0.54	0	G|0.574;A|0.426	0.426	strong	.	DNAH5	868	.	NM_001369	exon38	c.C6264T	p.A2088A	CCGTCCGGCATAG	.	PASS	Atlas-SNP
DCPS	28960	hgsc.bcm.edu	37	11	126213242	126213242	+	Missense_Mutation	SNP	G	G	A	rs35836343	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	19	36	0	0.513514	0	G|0.995;A|0.005	0.005	strong	.	DCPS	33	.	NM_014026	exon5	c.G677A	p.G226D	GCCGGGGCATCAG	.	PASS	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	37	1	10364260	10364260	+	Missense_Mutation	SNP	A	A	G	rs148481786	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	43	70	0	0.605634	0	A|0.994;G|0.006	0.006	strong	.	KIF1B	242	.	NM_183416	exon21	c.A3017G	p.E1006G	GCCAAGAAAAAGG	.	PASS	Atlas-SNP
IFITM5	387733	hgsc.bcm.edu	37	11	299411	299411	+	Missense_Mutation	SNP	C	C	G	rs57285449	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	33	81	0	0.33	0	C|0.546;G|0.454	0.454	strong	.	IFITM5	12	.	NM_001025295	exon1	c.G80C	p.G27A	GGGGCCCCCAGTG	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	37	1	173516903	173516903	+	Silent	SNP	A	A	G	rs10494490	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	75	75	0	0.595238	0	A|0.637;G|0.363	0.363	strong	SLC9A11,NS,carcinoma,-2,1	.	.	1	NM_178527	exon13	c.T1482C	p.N494N	CATATCATTATGT	.	PASS	Atlas-SNP
PALLD	23022	hgsc.bcm.edu	37	4	169433444	169433444	+	Silent	SNP	C	C	T	rs72695199	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	39	77	0	0.453488	0	C|0.907;T|0.093	0.093	strong	.	PALLD	179	.	NM_001166108	exon2	c.C789T	p.S263S	CCACAGCGCCCTC	.	PASS	Atlas-SNP
LATS2	26524	hgsc.bcm.edu	37	13	21562832	21562832	+	Missense_Mutation	SNP	C	C	T	rs2770928	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	7	3	0	0.875	0	T|0.842;G|0.000;C|0.158;A|0.000	0.842	strong	LATS2_ENST00000382592,NS,carcinoma,0,1	LATS2	176	1	NM_014572	exon4	c.G1087A	p.G363S	TGCTGCCCAATTC	.	scavenged	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093311	1093311	+	Silent	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	5	21	3	0.138889	0.142857	.	.	none	MUC2_ENST00000441003,NS,carcinoma,+1,2	MUC2	614	2	NM_002457	exon30	c.C5130A	p.T1710T	CCCAACCCCAACA	.	scavenged	Atlas-SNP
OR10K2	391107	hgsc.bcm.edu	37	1	158390378	158390378	+	Silent	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	231	139	175	1	0.601732	0.00571429	.	.	none	OR10K2,rectum,carcinoma,-1,1	OR10K2	69	1	NM_001004476	exon1	c.T279A	p.S93S	CAGGAAAGAAATG	.	PASS	Atlas-SNP
INSL4	3641	hgsc.bcm.edu	37	9	5231712	5231712	+	Silent	SNP	T	T	A	rs12720	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	48	93	1	0.578313	0.0107527	T|0.613;A|0.387	0.387	strong	INSL4,bladder,carcinoma,+2,1	INSL4	20	1	NM_002195	exon1	c.T189A	p.R63R	TGGACGTCCCAAA	.	scavenged	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86518796	86518796	+	Missense_Mutation	SNP	T	T	C	rs12001918	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	79	135	0	0.51634	0	T|0.869;C|0.131	0.131	strong	.	KIF27	103	.	NM_017576	exon4	c.A637G	p.I213V	TGCTGATTGTAAA	.	PASS	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	37	2	1652660	1652660	+	Silent	SNP	G	G	A	rs3811613	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	18	30	0	0.75	0	G|0.761;A|0.239	0.239	strong	.	PXDN	255	.	NM_012293	exon17	c.C2892T	p.N964N	GCTCTCGTTCTCG	.	PASS	Atlas-SNP
SHANK3	85358	hgsc.bcm.edu	37	22	51160581	51160581	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	9	9	0	0.642857	0	.	.	none	.	SHANK3	96	.	NM_033517	exon21	c.C4278T	p.S1426S	GGACAGCGAGCTC	.	PASS	Atlas-SNP
PTPRO	5800	hgsc.bcm.edu	37	12	15679120	15679120	+	Silent	SNP	C	C	A	rs6488782	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	14	53	0	0.27451	0	C|0.579;A|0.421	0.421	strong	.	PTPRO	148	.	NM_002848	exon12	c.C2088A	p.G696G	TCCAGGCGACATC	.	PASS	Atlas-SNP
SLK	9748	hgsc.bcm.edu	37	10	105758670	105758670	+	Silent	SNP	A	A	G	rs10883960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	58	145	0	0.517857	0	A|0.817;G|0.183	0.183	strong	.	SLK	107	.	NM_014720	exon5	c.A528G	p.V176V	TGGAGTATCAGCT	.	PASS	Atlas-SNP
HPS5	11234	hgsc.bcm.edu	37	11	18318354	18318354	+	Missense_Mutation	SNP	C	C	T	rs143784823	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	81	145	0	0.455056	0	C|0.997;T|0.003	0.003	strong	.	HPS5	70	.	NM_181507	exon12	c.G1501A	p.G501R	CATTTCCGTGTGA	.	PASS	Atlas-SNP
KIAA1024	23251	hgsc.bcm.edu	37	15	79749789	79749789	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	3	88	0	0.0337079	0	.	.	none	KIAA1024,NS,carcinoma,-1,1	KIAA1024	146	1	NM_015206	exon2	c.G1300A	p.G434R	CAAAATGGGCTCA	.	scavenged	Atlas-SNP
LRCH3	84859	hgsc.bcm.edu	37	3	197597044	197597044	+	Silent	SNP	C	C	T	rs77281724	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	29	64	0	0.391892	0	C|0.887;T|0.113	0.113	strong	.	LRCH3	96	.	NM_032773	exon18	c.C1887T	p.P629P	TTCACCCCTTCCT	.	PASS	Atlas-SNP
PCDP1	0	hgsc.bcm.edu	37	2	120409616	120409616	+	Missense_Mutation	SNP	G	G	T	rs11686014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	45	130	0	0.362903	0	G|0.845;T|0.155	0.155	strong	.	.	.	.	NM_001271049	exon23	c.G2385T	p.M795I	CCCTATGTTGAAC	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	42047208	42047208	+	Missense_Mutation	SNP	C	C	G	rs17363472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	59	105	0	0.433824	0	C|0.961;G|0.039	0.039	strong	.	HIVEP3	235	.	NM_024503	exon4	c.G3261C	p.Q1087H	GGAAATCTGGGAC	.	PASS	Atlas-SNP
ATRN	8455	hgsc.bcm.edu	37	20	3624848	3624848	+	Silent	SNP	C	C	T	rs34398666	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	59	121	0	0.457364	0	C|0.897;T|0.103	0.103	strong	.	ATRN	118	.	NM_139321	exon28	c.C4098T	p.A1366A	CAAAGCCGCTGTC	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48315930	48315930	+	Missense_Mutation	SNP	G	G	C	rs74859514	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	38	102	0	0.255034	0	G|0.939;C|0.061	0.061	strong	.	ABCA13	1192	.	NM_152701	exon17	c.G6667C	p.A2223P	CAGGAAGCAGCTT	.	PASS	Atlas-SNP
ZBTB40	9923	hgsc.bcm.edu	37	1	22852715	22852715	+	Silent	SNP	G	G	C	rs881646	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	32	66	0	0.457143	0	G|0.692;C|0.308	0.308	strong	.	ZBTB40	87	.	NM_001083621	exon19	c.G3546C	p.P1182P	AGAGCCGGTGGCC	.	PASS	Atlas-SNP
SLITRK1	114798	hgsc.bcm.edu	37	13	84454391	84454391	+	Missense_Mutation	SNP	T	T	A	rs150504822	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	73	110	0	0.51773	0	T|0.999;A|0.001	0.001	strong	.	SLITRK1	196	.	NM_052910	exon1	c.A1252T	p.T418S	TGAAAGTGTTGTT	.	PASS	Atlas-SNP
ASB18	401036	hgsc.bcm.edu	37	2	237149941	237149941	+	Missense_Mutation	SNP	C	C	T	rs6756597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	102	142	0	1	0	C|0.535;T|0.465	0.465	strong	.	ASB18	34	.	NM_212556	exon2	c.G310A	p.A104T	ACGTGGCTGGAGA	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72162966	72162966	+	Missense_Mutation	SNP	G	G	T	rs34832584	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	50	94	0	0.4	0	G|0.890;T|0.110	0.110	strong	.	PMFBP1	101	.	NM_031293	exon13	c.C1949A	p.T650K	CTCACCGTCTTGT	.	PASS	Atlas-SNP
ZNF395	55893	hgsc.bcm.edu	37	8	28206677	28206677	+	Silent	SNP	G	G	A	rs75444725	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	35	63	0	0.522388	0	G|0.995;A|0.005	0.005	strong	.	ZNF395	54	.	NM_018660	exon9	c.C1395T	p.I465I	AGTGACGATCAGA	.	PASS	Atlas-SNP
HOOK2	29911	hgsc.bcm.edu	37	19	12876964	12876964	+	Missense_Mutation	SNP	G	G	C	rs897804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	11	20	0	0.37931	0	G|0.729;C|0.271	0.271	strong	HOOK2,NS,carcinoma,0,1	HOOK2	73	1	NM_001100176	exon15	c.C1464G	p.H488Q	CTCCAGGTGGCGC	.	PASS	Atlas-SNP
OR2T33	391195	hgsc.bcm.edu	37	1	248436857	248436857	+	Missense_Mutation	SNP	C	C	T	rs75662887		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	528	21	531	6	0.0397727	0.0112994	T|1.000;|0.000	1.000	weak	OR2T33,extremity,malignant_melanoma,0,2	OR2T33	133	2	NM_001004695	exon1	c.G260A	p.S87N	GCCTTACTTCCGG	.	scavenged	Atlas-SNP
TTI2	80185	hgsc.bcm.edu	37	8	33369994	33369994	+	Silent	SNP	A	A	G	rs3098657	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	27	62	0	0.397059	0	A|0.369;G|0.631	0.631	strong	.	.	.	.	NM_001265581	exon2	c.T138C	p.N46N	TTTTACATTGCCT	.	PASS	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	37	15	51795172	51795172	+	Silent	SNP	G	G	A	rs12592889	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	76	1	0.493827	0.0131579	G|0.548;A|0.452	0.452	strong	DMXL2,NS,carcinoma,0,1	DMXL2	262	1	NM_001174116	exon17	c.C2823T	p.N941N	ATCTACGTTCTTC	.	scavenged	Atlas-SNP
ANKK1	255239	hgsc.bcm.edu	37	11	113270160	113270160	+	Missense_Mutation	SNP	A	A	G	rs2734849	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	53	0	1	0	A|0.725;G|0.275	0.275	strong	.	ANKK1	83	.	NM_178510	exon8	c.A1469G	p.H490R	ACCTGCATGAGGC	.	PASS	Atlas-SNP
LRRC18	474354	hgsc.bcm.edu	37	10	50121784	50121784	+	Silent	SNP	T	T	C	rs10776653	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	137	123	1	1	0.00813008	T|0.454;C|0.546	0.546	strong	.	LRRC18	52	.	NM_001006939	exon1	c.A417G	p.T139T	CCCCAGTGTGGTG	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90012379	90012379	+	Missense_Mutation	SNP	G	G	A	rs13157270	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	59	134	0	0.373418	0	G|0.950;A|0.050	0.050	strong	.	GPR98	605	.	NM_032119	exon43	c.G9280A	p.V3094I	CTCTACGTCCAGG	.	PASS	Atlas-SNP
DCAF6	55827	hgsc.bcm.edu	37	1	168013850	168013850	+	Missense_Mutation	SNP	T	T	C	rs11558511	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	157	113	0	1	0	C|0.196;N|0.000	0.196	strong	.	DCAF6	99	.	NM_001198956	exon15	c.T1871C	p.V624A	AGGATGTGACAAA	.	PASS	Atlas-SNP
RGAG4	340526	hgsc.bcm.edu	37	X	71349753	71349753	+	Silent	SNP	G	G	A	rs12397326	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	41	39	0	0.97619	0	G|0.616;A|0.384	0.384	strong	.	RGAG4	63	.	NM_001024455	exon1	c.C1638T	p.R546R	AGGGGGGCGTCTT	.	PASS	Atlas-SNP
KRT3	3850	hgsc.bcm.edu	37	12	53189446	53189446	+	Silent	SNP	C	C	T	rs117364830	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	17	84	0	0.207317	0	C|0.971;T|0.029	0.029	strong	KRT3,NS,carcinoma,0,1	KRT3	65	1	NM_057088	exon1	c.G381A	p.G127G	ACCAGCCCCTCCA	.	PASS	Atlas-SNP
HAO2	51179	hgsc.bcm.edu	37	1	119923724	119923724	+	Silent	SNP	T	T	C	rs2275607	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	116	121	1	1	0.00826446	C|0.420;G|0.000;T|0.579	0.420	strong	.	HAO2	62	.	NM_001005783	exon3	c.T16C	p.L6L	GTGTGTTTGACAG	.	PASS	Atlas-SNP
PGPEP1L	145814	hgsc.bcm.edu	37	15	99511732	99511732	+	Missense_Mutation	SNP	A	A	G	rs61743493	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	128	158	0	1	0	A|0.974;G|0.026	0.026	strong	.	PGPEP1L	26	.	NM_001102612	exon5	c.T566C	p.M189T	AGGACCATGGTTG	.	PASS	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12123249	12123249	+	Missense_Mutation	SNP	A	A	G	rs2228220	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	26	70	0	0.448276	0	A|0.870;G|0.130	0.130	strong	.	HIVEP1	242	.	NM_002114	exon4	c.A3221G	p.N1074S	AACATAATGTTAC	.	PASS	Atlas-SNP
ZNF10	7556	hgsc.bcm.edu	37	12	133732624	133732624	+	Silent	SNP	C	C	T	rs3763151	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	11	23	0	0.423077	0	C|0.668;T|0.332	0.332	strong	.	ZNF10	58	.	NM_015394	exon5	c.C792T	p.P264P	GAAACCCTATGAA	.	PASS	Atlas-SNP
MED24	9862	hgsc.bcm.edu	37	17	38178679	38178679	+	Missense_Mutation	SNP	G	G	A	rs149459087	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	60	97	0	0.550459	0	G|0.998;A|0.002	0.002	strong	.	MED24	89	.	NM_014815	exon22	c.C2491T	p.R831C	TCTGGCGGGTGGA	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229787055	229787055	+	Missense_Mutation	SNP	G	G	A	rs41310553	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	40	130	0	0.39604	0	G|0.986;A|0.014	0.014	strong	.	URB2	152	.	NM_014777	exon8	c.G4223A	p.R1408Q	AAGGGCGGCAGAA	.	PASS	Atlas-SNP
NEK1	4750	hgsc.bcm.edu	37	4	170477125	170477125	+	Missense_Mutation	SNP	G	G	A	rs34540355	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	43	94	0	0.472527	0	G|0.975;A|0.025	0.025	strong	.	NEK1	203	.	NM_012224	exon16	c.C1388T	p.A463V	CATTTAGCTTCAT	.	PASS	Atlas-SNP
GDF9	2661	hgsc.bcm.edu	37	5	132198199	132198199	+	Silent	SNP	G	G	A	rs254286	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	25	30	0	0.714286	0	G|0.516;A|0.484	0.484	strong	.	GDF9	50	.	NM_005260	exon2	c.C447T	p.T149T	TTCAACGGTAGTA	.	PASS	Atlas-SNP
APLP1	333	hgsc.bcm.edu	37	19	36370092	36370092	+	Silent	SNP	C	C	T	rs138562956	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	16	35	0	0.432432	0	C|0.999;T|0.001	0.001	strong	.	APLP1	77	.	NM_001024807	exon16	c.C1830T	p.Y610Y	GCCCTACGGGGCT	.	PASS	Atlas-SNP
MFF	56947	hgsc.bcm.edu	37	2	228194481	228194481	+	Missense_Mutation	SNP	G	G	T	rs3211098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	59	161	0	0.406897	0	G|0.737;T|0.263	0.263	strong	.	MFF	48	.	NM_020194	exon3	c.G20T	p.S7I	CAAGCAGTGACAC	.	PASS	Atlas-SNP
ABCA10	10349	hgsc.bcm.edu	37	17	67150088	67150088	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	3	136	0	0.023622	0	.	.	none	ABCA10,NS,carcinoma,-2,1	ABCA10	209	1	NM_080282	exon33	c.G3849T	p.L1283F	GTACCCCAAGAAC	.	scavenged	Atlas-SNP
IGDCC4	57722	hgsc.bcm.edu	37	15	65703625	65703625	+	Missense_Mutation	SNP	C	C	G	rs34355056	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	61	73	0	0.983871	0	C|0.845;G|0.155	0.155	strong	.	IGDCC4	95	.	NM_020962	exon2	c.G154C	p.A52P	CTGCAGCCTGCTC	.	PASS	Atlas-SNP
KIAA1751	85452	hgsc.bcm.edu	37	1	1888193	1888193	+	Missense_Mutation	SNP	C	C	A	rs3820011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	52	91	0	0.530612	0	C|0.775;A|0.225	0.225	strong	.	KIAA1751	92	.	NM_001080484	exon17	c.G1882T	p.G628C	AGCTGCCGAAGTC	.	PASS	Atlas-SNP
DKK4	27121	hgsc.bcm.edu	37	8	42231786	42231786	+	Silent	SNP	G	G	A	rs2073664	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	57	105	0	0.508929	0	G|0.739;A|0.261	0.261	strong	.	DKK4	28	.	NM_014420	exon4	c.C507T	p.V169V	CAAAAGGACTGGC	.	PASS	Atlas-SNP
SLC27A6	28965	hgsc.bcm.edu	37	5	128301971	128301971	+	Silent	SNP	T	T	C	rs2577541	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	66	135	0	0.471429	0	T|0.719;C|0.281	0.281	strong	.	SLC27A6	112	.	NM_001017372	exon1	c.T141C	p.Y47Y	GAAGTATGAAAAG	.	PASS	Atlas-SNP
CALHM3	119395	hgsc.bcm.edu	37	10	105238527	105238527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	33	66	0	0.540984	0	.	.	none	.	CALHM3	46	.	NM_001129742	exon1	c.G263A	p.R88Q	TTCCTCCGGTGCC	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62675619	62675619	+	Silent	SNP	C	C	T	rs4625314	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	113	142	0	1	0	C|0.605;T|0.395	0.395	strong	L1TD1,NS,carcinoma,0,1	L1TD1	114	1	NM_001164835	exon5	c.C1173T	p.A391A	AGAGGCCTCAGGG	.	PASS	Atlas-SNP
OR2A14	135941	hgsc.bcm.edu	37	7	143826603	143826603	+	Missense_Mutation	SNP	G	G	T	rs2961160	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	59	176	2	0.349112	0.0113636	G|0.367;T|0.633	0.633	strong	OR2A14,NS,carcinoma,+1,1	OR2A14	66	1	NM_001001659	exon1	c.G398T	p.S133I	ACAATAGCCTCAT	.	scavenged	Atlas-SNP
CCDC114	93233	hgsc.bcm.edu	37	19	48821757	48821757	+	Missense_Mutation	SNP	G	G	A	rs16981988	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	46	59	0	0.528736	0	G|0.970;A|0.030	0.030	strong	.	CCDC114	100	.	NM_144577	exon3	c.C136T	p.R46W	GAAGCCGCTTGAC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549582	32549582	+	Missense_Mutation	SNP	G	G	T	rs200516145	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	22	145	0	0.127907	0	.	.	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.C404A	p.T135N	GGCTGGGTCTTTG	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3979949	3979949	+	Silent	SNP	G	G	A	rs7207986	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	18	34	0	0.545455	0	G|0.820;A|0.180	0.180	strong	.	ZZEF1	195	.	NM_015113	exon21	c.C3216T	p.P1072P	TCCTTCGGGGCCA	.	PASS	Atlas-SNP
LAD1	3898	hgsc.bcm.edu	37	1	201358304	201358304	+	Missense_Mutation	SNP	C	C	A	rs3738281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	84	108	0	0.651163	0	C|0.826;A|0.174	0.174	strong	.	LAD1	42	.	NM_005558	exon2	c.G166T	p.A56S	CAGAGGCCTGCCG	.	PASS	Atlas-SNP
ARHGEF17	9828	hgsc.bcm.edu	37	11	73076590	73076590	+	Silent	SNP	C	C	T	rs61749197	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	65	110	0	0.52	0	C|0.941;T|0.059	0.059	strong	ARHGEF17,mucosal,malignant_melanoma,+1,2	ARHGEF17	117	2	NM_014786	exon19	c.C5706T	p.P1902P	TCCTCCCGTGCAC	.	PASS	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	37	1	10421878	10421878	+	Silent	SNP	A	A	G	rs12125492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	36	55	0	0.6	0	A|0.914;G|0.086	0.086	strong	.	KIF1B	242	.	NM_015074	exon38	c.A4161G	p.P1387P	GTCACCAGATTCG	.	PASS	Atlas-SNP
EML4	27436	hgsc.bcm.edu	37	2	42515437	42515437	+	Missense_Mutation	SNP	A	A	G	rs28651764	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	11	38	0	0.37931	0	A|0.717;G|0.283	0.283	strong	EML4_ENST00000318522,NS,carcinoma,-1,2	EML4	92	2	NM_019063	exon11	c.A1193G	p.K398R	GGCAGAAGAAAGC	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241828012	241828012	+	Silent	SNP	T	T	C	rs6708304	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	40	99	0	0.39604	0	T|0.464;C|0.536	0.536	strong	C2orf54,colon,carcinoma,0,1	C2orf54	14	1	NM_001085437	exon4	c.A948G	p.E316E	CTGCAGTTCTGCC	.	PASS	Atlas-SNP
CPO	130749	hgsc.bcm.edu	37	2	207834049	207834049	+	Silent	SNP	G	G	C	rs139758524	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	59	119	0	0.495798	0	G|1.000;C|0.000	0.000	strong	.	CPO	42	.	NM_173077	exon9	c.G1014C	p.L338L	TGTGCTGTCAGTC	.	PASS	Atlas-SNP
COL4A2	1284	hgsc.bcm.edu	37	13	111098226	111098226	+	Silent	SNP	C	C	T	rs4103	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	22	63	1	0.305556	0.015873	C|0.496;T|0.504	0.504	strong	COL4A2,colon,carcinoma,0,1	COL4A2	178	1	NM_001846	exon17	c.C1008T	p.P336P	GGGACCCAAGGTG	.	scavenged	Atlas-SNP
KRT38	8687	hgsc.bcm.edu	37	17	39595537	39595537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	5	63	0	0.0561798	0	.	.	none	.	KRT38	63	.	NM_006771	exon3	c.C650T	p.A217V	AGGGTCGCATCAT	.	PASS	Atlas-SNP
GALC	2581	hgsc.bcm.edu	37	14	88431898	88431898	+	Silent	SNP	C	C	T	rs12888666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	69	0	0.523077	0	C|0.646;T|0.354	0.354	strong	.	GALC	48	.	NM_000153	exon9	c.G984A	p.Q328Q	TGGCTCCTGGGCC	.	PASS	Atlas-SNP
ENG	2022	hgsc.bcm.edu	37	9	130586688	130586688	+	Silent	SNP	G	G	A	rs45439096	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	62	73	0	0.504065	0	G|0.920;A|0.080	0.080	strong	.	ENG	44	.	NM_001114753	exon8	c.C1029T	p.T343T	AGGAGTGGTCTGG	.	PASS	Atlas-SNP
TAF1C	9013	hgsc.bcm.edu	37	16	84212571	84212571	+	Silent	SNP	C	C	A	rs1804500	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	33	26	0	1	0	C|0.709;A|0.291	0.291	strong	TAF1C,NS,carcinoma,0,1	TAF1C	60	1	NM_005679	exon14	c.G2586T	p.R862R	CTTCTTCCGGAGG	.	PASS	Atlas-SNP
COMMD1	150684	hgsc.bcm.edu	37	2	62362995	62362995	+	Silent	SNP	T	T	C	rs9096	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	38	75	0	0.417582	0	T|0.906;C|0.094	0.094	strong	.	COMMD1	17	.	NM_152516	exon3	c.T492C	p.D164D	ATTTGATGAGGTC	.	PASS	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	37	15	101598200	101598200	+	Silent	SNP	G	G	A	rs11857803	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	40	94	0	0.454545	0	G|0.633;A|0.367	0.367	strong	.	LRRK1	310	.	NM_024652	exon29	c.G4533A	p.P1511P	GCGACCGCTGGCC	.	PASS	Atlas-SNP
DHX57	90957	hgsc.bcm.edu	37	2	39082344	39082344	+	Missense_Mutation	SNP	T	T	C	rs7598922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	85	157	0	0.524691	0	T|0.439;C|0.561	0.561	strong	.	DHX57	127	.	NM_198963	exon8	c.A1760G	p.N587S	GGTCCATTCAGAG	.	PASS	Atlas-SNP
TFCP2	7024	hgsc.bcm.edu	37	12	51500329	51500329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	4	62	0	0.0677966	0	.	.	none	.	TFCP2	49	.	NM_001173452	exon8	c.G896A	p.S299N	AAACTGCTATGGG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60887468	60887468	+	Silent	SNP	G	G	A	rs16985970	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	4	9	0	0.5	0	G|0.928;A|0.072	0.072	strong	.	LAMA5	268	.	NM_005560	exon68	c.C9348T	p.T3116T	GTCGGCGGTGCAG	.	PASS	Atlas-SNP
CALCOCO1	57658	hgsc.bcm.edu	37	12	54109659	54109659	+	Missense_Mutation	SNP	C	C	T	rs3741659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	42	56	0	0.531646	0	C|0.829;T|0.171	0.171	strong	.	CALCOCO1	50	.	NM_020898	exon9	c.G1178A	p.R393K	GCCAGCCTGCCGT	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32634373	32634373	+	Silent	SNP	C	C	T	rs9274522	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	8	40	0	0.571429	0	C|0.670;T|0.330	0.330	strong	.	HLA-DQB1	15	.	NM_002123	exon1	c.G12A	p.K4K	AGCCTTCTTCCAA	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19181082	19181082	+	Silent	SNP	A	A	C	rs28470550	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	43	60	1	0.623188	0.0166667	A|0.717;C|0.283	0.283	strong	TAS1R2,NS,carcinoma,0,2	TAS1R2	134	2	NM_152232	exon3	c.T882G	p.T294T	GGCGCCAGTGAAG	.	scavenged	Atlas-SNP
RFX4	5992	hgsc.bcm.edu	37	12	107141265	107141265	+	Missense_Mutation	SNP	G	G	A	rs61743416	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	49	81	0	0.550562	0	G|0.990;A|0.010	0.010	strong	.	RFX4	218	.	NM_001206691	exon16	c.G1711A	p.A571T	ACGGCTGCTGGGT	.	PASS	Atlas-SNP
OR7G2	390882	hgsc.bcm.edu	37	19	9213079	9213079	+	Missense_Mutation	SNP	A	A	C	rs4804401	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	84	120	1	0.988235	0.00833333	A|0.683;C|0.317	0.317	strong	.	OR7G2	48	.	NM_001005193	exon1	c.T904G	p.F302V	GAGGGAACACAGA	.	PASS	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	37	1	247007232	247007232	+	Splice_Site	SNP	T	T	A	rs148600466	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	102	231	0	0.488038	0	T|0.992;A|0.008	0.008	strong	.	AHCTF1	187	.	NM_015446	exon35	c.6419-2A>T	.	TTTAGCTAAAAAA	.	PASS	Atlas-SNP
RHOBTB1	9886	hgsc.bcm.edu	37	10	62645873	62645873	+	Silent	SNP	A	A	G	rs2271128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	47	86	0	0.479592	0	A|0.962;G|0.038	0.038	strong	.	RHOBTB1	61	.	NM_014836	exon7	c.T1572C	p.S524S	TACCTCACTGTTG	.	PASS	Atlas-SNP
BNC2	54796	hgsc.bcm.edu	37	9	16419519	16419519	+	Missense_Mutation	SNP	G	G	A	rs117452684	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	38	71	0	0.493506	0	G|0.979;A|0.021	0.021	strong	.	BNC2	166	.	NM_017637	exon7	c.C2768T	p.A923V	TGCTGGGCACCAT	.	PASS	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38039708	38039708	+	Silent	SNP	T	T	C	rs1894529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	19	52	0	0.358491	0	T|0.906;C|0.094	0.094	strong	SH3BP1,NS,carcinoma,0,1	SH3BP1	41	1	NM_018957	exon7	c.T531C	p.G177G	CCCGGGTAGTCAC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	705360	705360	+	Missense_Mutation	SNP	T	T	C	rs3803697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	13	22	0	0.866667	0	T|0.374;C|0.626	0.626	strong	WDR90,colon,carcinoma,0,3	WDR90	107	3	NM_145294	exon15	c.T1610C	p.V537A	GCGGGGTGCTGCG	.	PASS	Atlas-SNP
SALL2	6297	hgsc.bcm.edu	37	14	21993638	21993638	+	Missense_Mutation	SNP	G	G	C	rs2242527	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	228	110	223	0	0.482456	0	G|0.901;C|0.099	0.099	strong	.	SALL2	95	.	NM_005407	exon2	c.C224G	p.S75C	GCCGAAGAGTTGT	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169127097	169127097	+	Silent	SNP	C	C	A	rs2112703	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	55	75	0	0.561224	0	C|0.852;A|0.148	0.148	strong	.	DOCK2	389	.	NM_004946	exon13	c.C1212A	p.T404T	CAGGACCACCGTG	.	PASS	Atlas-SNP
MCTP1	79772	hgsc.bcm.edu	37	5	94230358	94230358	+	Missense_Mutation	SNP	C	C	T	rs9885412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	111	144	0	1	0	C|0.895;T|0.105	0.105	strong	.	MCTP1	110	.	NM_024717	exon11	c.G1835A	p.R612K	ACATATCTCTTTA	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38957853	38957853	+	Silent	SNP	A	A	G	rs3737094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	57	106	0	0.459677	0	A|0.618;G|0.382	0.382	strong	DNAH8_ENST00000359357,NS,adenoma,0,2	DNAH8	1239	2	NM_001206927	exon88	c.A13119G	p.L4373L	CCCCTTATGCAAA	.	PASS	Atlas-SNP
ZP3	7784	hgsc.bcm.edu	37	7	76069886	76069886	+	Missense_Mutation	SNP	A	A	G	rs2906997	bycluster;byfrequency;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	17	159	0	0.0923913	0	A|0.912;G|0.088	0.088	strong	.	ZP3	32	.	NM_001110354	exon7	c.A1018G	p.M340V	CATGTCATGAGCC	.	PASS	Atlas-SNP
USH1C	10083	hgsc.bcm.edu	37	11	17522638	17522638	+	Silent	SNP	G	G	A	rs10832796	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	70	62	0	0.985915	0	G|0.784;A|0.216	0.216	strong	.	USH1C	157	.	NM_153676	exon23	c.C2340T	p.V780V	AGAAACGACCACC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81211570	81211570	+	Missense_Mutation	SNP	T	T	C	rs143824762	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	14	34	0	0.482759	0	T|0.998;C|0.002	0.002	strong	.	PKD1L2	361	.	NM_001076780	exon14	c.A2279G	p.Y760C	TCCCCATAGGCAT	.	PASS	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	37	2	98809432	98809432	+	Missense_Mutation	SNP	T	T	C	rs74735968	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	64	97	0	0.481203	0	T|0.964;C|0.036	0.036	strong	.	VWA3B	138	.	NM_144992	exon11	c.T1538C	p.I513T	TTCTCATTGACAC	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150947128	150947128	+	Silent	SNP	G	G	A	rs34166097	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	62	116	0	0.407895	0	G|0.970;A|0.030	0.030	strong	.	FAT2	465	.	NM_001447	exon1	c.C1365T	p.A455A	GAGGGGGGCATGG	.	PASS	Atlas-SNP
ALG12	79087	hgsc.bcm.edu	37	22	50301476	50301476	+	Silent	SNP	T	T	C	rs8135963	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	35	77	0	0.416667	0	T|0.617;C|0.383	0.383	strong	ALG12,NS,carcinoma,0,1	ALG12	35	1	NM_024105	exon7	c.A885G	p.A295A	GCCCAGTGCCAGC	.	PASS	Atlas-SNP
QRICH2	84074	hgsc.bcm.edu	37	17	74289648	74289648	+	Missense_Mutation	SNP	G	G	A	rs118098530	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	261	115	297	0	0.440613	0	G|0.984;A|0.016	0.016	strong	.	QRICH2	143	.	NM_032134	exon4	c.C662T	p.P221L	CGATCTGGCCTTA	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	37	8	2054171	2054171	+	Silent	SNP	C	C	T	rs3817705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	30	82	0	0.428571	0	C|0.707;T|0.293	0.293	strong	.	MYOM2	251	.	NM_003970	exon22	c.C2874T	p.I958I	TAAAATCGAAACC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60899513	60899513	+	Missense_Mutation	SNP	C	C	A	rs148177752	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	48	89	0	0.533333	0	C|0.996;A|0.004	0.004	strong	.	LAMA5	268	.	NM_005560	exon42	c.G5627T	p.G1876V	CCAGAGCCAGGGA	.	PASS	Atlas-SNP
SYVN1	84447	hgsc.bcm.edu	37	11	64897292	64897292	+	Missense_Mutation	SNP	C	C	T	rs141712194	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	47	87	0	0.460784	0	C|0.999;T|0.001	0.001	strong	.	SYVN1	55	.	NM_172230	exon14	c.G1504A	p.A502T	GCCGGGCCTCCAG	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59770033	59770033	+	Silent	SNP	C	C	T	rs12326381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	40	36	0	1	0	C|0.880;T|0.120	0.120	strong	.	PIGN	62	.	NM_176787	exon21	c.G1962A	p.L654L	CTGTAACAGATGT	.	PASS	Atlas-SNP
CPNE1	8904	hgsc.bcm.edu	37	20	34214173	34214173	+	Missense_Mutation	SNP	G	G	A	rs11543239	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	25	51	0	0.480769	0	G|0.925;A|0.075	0.075	strong	.	CPNE1	44	.	NM_003915	exon16	c.C1619T	p.P540L	GCCTGGGGGGCCT	.	PASS	Atlas-SNP
MX1	4599	hgsc.bcm.edu	37	21	42812891	42812891	+	Silent	SNP	C	C	T	rs467960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	107	106	0	0.981651	0	C|0.547;T|0.453	0.453	strong	.	MX1	58	.	NM_001144925	exon11	c.C669T	p.I223I	GGACATCGCCACC	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32363844	32363844	+	Silent	SNP	C	C	T	rs9268480	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	33	55	0	0.485294	0	C|0.785;N|0.000	.	strong	.	BTNL2	50	.	NM_019602	exon5	c.G1050A	p.Q350Q	GGCCTCCTGGTAG	.	PASS	Atlas-SNP
TAS2R4	50832	hgsc.bcm.edu	37	7	141478574	141478574	+	Missense_Mutation	SNP	G	G	C	rs2234001	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	231	114	235	0	0.493506	0	G|0.508;C|0.492	0.492	strong	.	TAS2R4	25	.	NM_016944	exon1	c.G286C	p.V96L	AGCAGTGTCTGGT	.	PASS	Atlas-SNP
MID2	11043	hgsc.bcm.edu	37	X	107159291	107159291	+	Missense_Mutation	SNP	C	C	A	rs12849510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	44	55	0	0.977778	0	C|0.965;A|0.035	0.035	strong	.	MID2	122	.	NM_012216	exon6	c.C1133A	p.A378D	ATGATGCCTTTGA	.	PASS	Atlas-SNP
MGMT	4255	hgsc.bcm.edu	37	10	131506283	131506283	+	Missense_Mutation	SNP	C	C	T	rs12917	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	29	56	0	0.54717	0	C|0.858;T|0.142	0.142	strong	.	MGMT	32	.	NM_002412	exon3	c.C343T	p.L115F	CCGGCTCTTCACC	.	PASS	Atlas-SNP
LPIN2	9663	hgsc.bcm.edu	37	18	2929103	2929103	+	Missense_Mutation	SNP	G	G	A	rs104895500	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	28	48	0	0.28	0	G|0.998;A|0.002	0.002	strong	.	LPIN2	75	.	NM_014646	exon10	c.C1510T	p.L504F	CTATAAGTCCAGG	.	PASS	Atlas-SNP
E2F7	144455	hgsc.bcm.edu	37	12	77438436	77438436	+	Silent	SNP	T	T	C	rs2242384	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	74	159	0	0.510345	0	T|0.792;C|0.208	0.208	strong	E2F7_ENST00000322886,NS,carcinoma,0,1	E2F7	201	1	NM_203394	exon6	c.A969G	p.P323P	ATGGTCTGGGGCA	.	PASS	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	37	4	186541301	186541301	+	Silent	SNP	A	A	G	rs61753946	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	44	100	0	0.5	0	A|0.927;G|0.073	0.073	strong	.	SORBS2	300	.	NM_001270771	exon17	c.T2808C	p.R936R	GGACTCACGGTCT	.	PASS	Atlas-SNP
LATS2	26524	hgsc.bcm.edu	37	13	21562948	21562948	+	Missense_Mutation	SNP	G	G	A	rs558614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	24	10	0	0.96	0	G|0.298;A|0.702	0.702	strong	LATS2_ENST00000382592,NS,carcinoma,0,2	LATS2	176	2	NM_014572	exon4	c.C971T	p.A324V	TGGGCCGCGGGAC	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42523636	42523636	+	Missense_Mutation	SNP	C	C	A	rs3915951	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	34	101	1	0.259542	0.00990099	C|0.500;A|0.500	0.500	weak	CYP2D6_ENST00000360608,NS,carcinoma,0,11	CYP2D6	104	11	NM_000106	exon7	c.G986T	p.R329L	ACACGGCCTGGAC	.	scavenged	Atlas-SNP
DHRS4	10901	hgsc.bcm.edu	37	14	24435538	24435538	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	735	28	671	1	0.0380952	0.00149031	.	.	none	DHRS4,NS,carcinoma,0,1	DHRS4	22	1	NM_021004	exon6	c.C578A	p.T193N	GCCTGACCAAGAC	.	scavenged	Atlas-SNP
PRTG	283659	hgsc.bcm.edu	37	15	55965666	55965666	+	Silent	SNP	A	A	G	rs75403514	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	72	176	0	0.467532	0	A|0.994;G|0.006	0.006	strong	.	PRTG	110	.	NM_173814	exon10	c.T1755C	p.S585S	GTAGACACTGTCA	.	PASS	Atlas-SNP
THAP3	90326	hgsc.bcm.edu	37	1	6693097	6693097	+	Missense_Mutation	SNP	A	A	G	rs3174820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	41	84	0	0.488095	0	A|0.662;G|0.338	0.338	strong	.	THAP3	43	.	NM_001195753	exon6	c.A680G	p.Q227R	GGCACCAGGGACT	.	PASS	Atlas-SNP
TYRO3	7301	hgsc.bcm.edu	37	15	41857307	41857307	+	Missense_Mutation	SNP	G	G	A	rs141641556	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	6	52	0	0.136364	0	G|0.992;A|0.008	0.008	strong	TYRO3_ENST00000263798,NS,haematopoietic_neoplasm,0,2	TYRO3	169	2	NM_006293	exon6	c.G751A	p.G251S	GCTGATGGCCGAG	.	scavenged	Atlas-SNP
CDA	978	hgsc.bcm.edu	37	1	20945055	20945055	+	Silent	SNP	C	C	T	rs1048977	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	33	64	0	0.507692	0	C|0.671;T|0.329	0.329	strong	CDA,NS,carcinoma,0,1	CDA	19	1	NM_001785	exon4	c.C435T	p.T145T	GAAGACCCAGTGA	.	PASS	Atlas-SNP
SCUBE1	80274	hgsc.bcm.edu	37	22	43607040	43607040	+	Silent	SNP	G	G	A	rs138988	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	286	162	226	1	0.566434	0.00442478	G|0.910;A|0.090	0.090	strong	.	SCUBE1	105	.	NM_173050	exon18	c.C2271T	p.I757I	GCAGCGGATGCAG	.	PASS	Atlas-SNP
CNGA1	1259	hgsc.bcm.edu	37	4	47938879	47938879	+	Silent	SNP	G	G	A	rs17573673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	67	104	0	0.598214	0	G|0.953;A|0.047	0.047	strong	.	CNGA1	74	.	NM_001142564	exon10	c.C1839T	p.F613F	CTCACCGAAGTAG	.	PASS	Atlas-SNP
ZNF681	148213	hgsc.bcm.edu	37	19	23927604	23927604	+	Missense_Mutation	SNP	T	T	C	rs147282314	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	61	0	0.506667	0	T|0.999;C|0.001	0.001	strong	.	ZNF681	76	.	NM_138286	exon4	c.A748G	p.R250G	TGTCTCTAGTATA	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52369002	52369002	+	Silent	SNP	G	G	A	rs3212327	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	57	100	0	0.452381	0	G|0.880;A|0.120	0.120	strong	.	ITGA2	211	.	NM_002203	exon20	c.G2484A	p.T828T	AGTAACGCTGAAA	.	PASS	Atlas-SNP
PRKAG3	53632	hgsc.bcm.edu	37	2	219695487	219695487	+	Missense_Mutation	SNP	G	G	C	rs692243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	47	75	0	0.522222	0	G|0.835;C|0.165	0.165	strong	PRKAG3,NS,carcinoma,+1,1	PRKAG3	47	1	NM_017431	exon3	c.C211G	p.P71A	CTGGTGGCTCCCC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629859	32629859	+	Silent	SNP	A	A	G	rs1049130	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	49	100	0	1	0	A|0.380;G|0.620	0.620	strong	.	HLA-DQB1	15	.	NM_002123	exon3	c.T546C	p.N182N	GTCACCATTCCTA	.	PASS	Atlas-SNP
ASIC3	9311	hgsc.bcm.edu	37	7	150747937	150747937	+	Silent	SNP	C	C	A	rs11977275	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	24	59	0	0.428571	0	C|0.842;A|0.158	0.158	strong	.	.	.	.	NM_020322	exon4	c.C906A	p.P302P	CTCCCCCAGCCCC	.	PASS	Atlas-SNP
AGAP1	116987	hgsc.bcm.edu	37	2	236708166	236708166	+	Silent	SNP	C	C	T	rs2292708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	30	43	0	0.535714	0	C|0.787;T|0.213	0.213	strong	AGAP1,NS,carcinoma,0,1	AGAP1	95	1	NM_014914	exon8	c.C957T	p.T319T	GTTCACCGTGAGT	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	37	4	3446091	3446091	+	Missense_Mutation	SNP	G	G	T	rs3748034	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	15	32	0	0.454545	0	G|0.878;T|0.122	0.122	strong	.	HGFAC	69	.	NM_001528	exon6	c.G652T	p.A218S	CGCTGGGCCCGCG	.	PASS	Atlas-SNP
TMEM171	134285	hgsc.bcm.edu	37	5	72427404	72427404	+	Missense_Mutation	SNP	C	C	G	rs61746311	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	37	44	0	0.560606	0	C|0.948;G|0.051;T|0.000	0.051	strong	.	TMEM171	41	.	NM_173490	exon4	c.C822G	p.D274E	AAGAGACTGTGAA	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5372751	5372751	+	Missense_Mutation	SNP	A	A	C	rs4910755	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	59	150	0	0.41844	0	A|0.770;C|0.230	0.230	strong	.	OR51B6	53	.	NM_001004750	exon1	c.A14C	p.K5T	TCAATAAGTCTGC	.	PASS	Atlas-SNP
DPYD	1806	hgsc.bcm.edu	37	1	97547947	97547947	+	Missense_Mutation	SNP	T	T	A	rs67376798	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	62	141	0	0.484375	0	T|0.996;A|0.004	0.004	strong	.	DPYD	219	.	NM_000110	exon22	c.A2846T	p.D949V	TCTTCATCAATCA	.	PASS	Atlas-SNP
F13A1	2162	hgsc.bcm.edu	37	6	6318795	6318795	+	Missense_Mutation	SNP	C	C	A	rs5985	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	30	59	0	0.5	0	C|0.805;A|0.195	0.195	strong	.	F13A1	135	.	NM_000129	exon2	c.G103T	p.V35L	GCACCACGCCCTG	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	131817850	131817850	+	Silent	SNP	T	T	C	rs75848889	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	105	117	1	1	0.00854701	T|0.898;C|0.102	0.102	strong	.	PLXNA4	873	.	NM_020911	exon31	c.A5547G	p.A1849A	TGAGAGTGCACTC	.	PASS	Atlas-SNP
GSX2	170825	hgsc.bcm.edu	37	4	54966667	54966667	+	Silent	SNP	C	C	T	rs3194383	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	60	100	0	0.451128	0	C|0.456;T|0.544	0.544	strong	.	GSX2	27	.	NM_133267	exon1	c.C156T	p.S52S	CCCGTCCCGCAAG	.	PASS	Atlas-SNP
PRPF40A	55660	hgsc.bcm.edu	37	2	153533260	153533260	+	Silent	SNP	G	G	A	rs11544718	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	234	113	221	0	0.482906	0	T|0.000;G|0.835;C|0.000;A|0.164	0.164	strong	PRPF40A_ENST00000410080,caecum,carcinoma,0,3	PRPF40A	149	3	NM_017892	exon10	c.C690T	p.A230A	GACTGGGGCTGTT	.	PASS	Atlas-SNP
C20orf173	140873	hgsc.bcm.edu	37	20	34116282	34116282	+	Missense_Mutation	SNP	T	T	C	rs7261862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	97	200	0	0.492386	0	T|0.793;C|0.207	0.207	strong	.	C20orf173	19	.	NM_001145350	exon4	c.A580G	p.K194E	TCACCTTATCACT	.	PASS	Atlas-SNP
MICALL1	85377	hgsc.bcm.edu	37	22	38323700	38323700	+	Missense_Mutation	SNP	C	C	T	rs2272829	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	20	67	0	0.294118	0	C|0.949;T|0.051	0.051	strong	.	MICALL1	53	.	NM_033386	exon9	c.C1748T	p.P583L	TTGCCCCCAGGAC	.	PASS	Atlas-SNP
SELP	6403	hgsc.bcm.edu	37	1	169566326	169566326	+	Silent	SNP	G	G	A	rs6135	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	41	117	0	0.254658	0	G|0.774;A|0.226	0.226	strong	.	SELP	132	.	NM_003005	exon11	c.C1794T	p.C598C	GAAATGGCAGGTG	.	PASS	Atlas-SNP
F11	2160	hgsc.bcm.edu	37	4	187201211	187201211	+	Silent	SNP	A	A	G	rs5974	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	42	66	0	0.538462	0	A|0.837;G|0.163	0.163	strong	F11,colon,carcinoma,+1,1	F11	65	1	NM_000128	exon8	c.A801G	p.T267T	CAGTACACGCATT	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8160334	8160334	+	Missense_Mutation	SNP	G	G	A	rs12608849	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	85	120	0	0.534591	0	G|0.757;A|0.243	0.243	strong	.	FBN3	300	.	NM_032447	exon45	c.C5710T	p.L1904F	TGTTGAGGCAATG	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104025446	104025446	+	Silent	SNP	G	G	A	rs147053330	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	58	137	0	0.460317	0	G|0.994;A|0.006	0.006	strong	.	STAB2	370	.	NM_017564	exon6	c.G558A	p.A186A	CTCTGCGTACACT	.	PASS	Atlas-SNP
OR4D2	124538	hgsc.bcm.edu	37	17	56247101	56247101	+	Missense_Mutation	SNP	C	C	A	rs60994383	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	77	122	0	0.509934	0	C|0.745;A|0.255	0.255	strong	.	OR4D2	48	.	NM_001004707	exon1	c.C85A	p.L29I	CTGTTTCTAATGT	.	PASS	Atlas-SNP
DGKQ	1609	hgsc.bcm.edu	37	4	961397	961397	+	Silent	SNP	C	C	T	rs2305487	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	92	165	0	0.557576	0	T|0.037;G|0.000;C|0.963	0.037	strong	.	DGKQ	29	.	NM_001347	exon8	c.G927A	p.V309V	TCTTCTCACCGCG	.	PASS	Atlas-SNP
CACNG6	59285	hgsc.bcm.edu	37	19	54501527	54501527	+	Silent	SNP	G	G	A	rs34604090	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	10	34	0	0.277778	0	G|0.899;A|0.101	0.101	strong	CACNG6,colon,carcinoma,0,1	CACNG6	42	1	NM_145815	exon2	c.G366A	p.T122T	CACCACGGGGGAG	.	PASS	Atlas-SNP
PANK1	53354	hgsc.bcm.edu	37	10	91344169	91344169	+	Silent	SNP	G	G	A	rs1063943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	44	71	0	0.556962	0	G|0.912;A|0.088	0.088	strong	.	PANK1	35	.	NM_148977	exon7	c.C1791T	p.D597D	CTACTTGTCATCA	.	PASS	Atlas-SNP
DNAJB8	165721	hgsc.bcm.edu	37	3	128182074	128182074	+	Silent	SNP	G	G	A	rs2981026	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	161	139	0	0.98773	0	G|0.724;A|0.276	0.276	strong	.	DNAJB8	34	.	NM_153330	exon3	c.C15T	p.Y5Y	CACTTCGTAGTAG	.	PASS	Atlas-SNP
PROP1	5626	hgsc.bcm.edu	37	5	177419967	177419967	+	Missense_Mutation	SNP	C	C	T	rs1800197	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	44	110	0	0.419048	0	C|0.785;T|0.214	0.214	strong	PROP1,NS,carcinoma,0,1	PROP1	28	1	NM_006261	exon3	c.G424A	p.A142T	AAAAGGCGGCAGG	.	PASS	Atlas-SNP
SHARPIN	81858	hgsc.bcm.edu	37	8	145154257	145154257	+	Missense_Mutation	SNP	C	C	G	rs11541804	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	31	61	0	0.469697	0	C|0.939;G|0.061	0.061	strong	.	SHARPIN	16	.	NM_030974	exon6	c.G845C	p.S282T	GCAAGGCTGCGCT	.	PASS	Atlas-SNP
GLI2	2736	hgsc.bcm.edu	37	2	121746956	121746956	+	Missense_Mutation	SNP	G	G	T	rs3738880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	39	94	0	0.527027	0	G|0.411;T|0.589	0.589	strong	.	GLI2	187	.	NM_005270	exon13	c.G3466T	p.A1156S	GTAGACGCCCTGG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093393	1093393	+	Missense_Mutation	SNP	G	G	A	rs199525790		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	4	34	0	0.0952381	0	.	.	weak	MUC2_ENST00000441003,NS,carcinoma,0,2	MUC2	614	2	NM_002457	exon30	c.G5212A	p.G1738S	CCCACCGGCACAC	.	PASS	Atlas-SNP
FAM153B	202134	hgsc.bcm.edu	37	5	175530780	175530780	+	Missense_Mutation	SNP	C	C	T	rs200265244	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	923	206	913	1	0.223185	0.00109529	C|0.999;T|0.001	0.001	weak	.	FAM153B	28	.	NM_001265615	exon13	c.C526T	p.R176C	CCACAACGTGGTA	.	PASS	Atlas-SNP
RAB11FIP3	9727	hgsc.bcm.edu	37	16	570557	570557	+	Silent	SNP	T	T	C	rs11537754	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	91	82	0	1	0	T|0.353;C|0.647	0.647	strong	.	RAB11FIP3	31	.	NM_014700	exon13	c.T2115C	p.S705S	CTTCTCTGAGTCC	.	PASS	Atlas-SNP
ISG15	9636	hgsc.bcm.edu	37	1	949608	949608	+	Missense_Mutation	SNP	G	G	A	rs1921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	52	133	0	0.419355	0	A|0.360;C|0.000;G|0.640	0.360	strong	.	ISG15	10	.	NM_005101	exon2	c.G248A	p.S83N	CTCTGAGCATCCT	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52369086	52369086	+	Silent	SNP	G	G	A	rs3213805	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	73	160	0	0.462025	0	G|0.883;A|0.117	0.117	strong	ITGA2_ENST00000296585,NS,carcinoma,0,1	ITGA2	211	1	NM_002203	exon20	c.G2568A	p.L856L	CTCCCTGCCGGTA	.	PASS	Atlas-SNP
OR7A17	26333	hgsc.bcm.edu	37	19	14991459	14991459	+	Missense_Mutation	SNP	C	C	T	rs13345394	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	27	54	0	0.509434	0	C|0.959;T|0.041	0.041	strong	.	OR7A17	37	.	NM_030901	exon1	c.G709A	p.A237T	AAAATGCCTTGTA	.	PASS	Atlas-SNP
UGT1A3	54659	hgsc.bcm.edu	37	2	234637853	234637853	+	Silent	SNP	G	G	A	rs6706232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	64	151	0	0.463768	0	G|0.480;A|0.520	0.520	strong	UGT1A3,colon,carcinoma,0,1	UGT1A3	91	1	NM_019093	exon1	c.G81A	p.E27E	GGCTGAGAGTGGA	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81208515	81208515	+	Missense_Mutation	SNP	G	G	A	rs12596941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	29	37	0	0.5	0	G|0.789;A|0.211	0.211	strong	.	PKD1L2	361	.	NM_001076780	exon16	c.C2588T	p.A863V	CCGAGTGCCACCT	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20778646	20778646	+	Missense_Mutation	SNP	G	G	A	rs6461515	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	164	101	0	1	0	G|0.210;A|0.790	0.790	strong	.	ABCB5	357	.	NM_001163941	exon24	c.G2908A	p.E970K	ATCGGAGAAACGC	.	PASS	Atlas-SNP
GNL2	29889	hgsc.bcm.edu	37	1	38061396	38061396	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	9	156	0	0.0545455	0	.	.	none	.	GNL2	58	.	NM_013285	exon1	c.A28G	p.S10G	TGGTGCTCCGTCC	.	PASS	Atlas-SNP
TMEM129	92305	hgsc.bcm.edu	37	4	1719294	1719294	+	Silent	SNP	T	T	C	rs2236786	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	42	94	0	0.482759	0	T|0.851;C|0.149	0.149	strong	.	TMEM129	10	.	NM_001127266	exon3	c.A789G	p.T263T	GGCAAATGTCTCC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11511457	11511457	+	Silent	SNP	C	C	T	rs11078022	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	20	62	0	0.357143	0	C|0.626;N|0.000	.	strong	.	DNAH9	695	.	NM_001372	exon2	c.C429T	p.P143P	TCTACCCGTCCTG	.	PASS	Atlas-SNP
OR4A5	81318	hgsc.bcm.edu	37	11	51412379	51412379	+	Missense_Mutation	SNP	T	T	C	rs10902343	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	27	37	0	0.675	0	T|0.864;C|0.136	0.136	strong	.	OR4A5	116	.	NM_001005272	exon1	c.A17G	p.N6S	GTAATATTGTTAT	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	37	17	48761053	48761053	+	Missense_Mutation	SNP	G	G	A	rs11568591	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	16	30	0	0.421053	0	G|0.964;A|0.036	0.036	strong	ABCC3,NS,carcinoma,+1,2	ABCC3	138	2	NM_003786	exon27	c.G3890A	p.R1297H	CTGTGCGCTACCG	.	PASS	Atlas-SNP
DCAF17	80067	hgsc.bcm.edu	37	2	172330393	172330393	+	Silent	SNP	A	A	G	rs3731983	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	101	202	0	0.528796	0	A|0.804;G|0.196	0.196	strong	.	DCAF17	41	.	NM_025000	exon10	c.A999G	p.Q333Q	GATCCAAGAAATG	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62193019	62193019	+	Silent	SNP	C	C	T	rs11551684	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	45	100	0	0.436893	0	C|0.849;T|0.151	0.151	strong	PRIC285,NS,carcinoma,0,1	.	.	1	NM_001037335	exon13	c.G6771A	p.P2257P	CACACGCGGCACT	.	PASS	Atlas-SNP
HELB	92797	hgsc.bcm.edu	37	12	66725160	66725160	+	Missense_Mutation	SNP	C	C	T	rs1185244	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	62	0	1	0	C|0.561;T|0.439	0.439	strong	.	HELB	90	.	NM_033647	exon12	c.C2897T	p.P966L	ATTTTCCGTCCCC	.	PASS	Atlas-SNP
SLC25A12	8604	hgsc.bcm.edu	37	2	172671648	172671648	+	Missense_Mutation	SNP	A	A	C	rs200754828		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	215	95	189	0	0.44186	0	A|0.999;C|0.001	0.001	weak	.	SLC25A12	59	.	NM_003705	exon10	c.T995G	p.L332R	GAGCCCAGAGTGA	.	PASS	Atlas-SNP
BAGE3	85318	hgsc.bcm.edu	37	21	11049621	11049621	+	Nonsense_Mutation	SNP	G	G	A	rs28441174	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	336	39	262	0	0.116071	0	G|0.643;A|0.357	0.357	strong	.	.	.	.	NM_182481	exon4	c.C280T	p.R94X	TCCTTCGCTATAA	.	PASS	Atlas-SNP
SLC22A24	283238	hgsc.bcm.edu	37	11	62902146	62902146	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	49	120	0	0.30625	0	.	.	none	.	SLC22A24	31	.	NM_001136506	exon2	c.T497C	p.L166P	TCTGAAAGATGGC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152189038	152189038	+	Silent	SNP	A	A	G	rs145118416	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	16	129	0	0.177778	0	A|0.968;G|0.032	0.032	strong	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.T5067C	p.Y1689Y	CTGACCATAGCGG	.	scavenged	Atlas-SNP
PGM3	5238	hgsc.bcm.edu	37	6	83881740	83881740	+	Silent	SNP	T	T	C	rs542948	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	36	74	0	0.514286	0	T|0.636;G|0.002	.	strong	.	PGM3	39	.	NM_001199917	exon12	c.A1365G	p.E455E	GATTGCTTCAATC	.	PASS	Atlas-SNP
PLXDC1	57125	hgsc.bcm.edu	37	17	37243927	37243927	+	Silent	SNP	A	A	G	rs12602945	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	26	45	0	0.448276	0	A|0.747;G|0.253	0.253	strong	PLXDC1,NS,carcinoma,0,1	PLXDC1	45	1	NM_020405	exon8	c.T840C	p.Y280Y	GCGGTGATATTCA	.	PASS	Atlas-SNP
OR2M5	127059	hgsc.bcm.edu	37	1	248309020	248309020	+	Missense_Mutation	SNP	G	G	A	rs139290187	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	276	11	245	1	0.0398551	0.00408163	G|0.996;A|0.004	0.004	strong	OR2M5,NS,carcinoma,0,2	OR2M5	117	2	NM_001004690	exon1	c.G571A	p.D191N	TGCAATGACACAT	.	scavenged	Atlas-SNP
SERPINB8	5271	hgsc.bcm.edu	37	18	61650865	61650865	+	Silent	SNP	G	G	A	rs11537989	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	56	85	0	0.509091	0	G|0.763;A|0.237	0.237	strong	.	SERPINB8	42	.	NM_001031848	exon5	c.G477A	p.L159L	AAAGCTGGTCCTT	.	PASS	Atlas-SNP
LAMC3	10319	hgsc.bcm.edu	37	9	133946909	133946909	+	Silent	SNP	G	G	A	rs10901344	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	28	69	0	0.491228	0	G|0.683;A|0.317	0.317	strong	.	LAMC3	167	.	NM_006059	exon18	c.G3108A	p.G1036G	GGAGGGGTGGCTC	.	PASS	Atlas-SNP
CD300LG	146894	hgsc.bcm.edu	37	17	41926023	41926023	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	60	88	0	0.566038	0	.	.	none	.	CD300LG	46	.	NM_001168323	exon2	c.G141A	p.R47R	CCACCGGAAGTAC	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116931445	116931445	+	Missense_Mutation	SNP	T	T	C	rs2808770	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	25	73	0	0.396825	0	C|0.259;N|0.000	0.259	strong	.	COL27A1	200	.	NM_032888	exon3	c.T1610C	p.I537T	AGCCCATTGGATC	.	PASS	Atlas-SNP
ACSS3	79611	hgsc.bcm.edu	37	12	81627238	81627238	+	Silent	SNP	C	C	T	rs1921038	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	56	140	0	0.459016	0	C|0.811;T|0.189	0.189	strong	.	ACSS3	118	.	NM_024560	exon13	c.C1707T	p.G569G	TGCAGGCGCCATT	.	PASS	Atlas-SNP
ACAT2	39	hgsc.bcm.edu	37	6	160198359	160198359	+	Silent	SNP	C	C	T	rs3464	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	127	123	0	0.954887	0	C|0.797;T|0.203	0.203	strong	.	ACAT2	32	.	NM_005891	exon7	c.C783T	p.V261V	AGCTGTCGTTCTT	.	PASS	Atlas-SNP
A2M	2	hgsc.bcm.edu	37	12	9232268	9232268	+	Missense_Mutation	SNP	T	T	C	rs669	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	146	0	1	0	T|0.745;C|0.255	0.255	strong	.	A2M	180	.	NM_000014	exon24	c.A2998G	p.I1000V	ACTTGATCTCTGG	.	PASS	Atlas-SNP
MGMT	4255	hgsc.bcm.edu	37	10	131265545	131265545	+	Silent	SNP	C	C	T	rs16906252	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	34	45	0	0.382022	0	C|0.966;T|0.034	0.034	strong	.	MGMT	32	.	NM_002412	exon1	c.C66T	p.R22R	GGTGCGCACCGTT	.	PASS	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5862984	5862984	+	Missense_Mutation	SNP	G	G	C	rs10769272	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	60	102	0	0.521739	0	G|0.607;C|0.393	0.393	strong	OR52E6,NS,carcinoma,0,1	OR52E6	70	1	NM_001005167	exon1	c.C144G	p.F48L	CACAAAGAAGATA	.	PASS	Atlas-SNP
KCTD9	54793	hgsc.bcm.edu	37	8	25287397	25287397	+	Silent	SNP	T	T	C	rs1812594	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	318	166	321	0	0.522013	0	T|0.828;C|0.172	0.172	strong	.	KCTD9	33	.	NM_017634	exon12	c.A1146G	p.L382L	CATGTGTAGTGGT	.	PASS	Atlas-SNP
OR10H1	26539	hgsc.bcm.edu	37	19	15918455	15918455	+	Silent	SNP	G	G	A	rs61739573	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	55	140	2	0.443548	0.0142857	G|0.794;A|0.206	0.206	strong	OR10H1,NS,carcinoma,-2,1	OR10H1	59	1	NM_013940	exon1	c.C393T	p.R131R	GTTGTAGCGCAGG	.	scavenged	Atlas-SNP
RPGRIP1	57096	hgsc.bcm.edu	37	14	21792811	21792811	+	Silent	SNP	G	G	A	rs9322965	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	88	65	0	1	0	G|0.856;A|0.144	0.144	strong	.	RPGRIP1	213	.	NM_020366	exon14	c.G1797A	p.P599P	CCGACCGTTGTCG	.	PASS	Atlas-SNP
KRT35	3886	hgsc.bcm.edu	37	17	39633354	39633354	+	Missense_Mutation	SNP	C	C	T	rs12451652	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	42	77	0	0.518519	0	C|0.825;T|0.175	0.175	strong	.	KRT35	58	.	NM_002280	exon7	c.G1322A	p.C441Y	GGGCTGCAGTTTG	.	PASS	Atlas-SNP
MAU2	23383	hgsc.bcm.edu	37	19	19449686	19449686	+	Silent	SNP	G	G	T	rs2074090	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	66	96	0	0.532258	0	G|0.437;T|0.563	0.563	strong	MAU2,NS,malignant_melanoma,+1,1	MAU2	38	1	NM_015329	exon5	c.G489T	p.S163S	GGTGTCGGCCTGT	.	PASS	Atlas-SNP
TAS2R5	54429	hgsc.bcm.edu	37	7	141490238	141490238	+	Missense_Mutation	SNP	G	G	T	rs2227264	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	74	168	0	0.443114	0	G|0.549;N|0.000	.	strong	.	TAS2R5	33	.	NM_018980	exon1	c.G77T	p.S26I	ATGGAAGCCTGGT	.	PASS	Atlas-SNP
SLC5A1	6523	hgsc.bcm.edu	37	22	32506041	32506041	+	Silent	SNP	A	A	G	rs17683704	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	59	117	0	0.578431	0	A|0.954;G|0.046	0.046	strong	.	SLC5A1	80	.	NM_000343	exon15	c.A1836G	p.L612L	TGGGCTAGAGCAG	.	PASS	Atlas-SNP
IL7R	3575	hgsc.bcm.edu	37	5	35876274	35876274	+	Missense_Mutation	SNP	A	A	G	rs3194051	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	91	83	0	0.98913	0	A|0.740;G|0.260	0.260	strong	.	IL7R	200	.	NM_002185	exon8	c.A1066G	p.I356V	GTAGTCATCACTC	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141093340	141093340	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	2	147	0	0.0149254	0	.	.	none	LRP1B,NS,carcinoma,-1,1	LRP1B	1315	1	NM_018557	exon78	c.A11960T	p.D3987V	GAATGATCAGTCC	.	scavenged	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62196033	62196033	+	Missense_Mutation	SNP	C	C	T	rs3810487	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	35	30	0	0.59322	0	C|0.809;T|0.191	0.191	strong	.	.	.	.	NM_001037335	exon9	c.G4142A	p.R1381K	CCGTCCCTGGGCA	.	PASS	Atlas-SNP
CALU	813	hgsc.bcm.edu	37	7	128388648	128388648	+	Missense_Mutation	SNP	G	G	A	rs2290228	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	51	98	0	0.439655	0	G|0.841;A|0.159	0.159	strong	.	CALU	42	.	NM_001199671	exon3	c.G35A	p.R12Q	ACCTGCGACAGTT	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126241335	126241335	+	Missense_Mutation	SNP	C	C	G	rs36052762	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	38	90	0	0.493506	0	C|0.920;G|0.080	0.080	strong	.	FAT4	1752	.	NM_024582	exon1	c.C3769G	p.Q1257E	GAAAGACAGTTTG	.	PASS	Atlas-SNP
FCAR	2204	hgsc.bcm.edu	37	19	55396900	55396900	+	Silent	SNP	A	A	G	rs1865096	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	38	60	0	0.527778	0	A|0.234;G|0.766	0.766	strong	FCAR_ENST00000433231,colon,carcinoma,0,2	FCAR	110	2	NM_133279	exon3	c.A324G	p.R108R	CTACAGATTCCGG	.	PASS	Atlas-SNP
PCDHB13	56123	hgsc.bcm.edu	37	5	140595183	140595183	+	Silent	SNP	G	G	T	rs2910330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	61	152	0	0.448529	0	A|0.000;G|0.862;T|0.138	0.138	strong	.	PCDHB13	142	.	NM_018933	exon1	c.G1488T	p.P496P	GGACCCGCACCTG	.	PASS	Atlas-SNP
SLC5A12	159963	hgsc.bcm.edu	37	11	26694979	26694979	+	Silent	SNP	A	A	G	rs4369354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	43	53	0	1	0	A|0.555;G|0.445	0.445	strong	SLC5A12,colon,carcinoma,-2,1	SLC5A12	134	1	NM_178498	exon14	c.T1677C	p.C559C	AACTCCACACCAG	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	37	3	58080639	58080639	+	Silent	SNP	C	C	T	rs141151998	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	43	78	0	0.349593	0	C|0.999;T|0.001	0.001	strong	FLNB_ENST00000490882,NS,carcinoma,0,2	FLNB	430	2	NM_001457	exon5	c.C864T	p.D288D	AGGAGACGTGATG	.	PASS	Atlas-SNP
INSC	387755	hgsc.bcm.edu	37	11	15243047	15243047	+	Missense_Mutation	SNP	G	G	A	rs61745838	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	82	172	0	0.482353	0	G|0.975;A|0.025	0.025	strong	INSC,NS,carcinoma,0,1	INSC	104	1	NM_001031853	exon8	c.G985A	p.D329N	TTGGCCGACATCC	.	PASS	Atlas-SNP
THSD1	55901	hgsc.bcm.edu	37	13	52952575	52952575	+	Silent	SNP	G	G	A	rs9536042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	37	69	0	0.420455	0	G|0.933;A|0.067	0.067	strong	.	THSD1	89	.	NM_018676	exon5	c.C1530T	p.A510A	GCCAGAGGCATCA	.	PASS	Atlas-SNP
DHRS4	10901	hgsc.bcm.edu	37	14	24423090	24423090	+	Silent	SNP	A	A	G	rs2273944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	24	54	0	0.393443	0	A|0.694;G|0.306	0.306	strong	.	DHRS4	22	.	NM_021004	exon1	c.A93G	p.A31A	GCTCGCAAATAAG	.	PASS	Atlas-SNP
HR	55806	hgsc.bcm.edu	37	8	21984596	21984596	+	Silent	SNP	C	C	T	rs78489044	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	59	137	0	0.517544	0	C|0.992;T|0.008	0.008	strong	HR,colon,carcinoma,-1,1	HR	71	1	NM_018411	exon3	c.G1359A	p.S453S	CCCTATCGATGTG	.	PASS	Atlas-SNP
EFCAB6	64800	hgsc.bcm.edu	37	22	44083442	44083442	+	Missense_Mutation	SNP	T	T	C	rs5764214	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	49	121	0	0.368421	0	T|0.603;C|0.397	0.397	strong	.	EFCAB6	177	.	NM_022785	exon11	c.A1051G	p.T351A	TTTTAGTGGTGGC	.	PASS	Atlas-SNP
ZNF749	388567	hgsc.bcm.edu	37	19	57955885	57955885	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	3	137	3	0.0204082	0.0218978	.	.	none	ZNF749,right_upper_lobe,carcinoma,0,14	ZNF749	75	14	NM_001023561	exon3	c.C1369G	p.Q457E	CAGCACCAGAAAA	.	scavenged	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201181920	201181920	+	Silent	SNP	G	G	T	rs12060924	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	78	94	0	0.573529	0	G|0.691;T|0.309	0.309	strong	.	IGFN1	220	.	NM_001164586	exon12	c.G7899T	p.G2633G	CCAGGGGTTTAGC	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22214127	22214127	+	Silent	SNP	A	A	G	rs2229478	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	71	135	0	0.461039	0	A|0.549;G|0.451	0.451	strong	.	HSPG2	311	.	NM_005529	exon8	c.T744C	p.L248L	CTCCACAAGGAGA	.	PASS	Atlas-SNP
CYB5R3	1727	hgsc.bcm.edu	37	22	43032742	43032742	+	Silent	SNP	C	C	T	rs5996200	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	18	31	1	0.409091	0.0322581	C|0.882;T|0.118	0.118	strong	CYB5R3_ENST00000361740,bladder,carcinoma,-1,2	CYB5R3	31	2	NM_001171660	exon2	c.G231A	p.P77P	CCGCAGCGGGTAC	.	scavenged	Atlas-SNP
VPS51	738	hgsc.bcm.edu	37	11	64877197	64877197	+	Silent	SNP	C	C	T	rs61736623	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	48	113	0	0.5	0	C|0.974;T|0.026	0.026	strong	.	.	.	.	NM_013265	exon7	c.C1680T	p.P560P	GACGCCCGTGAGC	.	PASS	Atlas-SNP
ITGB8	3696	hgsc.bcm.edu	37	7	20418678	20418678	+	Silent	SNP	C	C	T	rs3735619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	78	70	0	0.619048	0	C|0.849;N|0.000	.	strong	ITGB8,NS,carcinoma,0,1	ITGB8	159	1	NM_002214	exon4	c.C393T	p.A131A	AGGAGCCGAAGCT	.	PASS	Atlas-SNP
CEP170B	283638	hgsc.bcm.edu	37	14	105352910	105352910	+	Silent	SNP	G	G	A	rs373896765		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	16	19	0	0.390244	0	.	.	weak	.	.	.	.	NM_001112726	exon12	c.G2334A	p.T778T	GCCCACGTGGAGC	.	PASS	Atlas-SNP
WNT8A	7478	hgsc.bcm.edu	37	5	137426447	137426447	+	Silent	SNP	G	G	A	rs6596422	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	32	66	0	1	0	G|0.519;A|0.481	0.481	strong	WNT8A,colon,carcinoma,+1,1	WNT8A	36	1	NM_058244	exon6	c.G741A	p.A247A	AGAGGCGGAACTG	.	PASS	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	37	15	48063076	48063076	+	Silent	SNP	T	T	C	rs568215	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	35	77	0	0.448718	0	T|0.258;C|0.742	0.742	strong	.	SEMA6D	322	.	NM_153618	exon19	c.T2316C	p.P772P	TCTTCCTACTCCT	.	PASS	Atlas-SNP
TNK2	10188	hgsc.bcm.edu	37	3	195591056	195591056	+	Missense_Mutation	SNP	C	C	T	rs13433937	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	37	55	0	0.627119	0	C|0.969;T|0.031	0.031	strong	.	TNK2	246	.	NM_001010938	exon15	c.G3257A	p.R1086H	TCTCAGCGCCTAG	.	PASS	Atlas-SNP
TTLL13	440307	hgsc.bcm.edu	37	15	90796558	90796558	+	Missense_Mutation	SNP	G	G	A	rs12912620	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	42	79	0	0.466667	0	G|0.710;A|0.290	0.290	strong	TTLL13,brain,glioma,0,1	TTLL13	44	1	NM_001029964	exon4	c.G376A	p.A126T	GACTGCGCTGTCT	.	PASS	Atlas-SNP
ZNF44	51710	hgsc.bcm.edu	37	19	12383540	12383540	+	Silent	SNP	G	G	C	rs56056044	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	29	61	0	0.491525	0	G|0.778;C|0.222	0.222	strong	.	ZNF44	55	.	NM_001164276	exon5	c.C1674G	p.G558G	GGCTTTGCCACAA	.	PASS	Atlas-SNP
SCFD1	23256	hgsc.bcm.edu	37	14	31099738	31099738	+	Missense_Mutation	SNP	A	A	G	rs229150	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	55	82	0	0.528846	0	G|0.519;N|0.000	0.519	strong	SCFD1,NS,carcinoma,0,1	SCFD1	43	1	NM_016106	exon3	c.A188G	p.K63R	CTGTGAAGGAGCT	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3418391	3418391	+	Silent	SNP	C	C	T	rs4648508	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	255	250	189	1	0.980392	0.00529101	C|0.703;T|0.297	0.297	strong	MEGF6,colon,carcinoma,0,2	MEGF6	91	2	NM_001409	exon18	c.G2283A	p.P761P	CCCCGGCGGACAC	.	PASS	Atlas-SNP
ZNF468	90333	hgsc.bcm.edu	37	19	53344919	53344919	+	Missense_Mutation	SNP	T	T	G	rs58239286	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	58	82	0	0.604167	0	T|0.795;G|0.205	0.205	strong	.	ZNF468	46	.	NM_001008801	exon4	c.A628C	p.M210L	CTCTCATGTGTAC	.	PASS	Atlas-SNP
POPDC3	64208	hgsc.bcm.edu	37	6	105609468	105609468	+	Missense_Mutation	SNP	C	C	T	rs11961225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	59	122	0	0.479675	0	C|0.962;T|0.038	0.038	strong	POPDC3,right_lower_lobe,carcinoma,-1,1	POPDC3	47	1	NM_022361	exon2	c.G317A	p.R106Q	AATTCTCGGGCAA	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91498318	91498318	+	Silent	SNP	A	A	G	rs1886998	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	46	0	0.5	0	A|0.706;G|0.294	0.294	strong	.	KIF20B	191	.	NM_016195	exon20	c.A3600G	p.K1200K	TATGAAACATTTA	.	PASS	Atlas-SNP
WWC1	23286	hgsc.bcm.edu	37	5	167891830	167891830	+	Silent	SNP	T	T	C	rs3203960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	32	61	0	0.470588	0	T|0.625;C|0.375	0.375	strong	.	WWC1	98	.	NM_001161662	exon21	c.T3031C	p.L1011L	AGCCAATTGACCC	.	PASS	Atlas-SNP
CHAMP1	283489	hgsc.bcm.edu	37	13	115090019	115090019	+	Silent	SNP	G	G	A	rs3813131	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	28	68	0	0.518519	0	G|0.835;A|0.165	0.165	strong	.	.	.	.	NM_001164144	exon3	c.G702A	p.P234P	TTTCCCGGAAACA	.	PASS	Atlas-SNP
GLI4	2738	hgsc.bcm.edu	37	8	144358381	144358381	+	Missense_Mutation	SNP	G	G	A	rs1056148	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	23	27	0	0.45098	0	G|0.531;A|0.469	0.469	strong	GLI4,NS,carcinoma,0,1	GLI4	28	1	NM_138465	exon4	c.G538A	p.A180T	CGGGGGGCCAAGC	.	PASS	Atlas-SNP
KIAA1549L	25758	hgsc.bcm.edu	37	11	33604885	33604885	+	Silent	SNP	C	C	T	rs2273117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	18	31	0	0.666667	0	C|0.789;T|0.211	0.211	strong	.	.	.	.	NM_012194	exon10	c.C3513T	p.P1171P	CACAGCCGTGGTG	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133761001	133761001	+	Silent	SNP	A	A	G	rs1056171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	58	108	2	0.517857	0.0185185	A|0.391;G|0.609	0.609	strong	ABL1,scalp,carcinoma,+2,1	ABL1	1632	1	NM_007313	exon11	c.A3381G	p.P1127P	TGGTCCAGCGGCC	.	scavenged	Atlas-SNP
DSE	29940	hgsc.bcm.edu	37	6	116720487	116720487	+	Missense_Mutation	SNP	C	C	T	rs41352449	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	81	52	0	1	0	C|0.500;T|0.500	0.500	strong	DSE,rectum,carcinoma,-1,1	DSE	98	1	NM_001080976	exon2	c.C74T	p.T25I	ACATCACCGACGA	.	PASS	Atlas-SNP
CXorf58	254158	hgsc.bcm.edu	37	X	23928489	23928489	+	Missense_Mutation	SNP	C	C	T	rs2707164	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	107	120	0	1	0	0|0.003;T|0.491	0.491	strong	.	CXorf58	53	.	NM_152761	exon2	c.C70T	p.R24C	AAAGTTCGCAGAG	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159621087	159621087	+	Missense_Mutation	SNP	C	C	T	rs62432291	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	44	99	0	0.483516	0	C|0.972;T|0.028	0.028	strong	.	FNDC1	250	.	NM_032532	exon3	c.C364T	p.P122S	AGCCGTCCTGTTT	.	PASS	Atlas-SNP
ZNF230	7773	hgsc.bcm.edu	37	19	44515492	44515492	+	Missense_Mutation	SNP	T	T	A	rs6413542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	31	41	0	0.563636	0	T|0.992;A|0.008	0.008	strong	.	ZNF230	44	.	NM_006300	exon5	c.T1301A	p.F434Y	GGTCTTTCTGTAA	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	37	1	173516871	173516871	+	Missense_Mutation	SNP	G	G	C	rs16846206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	74	90	0	0.569231	0	G|0.763;C|0.237	0.237	strong	.	.	.	.	NM_178527	exon13	c.C1514G	p.A505G	ATTAAAGCTTCAT	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91470834	91470834	+	Silent	SNP	A	A	C	rs1048057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	35	84	0	0.492958	0	A|0.632;C|0.368	0.368	strong	KIF20B,NS,carcinoma,0,1	KIF20B	191	1	NM_016195	exon6	c.A607C	p.R203R	TACTTAAGGTTAT	.	PASS	Atlas-SNP
DEPDC7	91614	hgsc.bcm.edu	37	11	33054856	33054856	+	Missense_Mutation	SNP	C	C	T	rs17852859	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	28	63	0	0.459016	0	C|0.977;T|0.023	0.023	strong	.	DEPDC7	94	.	NM_001077242	exon9	c.C1391T	p.T464I	ACAATACAGAGAA	.	PASS	Atlas-SNP
CTNNAL1	8727	hgsc.bcm.edu	37	9	111755008	111755008	+	Silent	SNP	C	C	T	rs2297581	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	215	107	209	0	0.497674	0	C|0.775;A|0.002	.	strong	.	CTNNAL1	51	.	NM_003798	exon3	c.G423A	p.V141V	CTTTATCACTCCT	.	PASS	Atlas-SNP
TRMT2A	27037	hgsc.bcm.edu	37	22	20103263	20103263	+	Missense_Mutation	SNP	G	G	T	rs9605067	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	201	97	189	0	0.482587	0	G|0.978;T|0.022	0.022	strong	.	TRMT2A	34	.	NM_001257994	exon3	c.C640A	p.L214I	GCTCGAGCAGCCA	.	PASS	Atlas-SNP
KLC2	64837	hgsc.bcm.edu	37	11	66031660	66031660	+	Silent	SNP	C	C	T	rs1151539	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	25	53	0	0.431034	0	C|0.642;T|0.358	0.358	strong	.	KLC2	50	.	NM_022822	exon8	c.C1086T	p.D362D	CGATGACCCCAAT	.	PASS	Atlas-SNP
OR52I2	143502	hgsc.bcm.edu	37	11	4608542	4608542	+	Missense_Mutation	SNP	C	C	T	rs1847632	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	71	168	0	0.458065	0	C|0.676;T|0.324	0.324	strong	.	OR52I2	50	.	NM_001005170	exon1	c.C500T	p.T167M	TTCTCACGCCTCA	.	PASS	Atlas-SNP
CLYBL	171425	hgsc.bcm.edu	37	13	100518580	100518580	+	Missense_Mutation	SNP	A	A	G	rs3783185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	72	119	1	0.476821	0.00840336	A|0.202;G|0.798	0.798	strong	CLYBL,NS,adenoma,0,1	CLYBL	48	1	NM_206808	exon6	c.A721G	p.I241V	CAAGCCATAGATC	.	scavenged	Atlas-SNP
ZNF598	90850	hgsc.bcm.edu	37	16	2049003	2049003	+	Missense_Mutation	SNP	A	A	T	rs2286468	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	15	34	0	0.535714	0	A|0.743;T|0.257	0.257	strong	.	ZNF598	55	.	NM_178167	exon12	c.T2173A	p.C725S	GGACACAGGCCGG	.	PASS	Atlas-SNP
USP15	9958	hgsc.bcm.edu	37	12	62778065	62778065	+	Silent	SNP	A	A	G	rs2044846	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	53	54	0	0.929825	0	A|0.415;G|0.585	0.585	strong	.	USP15	105	.	NM_001252078	exon11	c.A1455G	p.P485P	GGATCCACTTACC	.	PASS	Atlas-SNP
ATF1	466	hgsc.bcm.edu	37	12	51213433	51213433	+	Silent	SNP	A	A	G	rs17291650	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	48	61	0	0.592593	0	A|0.944;G|0.056	0.056	strong	.	ATF1	32	.	NM_005171	exon7	c.A687G	p.E229E	TCGAGAATGTCGC	.	PASS	Atlas-SNP
OR4D11	219986	hgsc.bcm.edu	37	11	59271210	59271210	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	2	164	0	0.0121212	0	.	.	none	OR4D11,NS,carcinoma,+1,3	OR4D11	62	3	NM_001004706	exon1	c.C162T	p.R54R	GTCTCGCCTTCAC	.	scavenged	Atlas-SNP
ARHGAP12	94134	hgsc.bcm.edu	37	10	32141460	32141460	+	Silent	SNP	T	T	C	rs2799021	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	75	131	0	0.539568	0	T|0.798;C|0.202	0.202	strong	.	ARHGAP12	79	.	NM_001270696	exon6	c.A1155G	p.E385E	TTCCCATTCTGAC	.	PASS	Atlas-SNP
PDE11A	50940	hgsc.bcm.edu	37	2	178936475	178936475	+	Silent	SNP	G	G	A	rs78496158	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	22	46	0	0.458333	0	G|0.981;A|0.019	0.019	strong	.	PDE11A	283	.	NM_016953	exon1	c.C690T	p.C230C	CATAAGGCAGACA	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82582846	82582846	+	Missense_Mutation	SNP	C	C	T	rs10954696	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	84	79	0	0.988235	0	C|0.674;T|0.326	0.326	strong	.	PCLO	1506	.	NM_014510	exon5	c.G7423A	p.V2475I	TTGTAACAGGTAA	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79853068	79853068	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	3	136	0	0.0229008	0	.	.	none	VPS13A_ENST00000376634,NS,carcinoma,0,3	VPS13A	735	3	NM_001018038	exon18	c.T1746C	p.C582C	GAGGTGTATCATA	.	scavenged	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23858232	23858232	+	Silent	SNP	C	C	T	rs451794	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	28	84	0	0.491228	0	C|0.921;T|0.079	0.079	strong	.	MYH6	274	.	NM_002471	exon29	c.G4011A	p.S1337S	CCGGGCCGACTGC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9070079	9070079	+	Silent	SNP	C	C	G	rs1559170	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	65	144	0	0.445205	0	C|0.805;G|0.195	0.195	strong	.	MUC16	4315	.	NM_024690	exon3	c.G17367C	p.T5789T	CTCAGACGTCCTG	.	PASS	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	37	15	40662501	40662501	+	Silent	SNP	G	G	A	rs4514650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	23	31	0	0.442308	0	G|0.832;A|0.168	0.168	strong	.	DISP2	86	.	NM_033510	exon8	c.G4188A	p.T1396T	TCACACGTCAGGC	.	PASS	Atlas-SNP
TBC1D4	9882	hgsc.bcm.edu	37	13	75866284	75866284	+	Missense_Mutation	SNP	G	G	A	rs9600455	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	29	62	0	0.508772	0	G|0.929;A|0.071	0.071	strong	TBC1D4,NS,lymphoid_neoplasm,0,1	TBC1D4	142	1	NM_014832	exon19	c.C3440T	p.T1147M	GGTAGCGTGTTTT	.	PASS	Atlas-SNP
KRT39	390792	hgsc.bcm.edu	37	17	39122797	39122797	+	Silent	SNP	G	G	A	rs10491137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	107	224	0	0.514423	0	G|0.826;A|0.174	0.174	strong	.	KRT39	53	.	NM_213656	exon1	c.C312T	p.N104N	GCGCTCGTTCAAG	.	PASS	Atlas-SNP
CSRP2BP	57325	hgsc.bcm.edu	37	20	18143261	18143261	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	30	72	0	0.47619	0	.	.	none	.	CSRP2BP	80	.	NM_020536	exon6	c.A1343G	p.Q448R	AGCCTCAGCTGGA	.	PASS	Atlas-SNP
ZNF335	63925	hgsc.bcm.edu	37	20	44578674	44578674	+	Silent	SNP	T	T	A	rs16990951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	30	74	0	0.588235	0	T|0.821;A|0.179	0.179	strong	.	ZNF335	115	.	NM_022095	exon23	c.A3522T	p.P1174P	CCGCTCTGGGCCC	.	PASS	Atlas-SNP
PRDM11	56981	hgsc.bcm.edu	37	11	45203848	45203848	+	Silent	SNP	G	G	A	rs1078931	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	31	75	0	0.3875	0	G|0.854;A|0.146	0.146	strong	.	PRDM11	53	.	NM_001256695	exon3	c.G171A	p.K57K	ACTGAAGGGGAAG	.	PASS	Atlas-SNP
C11orf16	56673	hgsc.bcm.edu	37	11	8947179	8947179	+	Silent	SNP	G	G	A	rs2568077	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	50	113	0	0.462963	0	G|0.717;A|0.283	0.283	strong	C11orf16,NS,carcinoma,0,1	C11orf16	43	1	NM_020643	exon5	c.C1035T	p.D345D	CACACCGTCTTGT	.	PASS	Atlas-SNP
COX10	1352	hgsc.bcm.edu	37	17	14095348	14095348	+	Silent	SNP	G	G	A	rs34362247	byfrequency;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	14	83	1	0.122807	0.0120482	T|0.054;A|0.946	0.946	alt	COX10,NS,carcinoma,+1,1	COX10	36	1	NM_001303	exon6	c.G738A	p.P246P	TGTTCCGGGAGTT	.	scavenged	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151932997	151932997	+	Missense_Mutation	SNP	C	C	T	rs199831680	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	6	64	4	0.109091	0.0625	C|0.998;T|0.002	0.002	weak	MLL3_ENST00000355193,NS,carcinoma,+1,4	MLL3	1564	4	NM_170606	exon16	c.G2674A	p.G892R	GCTTTCCTGGAAA	.	scavenged	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110539186	110539186	+	Missense_Mutation	SNP	G	G	A	rs1783174	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	72	146	0	0.48	0	G|0.742;A|0.258	0.258	strong	.	PKHD1L1	522	.	NM_177531	exon77	c.G12658A	p.V4220I	TGTCTGGTTGGAA	.	PASS	Atlas-SNP
OR7G2	390882	hgsc.bcm.edu	37	19	9213132	9213132	+	Missense_Mutation	SNP	A	A	G	rs12610094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	95	106	0	1	0	A|0.620;G|0.380	0.380	strong	.	OR7G2	48	.	NM_001005193	exon1	c.T851C	p.V284A	GTAACCACAGAAC	.	PASS	Atlas-SNP
HEXIM1	10614	hgsc.bcm.edu	37	17	43227214	43227214	+	Silent	SNP	T	T	C	rs1044977	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	30	46	0	0.625	0	T|0.817;C|0.183	0.183	strong	.	HEXIM1	25	.	NM_006460	exon1	c.T657C	p.D219D	GCCGGATCTCAAA	.	PASS	Atlas-SNP
MMP15	4324	hgsc.bcm.edu	37	16	58079165	58079165	+	Missense_Mutation	SNP	G	G	A	rs3743563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	12	37	0	0.315789	0	G|0.829;A|0.171	0.171	strong	MMP15,hand,carcinoma,0,3	MMP15	58	3	NM_002428	exon10	c.G1825A	p.G609R	AAGGACGGGGGCA	.	PASS	Atlas-SNP
RPUSD4	84881	hgsc.bcm.edu	37	11	126074192	126074192	+	Silent	SNP	A	A	G	rs2276312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	12	28	0	0.461538	0	A|0.818;G|0.182	0.182	strong	.	RPUSD4	36	.	NM_032795	exon6	c.T828C	p.S276S	TCCAAAAGACAAG	.	PASS	Atlas-SNP
METTL7B	196410	hgsc.bcm.edu	37	12	56077740	56077740	+	Silent	SNP	C	C	T	rs11615467	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	54	86	0	0.519231	0	C|0.959;T|0.041	0.041	strong	.	METTL7B	35	.	NM_152637	exon2	c.C642T	p.N214N	TGAGAACGCCCAG	.	PASS	Atlas-SNP
HLA-DOB	3112	hgsc.bcm.edu	37	6	32783086	32783086	+	Silent	SNP	A	A	G	rs7383287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	50	130	0	0.416667	0	A|0.838;G|0.162	0.162	strong	.	HLA-DOB	17	.	NM_002120	exon2	c.T96C	p.D32D	CACAAAATCTTCT	.	PASS	Atlas-SNP
ALOX12	239	hgsc.bcm.edu	37	17	6913652	6913652	+	Silent	SNP	G	G	A	rs312462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	23	69	0	0.365079	0	G|0.898;A|0.102	0.102	strong	.	ALOX12	49	.	NM_000697	exon14	c.G1902A	p.L634L	AAAGCTGGAAAAG	.	PASS	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	37	4	186544879	186544879	+	Silent	SNP	G	G	C	rs61910743	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	40	63	0	0.487805	0	G|0.919;C|0.081	0.081	strong	SORBS2,right_lower_lobe,carcinoma,-2,1	SORBS2	300	1	NM_001270771	exon16	c.C1992G	p.P664P	CCGAGCGGGGGGG	.	PASS	Atlas-SNP
FAM185A	222234	hgsc.bcm.edu	37	7	102389710	102389710	+	Missense_Mutation	SNP	A	A	T	rs147397718	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	190	120	3	0.979381	0.025	A|0.920;T|0.080	0.080	strong	FAM185A_ENST00000413034,NS,carcinoma,0,2	FAM185A	10	2	NM_001145269	exon1	c.A56T	p.Q19L	TCCGTCAGGTCCG	.	scavenged	Atlas-SNP
INSR	3643	hgsc.bcm.edu	37	19	7166376	7166376	+	Silent	SNP	C	C	T	rs2059806	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	44	57	0	0.977778	0	C|0.767;T|0.233	0.233	strong	INSR,NS,carcinoma,0,1	INSR	265	1	NM_000208	exon8	c.G1650A	p.A550A	ACCACACGCATCC	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9307033	9307033	+	Silent	SNP	G	G	A	rs7524046	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	25	71	0	0.367647	0	G|0.772;A|0.228	0.228	strong	.	H6PD	71	.	NM_004285	exon3	c.G636A	p.A212A	TGTGGCGCAGATC	.	PASS	Atlas-SNP
ADCY2	108	hgsc.bcm.edu	37	5	7520881	7520881	+	Missense_Mutation	SNP	G	G	T	rs13166360	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	108	137	0	0.990826	0	G|0.850;T|0.150	0.150	strong	.	ADCY2	337	.	NM_020546	exon3	c.G439T	p.V147L	TTCGTGGTGTACA	.	PASS	Atlas-SNP
SYNPO2	171024	hgsc.bcm.edu	37	4	119944611	119944611	+	Silent	SNP	G	G	T	rs1459058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	98	149	0	0.478049	0	G|0.594;T|0.406	0.406	strong	.	SYNPO2	353	.	NM_001128934	exon2	c.G132T	p.G44G	CTCTGGGTCTGGG	.	PASS	Atlas-SNP
JAK1	3716	hgsc.bcm.edu	37	1	65310489	65310489	+	Silent	SNP	T	T	C	rs2230588	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	41	84	0	0.445652	0	T|0.670;C|0.330	0.330	strong	.	JAK1	209	.	NM_002227	exon16	c.A2199G	p.P733P	GATGAATGGGCCA	.	PASS	Atlas-SNP
BNIP3	664	hgsc.bcm.edu	37	10	133786586	133786586	+	Silent	SNP	T	T	C	rs56629693		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	37	109	0	0.41573	0	.	.	weak	.	BNIP3	13	.	NM_004052	exon3	c.A234G	p.R78R	AGAAGCTCTGTTG	.	PASS	Atlas-SNP
OSGEP	55644	hgsc.bcm.edu	37	14	20916958	20916958	+	Silent	SNP	T	T	C	rs938883	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	32	74	0	0.4	0	T|0.458;C|0.542	0.542	strong	OSGEP,NS,carcinoma,0,1	OSGEP	31	1	NM_017807	exon6	c.A570G	p.L190L	CTCAACTAGCTTC	.	PASS	Atlas-SNP
PRR25	388199	hgsc.bcm.edu	37	16	863336	863336	+	Silent	SNP	T	T	C	rs11860086	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	21	42	0	0.6	0	T|0.671;C|0.329	0.329	strong	.	PRR25	27	.	NM_001013638	exon3	c.T684C	p.A228A	CTCTGCTATTGCT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	8995959	8995959	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	14	51	0	0.311111	0	.	.	none	.	MUC16	4315	.	NM_024690	exon62	c.C41282A	p.T13761N	CTGCTGGTGGTGG	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152694184	152694184	+	Silent	SNP	T	T	C	rs6913579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	74	91	0	1	0	T|0.507;C|0.493	0.493	strong	.	SYNE1	3227	.	NM_033071	exon59	c.A9516G	p.E3172E	AGCAGATTCTTTT	.	PASS	Atlas-SNP
TIMD4	91937	hgsc.bcm.edu	37	5	156346506	156346506	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	3	218	0	0.0136364	0	.	.	none	TIMD4,NS,carcinoma,+1,1	TIMD4	94	1	NM_138379	exon9	c.C1099T	p.H367Y	TTCCATGCTGCAC	.	scavenged	Atlas-SNP
ALDH1L2	160428	hgsc.bcm.edu	37	12	105434467	105434467	+	Silent	SNP	C	C	T	rs11112330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	41	57	0	0.482353	0	C|0.698;T|0.302	0.302	strong	ALDH1L2,NS,carcinoma,0,1	ALDH1L2	71	1	NM_001034173	exon16	c.G1869A	p.T623T	CAAGGGCGTGACC	.	PASS	Atlas-SNP
OR4C15	81309	hgsc.bcm.edu	37	11	55322638	55322638	+	Missense_Mutation	SNP	C	C	T	rs12225462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	73	174	0	0.453416	0	C|0.874;T|0.126	0.126	strong	.	OR4C15	145	.	NM_001001920	exon1	c.C856T	p.R286C	GAAGGGCGCTGGA	.	PASS	Atlas-SNP
TSEN54	283989	hgsc.bcm.edu	37	17	73517536	73517536	+	Missense_Mutation	SNP	G	G	A	rs79508780	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	29	57	0	0.467742	0	A|0.040;C|0.000;G|0.960	0.040	strong	TSEN54,NS,carcinoma,-2,1	TSEN54	27	1	NM_207346	exon7	c.G568A	p.V190M	GCCAGCGTGCAGC	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39134528	39134528	+	Missense_Mutation	SNP	G	G	A	rs16968862	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	33	66	0	0.52381	0	G|0.870;A|0.130	0.130	strong	.	KRT40	27	.	NM_182497	exon9	c.C1217T	p.S406L	GTGGTCGAACATG	.	PASS	Atlas-SNP
DYTN	391475	hgsc.bcm.edu	37	2	207527656	207527656	+	Missense_Mutation	SNP	A	A	G	rs201792178	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	88	172	0	0.470588	0	A|0.999;G|0.001	0.001	strong	DYTN_ENST00000452335,colon,carcinoma,-1,1	DYTN	168	1	NM_001093730	exon11	c.T1604C	p.M535T	GCATCCATAAGTT	.	PASS	Atlas-SNP
GIPC1	10755	hgsc.bcm.edu	37	19	14590236	14590236	+	Silent	SNP	C	C	T	rs3815715	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	34	45	0	0.453333	0	C|0.678;T|0.322	0.322	strong	GIPC1,NS,carcinoma,0,1	GIPC1	21	1	NM_202468	exon6	c.G756A	p.T252T	CTCCACCGTGGCG	.	PASS	Atlas-SNP
TMPRSS6	164656	hgsc.bcm.edu	37	22	37462926	37462926	+	Silent	SNP	G	G	A	rs2235321	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	137	119	0	1	0	G|0.622;A|0.377	0.377	strong	TMPRSS6,NS,carcinoma,0,1	TMPRSS6	99	1	NM_153609	exon17	c.C2217T	p.Y739Y	CACCTGGTAGCGA	.	PASS	Atlas-SNP
PCDH19	57526	hgsc.bcm.edu	37	X	99661969	99661969	+	Silent	SNP	G	G	A	rs1953337	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	56	45	0	0.982456	0	G|0.881;A|0.119	0.119	strong	.	PCDH19	269	.	NM_001184880	exon1	c.C1627T	p.L543L	TTTGCAGTGAGGG	.	PASS	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	37	4	5642347	5642347	+	Missense_Mutation	SNP	G	G	C	rs141287105	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	66	149	0	0.437086	0	G|0.995;C|0.005	0.005	strong	.	EVC2	202	.	NM_147127	exon10	c.C1364G	p.T455R	TCAGCTGTCAATG	.	PASS	Atlas-SNP
TRIM42	287015	hgsc.bcm.edu	37	3	140407260	140407260	+	Missense_Mutation	SNP	C	C	A	rs9876490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	61	72	0	0.61	0	C|0.542;A|0.458	0.458	strong	.	TRIM42	143	.	NM_152616	exon3	c.C1736A	p.A579E	CTGGAGCAGACAG	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9324213	9324213	+	Missense_Mutation	SNP	C	C	T	rs17368528	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	30	46	0	0.566038	0	C|0.916;N|0.000	.	strong	H6PD,NS,carcinoma,-1,1	H6PD	71	1	NM_004285	exon5	c.C1661T	p.P554L	AGAGCCCGCTGGT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324051	31324051	+	Missense_Mutation	SNP	C	C	A	rs41551018	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	59	125	0	0.289216	0	C|0.943;A|0.057	0.057	strong	.	HLA-B	54	.	NM_005514	exon3	c.G512T	p.W171L	GCCTCCCACTTGC	.	PASS	Atlas-SNP
EPHA2	1969	hgsc.bcm.edu	37	1	16458339	16458339	+	Silent	SNP	G	G	A	rs112285834	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	28	53	0	0.35443	0	G|0.990;A|0.010	0.010	strong	.	EPHA2	102	.	NM_004431	exon14	c.C2352T	p.T784T	CGGGGCGGTCCAG	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62191558	62191558	+	Silent	SNP	G	G	A	rs3810479	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	34	36	0	0.971429	0	G|0.863;A|0.137	0.137	strong	.	.	.	.	NM_001037335	exon18	c.C7623T	p.A2541A	CACCCCGGCGATG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281228	152281228	+	Missense_Mutation	SNP	C	C	G	rs7546186	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	264	94	137	0	0.356061	0	C|0.969;G|0.031	0.031	strong	.	FLG	900	.	NM_002016	exon3	c.G6134C	p.S2045T	CTGTCACTGGCCT	.	PASS	Atlas-SNP
JAK3	3718	hgsc.bcm.edu	37	19	17945696	17945696	+	Missense_Mutation	SNP	C	C	T	rs3213409	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	51	72	0	0.566667	0	C|0.991;T|0.009	0.009	strong	JAK3,NS,haematopoietic_neoplasm,0,2	JAK3	341	2	NM_000215	exon16	c.G2164A	p.V722I	TGGTGACGCCACT	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46656805	46656805	+	Silent	SNP	G	G	A	rs6519994	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	76	134	0	0.431818	0	G|0.732;A|0.268	0.268	strong	PKDREJ,caecum,carcinoma,0,1	PKDREJ	195	1	NM_006071	exon1	c.C2415T	p.I805I	ACTCACGATTTCT	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	37	1	39835817	39835817	+	Missense_Mutation	SNP	A	A	G	rs2296172	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	24	34	0	0.615385	0	A|0.855;G|0.145	0.145	strong	.	MACF1	909	.	NM_012090	exon47	c.A6868G	p.M2290V	ACTTCTATGAGTG	.	PASS	Atlas-SNP
NUSAP1	51203	hgsc.bcm.edu	37	15	41672384	41672384	+	Silent	SNP	A	A	G	rs7168431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	29	45	0	0.568627	0	A|0.876;G|0.124	0.124	strong	.	NUSAP1	32	.	NM_016359	exon11	c.A1326G	p.X442X	AGATTAATAATTT	.	PASS	Atlas-SNP
OR5D14	219436	hgsc.bcm.edu	37	11	55563336	55563336	+	Missense_Mutation	SNP	A	A	T	rs76383258	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	72	145	1	0.461538	0.00689655	A|0.873;T|0.127	0.127	strong	OR5D14,NS,carcinoma,+1,1	OR5D14	116	1	NM_001004735	exon1	c.A305T	p.Q102L	TGATGCAGTACTT	.	scavenged	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168099555	168099555	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	21	85	0	0.295775	0	.	.	none	.	XIRP2	914	.	NM_152381	exon9	c.C1653T	p.D551D	AAATGACAGTTCT	.	PASS	Atlas-SNP
KIAA1598	57698	hgsc.bcm.edu	37	10	118713596	118713596	+	Silent	SNP	G	G	A	rs117277365	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	21	80	0	0.276316	0	G|0.999;A|0.001	0.001	strong	.	KIAA1598	74	.	NM_001258299	exon5	c.C393T	p.A131A	CTCGGCGGCACCG	.	PASS	Atlas-SNP
GTSE1	51512	hgsc.bcm.edu	37	22	46712077	46712077	+	Silent	SNP	C	C	T	rs9615947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	29	78	0	0.453125	0	C|0.933;T|0.067	0.067	strong	.	GTSE1	100	.	NM_016426	exon7	c.C1200T	p.V400V	GCGGGTCGATGTT	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19184077	19184077	+	Silent	SNP	A	A	G	rs68081213	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	42	97	0	0.451613	0	A|0.684;G|0.316	0.316	strong	.	TAS1R2	134	.	NM_152232	exon2	c.T231C	p.F77F	CACCGCAAAGCGC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281142	152281142	+	Missense_Mutation	SNP	C	C	G	rs141120727	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	429	94	201	0	0.219114	0	C|0.993;G|0.007	0.007	strong	FLG,NS,lymphoid_neoplasm,0,1	FLG	900	1	NM_002016	exon3	c.G6220C	p.E2074Q	CGGACTCTTTGTG	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47920345	47920345	+	Silent	SNP	G	G	A	rs62447081	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	98	74	0	0.685315	0	G|0.645;A|0.355	0.355	strong	.	PKD1L1	328	.	NM_138295	exon21	c.C3501T	p.Y1167Y	CAGGACGTACGTC	.	PASS	Atlas-SNP
PNP	4860	hgsc.bcm.edu	37	14	20940626	20940626	+	Silent	SNP	C	C	T	rs1130650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	44	78	0	0.709677	0	C|0.786;T|0.214	0.214	strong	PNP,NS,carcinoma,+2,2	PNP	21	2	NM_000270	exon2	c.C171T	p.P57P	CTTTCCCCGAAGT	.	PASS	Atlas-SNP
SEMA3A	10371	hgsc.bcm.edu	37	7	83590852	83590852	+	Silent	SNP	T	T	C	rs797821	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	234	102	210	0	0.435897	0	T|0.401;G|0.006	.	strong	.	SEMA3A	121	.	NM_006080	exon17	c.A2151G	p.T717T	ATCCATTGTGTTG	.	PASS	Atlas-SNP
CTNNAL1	8727	hgsc.bcm.edu	37	9	111727670	111727670	+	Missense_Mutation	SNP	C	C	G	rs7021366	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	31	57	0	0.492063	0	C|0.786;G|0.214	0.214	strong	.	CTNNAL1	51	.	NM_003798	exon11	c.G1579C	p.E527Q	TTCCTTCAAACAC	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136575199	136575199	+	Silent	SNP	G	G	T	rs6719488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	32	70	0	0.444444	0	G|0.592;T|0.408	0.408	strong	.	LCT	309	.	NM_002299	exon6	c.C1419A	p.G473G	GGCAACGCCTGGG	.	PASS	Atlas-SNP
PATE1	160065	hgsc.bcm.edu	37	11	125617606	125617606	+	Missense_Mutation	SNP	G	G	A	rs537916	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	12	27	0	0.324324	0	G|0.697;A|0.303	0.303	strong	.	PATE1	21	.	NM_138294	exon4	c.G136A	p.V46I	GAAATTGTTCAGT	.	PASS	Atlas-SNP
TCP11L1	55346	hgsc.bcm.edu	37	11	33083263	33083263	+	Silent	SNP	G	G	A	rs61889262	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	29	66	0	0.508772	0	G|0.975;A|0.025	0.025	strong	.	TCP11L1	40	.	NM_001145541	exon7	c.G963A	p.P321P	GAGGCCGTTCCCC	.	PASS	Atlas-SNP
USP18	11274	hgsc.bcm.edu	37	22	18650682	18650682	+	Missense_Mutation	SNP	C	C	T	rs3180408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	198	100	171	0	0.50505	0	C|0.674;N|0.000	.	strong	USP18,NS,carcinoma,0,1	USP18	22	1	NM_017414	exon6	c.C506T	p.T169M	TGTATACGATCCG	.	PASS	Atlas-SNP
TTC30A	92104	hgsc.bcm.edu	37	2	178482594	178482594	+	Missense_Mutation	SNP	G	G	T	rs61742858	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	393	189	341	0	0.480916	0	G|0.847;T|0.153	0.153	strong	.	TTC30A	60	.	NM_152275	exon1	c.C836A	p.P279H	GCCCTGGGTGGCA	.	PASS	Atlas-SNP
JUP	3728	hgsc.bcm.edu	37	17	39925713	39925713	+	Missense_Mutation	SNP	C	C	T	rs41283425	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	48	95	0	0.436364	0	C|0.962;T|0.038	0.038	strong	.	JUP	64	.	NM_021991	exon3	c.G425A	p.R142H	AGGGCGCGAGTGG	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	705844	705844	+	Silent	SNP	T	T	C	rs8051645	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	54	51	0	1	0	T|0.367;C|0.633	0.633	strong	.	WDR90	107	.	NM_145294	exon17	c.T1921C	p.L641L	GGCTTCTTGCGGC	.	PASS	Atlas-SNP
NOC4L	79050	hgsc.bcm.edu	37	12	132631855	132631855	+	Silent	SNP	C	C	T	rs11543305	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	7	28	0	0.333333	0	C|0.928;T|0.072	0.072	strong	.	NOC4L	31	.	NM_024078	exon4	c.C375T	p.F125F	GAAGTTCGTGCAG	.	PASS	Atlas-SNP
ZNF497	162968	hgsc.bcm.edu	37	19	58868480	58868480	+	Missense_Mutation	SNP	G	G	T	rs12609654	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	67	150	0	0.455782	0	G|0.561;T|0.439	0.439	strong	.	ZNF497	22	.	NM_001207009	exon2	c.C522A	p.H174Q	CTGCGAGTGCGCG	.	PASS	Atlas-SNP
SIDT1	54847	hgsc.bcm.edu	37	3	113323787	113323787	+	Silent	SNP	G	G	A	rs3732797	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	29	50	0	0.39726	0	G|0.931;A|0.069	0.069	strong	.	SIDT1	99	.	NM_017699	exon14	c.G1368A	p.A456A	TTACGCGCTGCCC	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56392920	56392920	+	Silent	SNP	C	C	T	rs12975929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	17	62	0	0.414634	0	C|0.817;T|0.183	0.183	strong	.	NLRP4	331	.	NM_134444	exon10	c.C2952T	p.D984D	CACAGACGACTGT	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156273768	156273768	+	Missense_Mutation	SNP	T	T	C	rs2305050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	139	146	1	1	0.00684932	T|0.372;C|0.628	0.628	strong	.	MAP9	79	.	NM_001039580	exon13	c.A1801G	p.N601D	ATTCATTAATAGC	.	PASS	Atlas-SNP
CUL3	8452	hgsc.bcm.edu	37	2	225365109	225365109	+	Silent	SNP	T	T	A	rs41373148	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	41	96	0	0.471264	0	T|0.987;A|0.013	0.013	strong	.	CUL3	96	.	NM_001257198	exon11	c.A1599T	p.A533A	TCTTGGTGCTGGT	.	PASS	Atlas-SNP
TLE6	79816	hgsc.bcm.edu	37	19	2989697	2989697	+	Silent	SNP	T	T	C	rs6510730	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	84	143	0	0.531646	0	T|0.637;C|0.363	0.363	strong	.	TLE6	68	.	NM_001143986	exon13	c.T1158C	p.D386D	CCTGGATGCCAAC	.	PASS	Atlas-SNP
PHF2	5253	hgsc.bcm.edu	37	9	96407983	96407983	+	Silent	SNP	C	C	T	rs9695734	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	29	33	0	0.58	0	C|0.853;T|0.147	0.147	strong	PHF2,NS,carcinoma,0,1	PHF2	113	1	NM_005392	exon4	c.C372T	p.T124T	CTTCACCGAGCCC	.	PASS	Atlas-SNP
FUZ	80199	hgsc.bcm.edu	37	19	50312653	50312653	+	Silent	SNP	C	C	T	rs2305921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	20	16	0	0.555556	0	C|0.866;T|0.134	0.134	strong	.	FUZ	18	.	NM_025129	exon6	c.G672A	p.L224L	GTGCGGCAGGTAC	.	PASS	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103152919	103152919	+	Silent	SNP	G	G	A	rs12574626	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	14	28	0	0.388889	0	G|0.808;A|0.192	0.192	strong	.	DYNC2H1	246	.	NM_001080463	exon73	c.G10794A	p.T3598T	GGATACGTTTACA	.	PASS	Atlas-SNP
MAPK4	5596	hgsc.bcm.edu	37	18	48190440	48190440	+	Missense_Mutation	SNP	G	G	A	rs3752087	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	73	86	0	0.62931	0	G|0.665;A|0.335	0.335	strong	.	MAPK4	75	.	NM_002747	exon2	c.G112A	p.V38M	TCGGCCGTGGACA	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141755358	141755358	+	Silent	SNP	T	T	C	rs67998329	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	95	92	0	1	0	T|0.776;C|0.224	0.224	strong	.	MGAM	767	.	NM_004668	exon28	c.T3315C	p.I1105I	TTTCAGTTGGGAC	.	PASS	Atlas-SNP
GNPDA1	10007	hgsc.bcm.edu	37	5	141391532	141391532	+	Silent	SNP	G	G	A	rs164080	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	82	164	2	0.438503	0.0121951	G|0.454;A|0.546	0.546	strong	GNPDA1,NS,carcinoma,0,1	GNPDA1	16	1	NM_005471	exon2	c.C69T	p.R23R	GATGATGCGGTTC	.	scavenged	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7887579	7887579	+	Missense_Mutation	SNP	C	C	G	rs228697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	87	166	0	0.47541	0	C|0.925;G|0.075	0.075	strong	.	PER3	95	.	NM_016831	exon17	c.C2566G	p.P856A	GACCCCCCTGTCT	.	PASS	Atlas-SNP
CLEC18B	497190	hgsc.bcm.edu	37	16	74451961	74451961	+	Missense_Mutation	SNP	G	G	A	rs151079980	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	271	21	396	1	0.0774908	0.00252525	G|0.968;A|0.032	0.032	strong	CLEC18B,NS,carcinoma,0,4	CLEC18B	45	4	NM_001011880	exon3	c.C452T	p.T151M	ACCTGCGTGTAGT	.	scavenged	Atlas-SNP
CDA	978	hgsc.bcm.edu	37	1	20915701	20915701	+	Missense_Mutation	SNP	A	A	C	rs2072671	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	125	125	0	0.992063	0	A|0.766;C|0.234	0.234	strong	.	CDA	19	.	NM_001785	exon1	c.A79C	p.K27Q	GCCAAGAAGTCAG	.	PASS	Atlas-SNP
MCM10	55388	hgsc.bcm.edu	37	10	13234356	13234356	+	Missense_Mutation	SNP	A	A	T	rs7905784	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	35	76	0	0.564516	0	A|0.889;T|0.111	0.111	strong	.	MCM10	76	.	NM_182751	exon12	c.A1621T	p.T541S	AAAGCCACAGCTT	.	PASS	Atlas-SNP
A4GNT	51146	hgsc.bcm.edu	37	3	137850003	137850003	+	Silent	SNP	A	A	G	rs2724691	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	151	146	0	0.993421	0	A|0.366;C|0.003	.	strong	.	A4GNT	42	.	NM_016161	exon2	c.T96C	p.C32C	AGGCAAACAGAAG	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8176919	8176919	+	Silent	SNP	C	C	T	rs4804264	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	54	120	0	0.391304	0	C|0.388;N|0.000	.	strong	.	FBN3	300	.	NM_032447	exon30	c.G3903A	p.P1301P	ACTCCCCGGGATG	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	37	4	177098285	177098285	+	Missense_Mutation	SNP	G	G	A	rs17625943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	31	47	0	0.54386	0	G|0.743;A|0.257	0.257	strong	WDR17,rectum,carcinoma,-1,1	WDR17	198	1	NM_170710	exon29	c.G3643A	p.A1215T	TGGAGAGCTTGCA	.	PASS	Atlas-SNP
OR10X1	128367	hgsc.bcm.edu	37	1	158549420	158549420	+	Silent	SNP	C	C	T	rs863361	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	58	116	1	0.31694	0.00862069	C|0.471;T|0.529	0.529	strong	OR10X1,face,carcinoma,-2,1	OR10X1	96	1	NM_001004477	exon1	c.G270A	p.T90T	GGTCAGCGTATAG	.	scavenged	Atlas-SNP
UGT1A7	54577	hgsc.bcm.edu	37	2	234591205	234591205	+	Missense_Mutation	SNP	T	T	C	rs11692021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	103	175	0	0.509901	0	T|0.683;C|0.317	0.317	strong	.	UGT1A7	74	.	NM_019077	exon1	c.T622C	p.W208R	AGAGTATGGAACC	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43506059	43506059	+	Silent	SNP	A	A	G	rs2304329	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	113	71	0	1	0	A|0.416;G|0.584	0.584	strong	.	HECW1	540	.	NM_015052	exon15	c.A2805G	p.E935E	GAGAGAAGGGTCA	.	PASS	Atlas-SNP
UGDH	7358	hgsc.bcm.edu	37	4	39515736	39515736	+	Silent	SNP	A	A	G	rs10019532	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	79	144	0	0.49375	0	A|0.768;G|0.232	0.232	strong	.	UGDH	52	.	NM_003359	exon3	c.T231C	p.D77D	GATGGCATCATCA	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169498975	169498975	+	Missense_Mutation	SNP	T	T	C	rs6030	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	153	115	0	1	0	T|0.711;C|0.288	0.288	strong	.	F5	301	.	NM_000130	exon16	c.A5290G	p.M1764V	TGTCCATAGGCAT	.	PASS	Atlas-SNP
PIGQ	9091	hgsc.bcm.edu	37	16	633125	633125	+	Missense_Mutation	SNP	T	T	C	rs1045277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	36	91	0	0.521739	0	T|0.534;C|0.466	0.466	strong	PIGQ,colon,carcinoma,0,2	PIGQ	43	2	NM_148920	exon10	c.T1774C	p.C592R	ATGTCCTGTGCTT	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104171856	104171856	+	Silent	SNP	C	C	T	rs17772514	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	32	74	0	0.5	0	C|0.953;T|0.047	0.047	strong	.	ZNF189	79	.	NM_003452	exon3	c.C1806T	p.D602D	ATGTGACGCTTGT	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7735934	7735934	+	Missense_Mutation	SNP	G	G	A	rs61745181	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	24	70	0	0.521739	0	G|0.935;A|0.065	0.065	strong	.	DNAH2	498	.	NM_020877	exon82	c.G12764A	p.R4255Q	GGACCCGGGACTT	.	PASS	Atlas-SNP
UNC5B	219699	hgsc.bcm.edu	37	10	73051388	73051388	+	Silent	SNP	T	T	C	rs3740460	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	20	63	0	0.377358	0	T|0.845;C|0.155	0.155	strong	.	UNC5B	123	.	NM_170744	exon10	c.T1494C	p.D498D	GGCAGATGGGGCT	.	PASS	Atlas-SNP
PNN	5411	hgsc.bcm.edu	37	14	39648629	39648629	+	Silent	SNP	C	C	T	rs11558739	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	48	173	0	0.380952	0	C|0.870;T|0.130	0.130	strong	PNN,NS,carcinoma,0,1	PNN	67	1	NM_002687	exon8	c.C756T	p.T252T	AGCTACCCAAAAA	.	PASS	Atlas-SNP
FAM129A	116496	hgsc.bcm.edu	37	1	184765000	184765000	+	Missense_Mutation	SNP	G	G	A	rs12750174	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	37	85	0	0.327434	0	G|0.981;A|0.019	0.019	strong	.	FAM129A	98	.	NM_052966	exon14	c.C1898T	p.S633L	GCCAACGAGCTAG	.	PASS	Atlas-SNP
OR4K17	390436	hgsc.bcm.edu	37	14	20586042	20586042	+	Missense_Mutation	SNP	G	G	C	rs8005245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	126	142	0	0.992126	0	G|0.599;C|0.401	0.401	strong	.	OR4K17	58	.	NM_001004715	exon1	c.G477C	p.K159N	TTGTAAGCCCCTA	.	PASS	Atlas-SNP
OR4B1	119765	hgsc.bcm.edu	37	11	48238549	48238549	+	Missense_Mutation	SNP	G	G	A	rs11606506	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	237	113	232	0	0.476793	0	G|0.796;A|0.204	0.204	strong	.	OR4B1	52	.	NM_001005470	exon1	c.G188A	p.C63Y	TTAGCTGCCTGTC	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8154990	8154990	+	Silent	SNP	C	C	T	rs35002391	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	31	64	0	0.553571	0	C|0.668;T|0.332	0.332	strong	.	FBN3	300	.	NM_032447	exon48	c.G6177A	p.E2059E	GCTGCCCTCCTGG	.	PASS	Atlas-SNP
PUS3	83480	hgsc.bcm.edu	37	11	125763746	125763746	+	Missense_Mutation	SNP	C	C	G	rs3088241	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	274	116	277	0	0.423358	0	C|0.522;G|0.478	0.478	strong	.	PUS3	33	.	NM_031307	exon4	c.G1380C	p.E460D	AGTATTCTCTTCC	.	PASS	Atlas-SNP
GALR1	2587	hgsc.bcm.edu	37	18	74962645	74962645	+	Silent	SNP	T	T	C	rs5374	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	86	69	1	1	0.0144928	T|0.442;C|0.558	0.558	strong	GALR1,colon,carcinoma,0,2	GALR1	53	2	NM_001480	exon1	c.T141C	p.G47G	GCTGGGTGTGCTG	.	scavenged	Atlas-SNP
GPATCH1	55094	hgsc.bcm.edu	37	19	33617583	33617583	+	Silent	SNP	C	C	T	rs6510356	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	18	25	0	0.545455	0	C|0.792;N|0.001	.	strong	.	GPATCH1	79	.	NM_018025	exon19	c.C2709T	p.S903S	CAGCAGCGACAGC	.	PASS	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	37	21	40641858	40641858	+	Silent	SNP	T	T	G	rs61740760	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	80	152	0	0.490798	0	T|0.978;G|0.022	0.022	strong	.	BRWD1	325	.	NM_018963	exon15	c.A1497C	p.T499T	ACCTTTTGTAATA	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681336	55681336	+	Silent	SNP	G	G	A	rs11231529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	47	115	0	0.494737	0	G|0.677;A|0.323	0.323	strong	.	OR5W2	112	.	NM_001001960	exon1	c.C723T	p.C241C	GGAAGTGCATGTA	.	PASS	Atlas-SNP
DHX38	9785	hgsc.bcm.edu	37	16	72132832	72132832	+	Silent	SNP	G	G	A	rs150221434	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	61	113	0	0.476562	0	G|0.999;A|0.001	0.001	strong	.	DHX38	91	.	NM_014003	exon6	c.G771A	p.V257V	GTCTGTGAGGGGC	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170060670	170060670	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	48	126	0	0.313726	0	.	.	none	.	LRP2	751	.	NM_004525	exon42	c.C7827G	p.D2609E	GTACAAGTCAGTC	.	PASS	Atlas-SNP
UBE2I	7329	hgsc.bcm.edu	37	16	1364365	1364365	+	Silent	SNP	A	A	G	rs4610	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	45	89	0	0.529412	0	A|0.870;G|0.130	0.130	strong	.	UBE2I	15	.	NM_003345	exon3	c.A138G	p.P46P	CATTCCAGGAAAG	.	PASS	Atlas-SNP
OR2T35	403244	hgsc.bcm.edu	37	1	248801592	248801592	+	Missense_Mutation	SNP	C	C	T	rs78622116	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	12	5	10	3	0.416667	0.3	C|0.245;T|0.755	0.755	strong	OR2T35,caecum,carcinoma,0,1	OR2T35	19	1	NM_001001827	exon1	c.G968A	p.G323D	TGCTAGCCCTTCC	.	scavenged	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28559120	28559120	+	Silent	SNP	G	G	C	rs17486417	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	32	52	0	0.603774	0	G|0.870;C|0.128	0.128	strong	.	TTC28	84	.	NM_001145418	exon6	c.C1401G	p.L467L	GTCCTTGAGATCC	.	PASS	Atlas-SNP
FOXN1	8456	hgsc.bcm.edu	37	17	26851602	26851602	+	Missense_Mutation	SNP	C	C	T	rs2071587	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	62	111	0	0.574074	0	C|0.914;T|0.086	0.086	strong	FOXN1,NS,carcinoma,-1,3	FOXN1	51	3	NM_003593	exon2	c.C205T	p.R69C	AGCCCCCGCATTG	.	PASS	Atlas-SNP
TULP4	56995	hgsc.bcm.edu	37	6	158924595	158924595	+	Silent	SNP	A	A	G	rs3749853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	43	93	0	0.565789	0	A|0.827;G|0.173	0.173	strong	.	TULP4	137	.	NM_020245	exon13	c.A3900G	p.Q1300Q	CCTCCAAAGCCAC	.	PASS	Atlas-SNP
GNAT3	346562	hgsc.bcm.edu	37	7	80088041	80088041	+	Silent	SNP	G	G	A	rs2074674	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	70	0	1	0	G|0.553;A|0.447	0.447	strong	GNAT3_ENST00000398291,NS,carcinoma,0,2	GNAT3	65	2	NM_001102386	exon8	c.C1011T	p.D337D	AACTGCGTCAAAC	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136305530	136305530	+	Missense_Mutation	SNP	C	C	G	rs28647808	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	31	53	0	0.492063	0	C|0.939;G|0.061	0.061	strong	.	ADAMTS13	113	.	NM_139027	exon16	c.C1852G	p.P618A	ACCTACCCCTCCC	.	PASS	Atlas-SNP
CD1E	913	hgsc.bcm.edu	37	1	158324425	158324425	+	Missense_Mutation	SNP	A	A	G	rs1065457	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	92	105	0	0.550898	0	A|0.437;G|0.563	0.563	strong	.	CD1E	129	.	NM_001185107	exon2	c.A317G	p.Q106R	TTATCCAGATAGT	.	PASS	Atlas-SNP
EHBP1	23301	hgsc.bcm.edu	37	2	63101560	63101560	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	3	180	1	0.0184049	0.00555556	.	.	none	EHBP1,caecum,carcinoma,0,11	EHBP1	127	11	NM_015252	exon11	c.A1183G	p.R395G	ACTGAAAGGCGAG	.	scavenged	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4796393	4796393	+	Missense_Mutation	SNP	A	A	G	rs737700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	36	114	0	0.444444	0	A|0.391;G|0.609	0.609	strong	C16orf71,NS,carcinoma,0,1	C16orf71	46	1	NM_139170	exon7	c.A1061G	p.Q354R	GGAAGCAGGGCTC	.	PASS	Atlas-SNP
CDH13	1012	hgsc.bcm.edu	37	16	83636136	83636136	+	Silent	SNP	G	G	A	rs371581191		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	42	101	0	0.538462	0	.	.	weak	.	CDH13	97	.	NM_001220488	exon9	c.G1179A	p.T393T	AGGCACGGCCACA	.	PASS	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	37	11	77930345	77930345	+	Silent	SNP	T	T	C	rs2450122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	35	84	0	0.443038	0	T|0.789;C|0.211	0.211	strong	.	GAB2	63	.	NM_080491	exon10	c.A2004G	p.S668S	AGGCTCTGAGGAC	.	PASS	Atlas-SNP
ETFB	2109	hgsc.bcm.edu	37	19	51856469	51856469	+	Missense_Mutation	SNP	G	G	A	rs147353781	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	28	44	0	0.571429	0	G|0.999;A|0.001	0.001	strong	ETFB_ENST00000309244,NS,carcinoma,0,2	ETFB	46	2	NM_001014763	exon2	c.C565T	p.R189C	CCAAGCGTTCTGC	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47307618	47307618	+	Silent	SNP	G	G	A	rs3746820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	176	142	0	0.977778	0	G|0.717;A|0.283	0.283	strong	PREX1,NS,carcinoma,0,1	PREX1	441	1	NM_020820	exon9	c.C1053T	p.N351N	ATAGCCGTTGCTA	.	PASS	Atlas-SNP
GNG8	94235	hgsc.bcm.edu	37	19	47137459	47137459	+	Silent	SNP	C	C	T	rs12974613	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	37	72	0	0.606557	0	C|0.728;T|0.272	0.272	strong	.	GNG8	2	.	NM_033258	exon2	c.G87A	p.V29V	CTGCGACACCTGC	.	PASS	Atlas-SNP
AKT1	207	hgsc.bcm.edu	37	14	105239894	105239894	+	Silent	SNP	C	C	T	rs1130233	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	89	114	0	0.988889	0	C|0.769;T|0.231	0.231	strong	.	AKT1	379	.	NM_005163	exon9	c.G726A	p.E242E	CACACGCTCCCGG	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76423151	76423151	+	Silent	SNP	C	C	T	rs3209030	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	32	65	0	0.561404	0	C|0.914;T|0.086	0.086	strong	.	DNAH17	347	.	NM_173628	exon78	c.G12627A	p.P4209P	AGTCTCCGGAATC	.	PASS	Atlas-SNP
MIB2	142678	hgsc.bcm.edu	37	1	1564064	1564064	+	Missense_Mutation	SNP	G	G	A	rs201947158	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	66	102	0	0.485294	0	.	.	weak	.	MIB2	62	.	NM_080875	exon16	c.G2509A	p.A837T	GATGGGGCCGGGG	.	PASS	Atlas-SNP
FNDC7	163479	hgsc.bcm.edu	37	1	109268441	109268441	+	Missense_Mutation	SNP	G	G	A	rs11582005	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	167	153	1	0.994048	0.00653595	G|0.816;A|0.184	0.184	strong	FNDC7,NS,carcinoma,0,1	FNDC7	113	1	NM_001144937	exon6	c.G926A	p.S309N	GGTCCAGTGTAGA	.	PASS	Atlas-SNP
LRRCC1	85444	hgsc.bcm.edu	37	8	86057707	86057707	+	Silent	SNP	A	A	G	rs62525428	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	216	97	185	0	0.449074	0	A|0.926;G|0.074	0.074	strong	.	LRRCC1	212	.	NM_033402	exon19	c.A3060G	p.Q1020Q	TAAGCAACTTGCT	.	PASS	Atlas-SNP
C12orf71	728858	hgsc.bcm.edu	37	12	27234914	27234914	+	Missense_Mutation	SNP	G	G	A	rs61741737	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	36	87	0	0.433735	0	G|0.847;A|0.153	0.153	strong	.	C12orf71	20	.	NM_001080406	exon1	c.C503T	p.P168L	ATTTCCGGAGGGG	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141335241	141335241	+	Silent	SNP	A	A	G	rs164073	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	39	81	0	0.52	0	A|0.299;G|0.701	0.701	strong	.	PCDH12	133	.	NM_016580	exon1	c.T2176C	p.L726L	TGCCCAACAGTAC	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241831005	241831005	+	Silent	SNP	C	C	T	rs10195453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	34	66	0	0.472222	0	C|0.497;T|0.503	0.503	strong	.	C2orf54	14	.	NM_001085437	exon2	c.G690A	p.R230R	GAGGATCCTTCTC	.	PASS	Atlas-SNP
TMEM155	132332	hgsc.bcm.edu	37	4	122682720	122682720	+	Missense_Mutation	SNP	C	C	T	rs138330999	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	240	3	213	0	0.0125	0	C|0.995;T|0.005	0.005	strong	TMEM155,NS,carcinoma,0,1	TMEM155	17	1	NM_152399	exon5	c.G185A	p.R62H	TGCAAGCGAACCA	.	scavenged	Atlas-SNP
LZTR1	8216	hgsc.bcm.edu	37	22	21337325	21337325	+	Silent	SNP	G	G	A	rs13054014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	26	80	0	0.4	0	G|0.733;A|0.267	0.267	strong	.	LZTR1	99	.	NM_006767	exon2	c.G210A	p.K70K	CAGCAAGCACACA	.	PASS	Atlas-SNP
MICAL1	64780	hgsc.bcm.edu	37	6	109768295	109768295	+	Silent	SNP	G	G	A	rs910730	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	25	63	0	0.510204	0	G|0.464;A|0.536	0.536	strong	.	MICAL1	79	.	NM_022765	exon17	c.C2208T	p.Y736Y	CTGCTCGTAGCCA	.	PASS	Atlas-SNP
CD6	923	hgsc.bcm.edu	37	11	60785352	60785352	+	Silent	SNP	A	A	G	rs1050922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	73	73	1	0.986486	0.0136986	A|0.418;G|0.582	0.582	strong	CD6_ENST00000313421,bladder,carcinoma,+1,2	CD6	122	2	NM_006725	exon11	c.A1704G	p.S568S	CTCTTCAGGGGAG	.	scavenged	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228495867	228495867	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	53	113	0	0.449153	0	.	.	none	.	OBSCN	2142	.	NM_001271223	exon58	c.G15393A	p.E5131E	CGATGAGGATGTT	.	PASS	Atlas-SNP
C2orf83	56918	hgsc.bcm.edu	37	2	228476140	228476140	+	Nonsense_Mutation	SNP	C	C	T	rs2176186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	232	232	238	0	1	0	C|0.703;T|0.297	0.297	strong	.	C2orf83	15	.	NM_020161	exon3	c.G423A	p.W141X	ATGGCTCCAGAGC	.	PASS	Atlas-SNP
HLA-DQB2	3120	hgsc.bcm.edu	37	6	32726774	32726774	+	Missense_Mutation	SNP	C	C	T	rs200716952	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	23	113	1	0.179688	0.00884956	C|0.997;T|0.003	0.003	weak	HLA-DQB2,NS,carcinoma,0,4	HLA-DQB2	22	4	NM_001198858	exon3	c.G499A	p.A167T	CACCGGCTGTCTC	.	scavenged	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45123977	45123977	+	Missense_Mutation	SNP	G	G	A	rs61740884	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	69	56	0	0.650943	0	G|0.968;A|0.032	0.032	strong	NACAD,NS,carcinoma,-1,1	NACAD	44	1	NM_001146334	exon2	c.C1802T	p.A601V	GTCATAGCGGAGT	.	PASS	Atlas-SNP
OR2A5	393046	hgsc.bcm.edu	37	7	143747870	143747870	+	Missense_Mutation	SNP	A	A	G	rs2961144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	72	138	0	0.483221	0	A|0.713;G|0.287	0.287	strong	.	OR2A5	78	.	NM_012365	exon1	c.A376G	p.I126V	ATGGCTATCTGCC	.	PASS	Atlas-SNP
MICALL2	79778	hgsc.bcm.edu	37	7	1478495	1478495	+	Silent	SNP	A	A	G	rs4492283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	22	27	0	0.55	0	A|0.738;G|0.262	0.262	strong	.	MICALL2	63	.	NM_182924	exon10	c.T2103C	p.P701P	AAGGTGAGGTTTC	.	PASS	Atlas-SNP
KRTAP29-1	100533177	hgsc.bcm.edu	37	17	39458893	39458893	+	Missense_Mutation	SNP	G	G	A	rs758741	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	83	0	0.511628	0	G|0.768;A|0.232	0.232	strong	.	KRTAP29-1	2	.	NM_001257309	exon1	c.C211T	p.R71C	GAAGGCGGGTAGG	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	37	4	843695	843695	+	Silent	SNP	A	A	G	rs8093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	44	42	0	1	0	A|0.228;G|0.772	0.772	strong	.	GAK	104	.	NM_005255	exon27	c.T3819C	p.A1273A	GTGCACAGCCAGC	.	PASS	Atlas-SNP
DHRS4L2	317749	hgsc.bcm.edu	37	14	24470138	24470138	+	Nonsense_Mutation	SNP	C	C	T	rs55972438		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	512	153	378	1	0.298828	0.0026455	.	.	weak	DHRS4L2,NS,carcinoma,-1,1	DHRS4L2	29	1	NM_198083	exon4	c.C475T	p.R159X	GAGAAACGAGGGT	.	PASS	Atlas-SNP
NSUN2	54888	hgsc.bcm.edu	37	5	6604787	6604787	+	Silent	SNP	C	C	T	rs13181449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	41	110	0	0.376147	0	C|0.819;T|0.181	0.181	strong	.	NSUN2	82	.	NM_017755	exon16	c.G1749A	p.T583T	GATCCCCGTGTTA	.	PASS	Atlas-SNP
SRGAP2D	100996712	hgsc.bcm.edu	37	1	206566903	206566903	+	Silent	SNP	G	G	A	rs71633585		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	213	38	199	0	0.178404	0	G|0.500;A|0.500	0.500	weak	.	.	.	.	NM_001271887	exon3	c.A245A	p.H82H	TTCAGCGTCAAGC	.	PASS	Atlas-SNP
CCDC109B	55013	hgsc.bcm.edu	37	4	110603784	110603784	+	Silent	SNP	T	T	C	rs3733611	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	44	69	0	1	0	C|0.694;N|0.000	0.694	strong	.	CCDC109B	47	.	NM_017918	exon5	c.T498C	p.S166S	GAAATCTTTGGTT	.	PASS	Atlas-SNP
GSDMB	55876	hgsc.bcm.edu	37	17	38064469	38064469	+	Splice_Site	SNP	T	T	C	rs11078928	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	25	63	0	0.384615	0	T|0.651;C|0.349	0.349	strong	GSDMB_ENST00000418519,NS,carcinoma,0,1	GSDMB	87	1	NM_001165958	exon7	c.662-2A>G	.	AATATCTAAACCA	.	PASS	Atlas-SNP
SCAF8	22828	hgsc.bcm.edu	37	6	155123273	155123273	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	4	67	0	0.0470588	0	.	.	none	.	SCAF8	122	.	NM_014892	exon7	c.T775C	p.F259L	GTCTCCTTTAACA	.	PASS	Atlas-SNP
RLN3	117579	hgsc.bcm.edu	37	19	14141666	14141666	+	Missense_Mutation	SNP	G	G	T	rs78161395	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	94	102	0	0.949495	0	G|0.865;T|0.135	0.135	strong	.	RLN3	10	.	NM_080864	exon2	c.G335T	p.G112V	CCCCTGGGGTTCT	.	PASS	Atlas-SNP
ANP32E	81611	hgsc.bcm.edu	37	1	150199123	150199123	+	Silent	SNP	G	G	T	rs7522034	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	18	29	0	0.486486	0	G|0.433;T|0.567	0.567	strong	ANP32E,NS,adenoma,0,1	ANP32E	28	1	NM_030920	exon5	c.C498A	p.G166G	TTCATCGCCATCT	.	scavenged	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22974415	22974415	+	Silent	SNP	G	G	A	rs11780526	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	35	97	0	0.384615	0	G|0.893;A|0.107	0.107	strong	TNFRSF10C,NS,carcinoma,0,1	TNFRSF10C	30	1	NM_003841	exon5	c.G651A	p.P217P	CAGCCCGGGGACT	.	PASS	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	37	11	77930447	77930447	+	Silent	SNP	G	G	A	rs61749244	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	52	107	0	0.547368	0	G|0.983;A|0.017	0.017	strong	GAB2,rectum,carcinoma,-2,4	GAB2	63	4	NM_080491	exon10	c.C1902T	p.S634S	GGTGACGGATGAA	.	PASS	Atlas-SNP
TSTD2	158427	hgsc.bcm.edu	37	9	100388119	100388119	+	Missense_Mutation	SNP	G	G	T	rs10817858	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	64	106	0	0.537815	0	G|0.832;T|0.168	0.168	strong	TSTD2,NS,carcinoma,0,1	TSTD2	42	1	NM_139246	exon3	c.C326A	p.A109D	ATAGAAGCTGTCT	.	PASS	Atlas-SNP
TNIK	23043	hgsc.bcm.edu	37	3	170928936	170928936	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	6	106	0	0.0365854	0	.	.	none	TNIK_ENST00000436636,NS,carcinoma,-1,4	TNIK	313	4	NM_001161562	exon4	c.A275G	p.K92R	GGGTTCTTTTTGA	.	scavenged	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59814324	59814324	+	Missense_Mutation	SNP	G	G	C	rs9320001	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	157	229	0	0.987421	0	G|0.194;C|0.806	0.806	strong	.	PIGN	62	.	NM_176787	exon9	c.C685G	p.H229D	TATTGTGCTTGTA	.	PASS	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114257266	114257266	+	Missense_Mutation	SNP	C	C	T	rs142136016	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	306	59	209	0	0.19281	0	C|0.947;T|0.053	0.053	strong	FOXD4L1,NS,malignant_melanoma,0,1	FOXD4L1	48	1	NM_012184	exon1	c.C433T	p.R145C	TACTACCGCCGCA	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9068530	9068530	+	Missense_Mutation	SNP	C	C	T	rs7250080	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	214	106	180	0	0.495327	0	C|0.827;T|0.173	0.173	strong	.	MUC16	4315	.	NM_024690	exon3	c.G18916A	p.V6306M	TCCCCACATTGGC	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66924083	66924083	+	Missense_Mutation	SNP	G	G	A	rs35621847	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	59	90	0	0.59596	0	G|0.956;A|0.044	0.044	strong	.	ABCA8	213	.	NM_007168	exon9	c.C1247T	p.A416V	TAAATCGCCAATG	.	PASS	Atlas-SNP
PRDM10	56980	hgsc.bcm.edu	37	11	129785594	129785594	+	Silent	SNP	G	G	A	rs3734073	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	110	82	0	0.990991	0	G|0.729;A|0.271	0.271	strong	PRDM10,colon,carcinoma,0,1	PRDM10	120	1	NM_020228	exon17	c.C2499T	p.P833P	GCAGACGGGAGGG	.	PASS	Atlas-SNP
ZNF385D	79750	hgsc.bcm.edu	37	3	21462754	21462754	+	Silent	SNP	A	A	G	rs451242	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	42	51	0	1	0	G|0.765;A|0.235	0.765	strong	.	ZNF385D	93	.	NM_024697	exon8	c.T1140C	p.P380P	GGGTCCAGGAGCT	.	PASS	Atlas-SNP
KLKB1	3818	hgsc.bcm.edu	37	4	187173012	187173012	+	Missense_Mutation	SNP	T	T	G	rs4253301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	22	65	0	0.4	0	T|0.904;G|0.096	0.096	strong	KLKB1_ENST00000264690,bladder,carcinoma,-1,2	KLKB1	155	2	NM_000892	exon10	c.T1141G	p.S381A	GACAACTCTGGTG	.	PASS	Atlas-SNP
WNT8B	7479	hgsc.bcm.edu	37	10	102222957	102222957	+	Missense_Mutation	SNP	G	G	C	rs3793771	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	44	122	0	0.411215	0	G|0.799;C|0.201	0.201	strong	.	WNT8B	31	.	NM_003393	exon1	c.G32C	p.C11S	ACATCTGTCTTTT	.	PASS	Atlas-SNP
MYO10	4651	hgsc.bcm.edu	37	5	16877739	16877739	+	Silent	SNP	G	G	A	rs185323430	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	34	63	0	0.566667	0	G|0.999;A|0.001	0.001	strong	.	MYO10	198	.	NM_012334	exon2	c.C99T	p.V33V	CCGGAAGACGACG	.	PASS	Atlas-SNP
ALG1	56052	hgsc.bcm.edu	37	16	5127460	5127460	+	Missense_Mutation	SNP	T	T	G	rs112668461	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	27	62	0	0.442623	0	T|0.982;G|0.018	0.018	strong	.	ALG1	35	.	NM_019109	exon5	c.T554G	p.F185C	AGTTCTTTGGGCG	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295779	20295779	+	Missense_Mutation	SNP	C	C	G	rs11621884	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	303	62	246	0	0.20462	0	C|0.886;G|0.114	0.114	strong	OR4N2,NS,carcinoma,-2,1	OR4N2	125	1	NM_001004723	exon1	c.C172G	p.P58A	ACAGCCCCCCTCT	.	PASS	Atlas-SNP
FAM189A1	23359	hgsc.bcm.edu	37	15	29416901	29416901	+	Missense_Mutation	SNP	A	A	G	rs2279482	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	12	36	0	0.6	0	A|0.843;G|0.157	0.157	strong	.	FAM189A1	20	.	NM_015307	exon10	c.T1292C	p.V431A	CCAGGCACAGCCT	.	PASS	Atlas-SNP
SYT2	127833	hgsc.bcm.edu	37	1	202569600	202569600	+	Silent	SNP	C	C	T	rs115267501	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	23	55	0	0.310811	0	C|0.967;T|0.033	0.033	strong	.	SYT2	51	.	NM_177402	exon7	c.G804A	p.P268P	CTTCTCCGGCTGT	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112765973	112765973	+	Silent	SNP	A	A	G	rs1131244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	45	54	0	1	0	A|0.458;G|0.542	0.542	strong	.	MERTK	112	.	NM_006343	exon14	c.A1881G	p.S627S	CTCTTCACAGCGG	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	37	16	31382470	31382470	+	Silent	SNP	A	A	G	rs138137251	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	25	55	0	0.520833	0	A|0.991;G|0.009	0.009	strong	.	ITGAX	198	.	NM_000887	exon15	c.A1776G	p.Q592Q	GGGTCAAGACCTC	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	133984058	133984058	+	Missense_Mutation	SNP	C	C	T	rs2076740	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	116	127	0	1	0	C|0.628;T|0.372	0.372	strong	.	TG	416	.	NM_003235	exon33	c.C5995T	p.R1999W	GAACGACGGTGCG	.	PASS	Atlas-SNP
UBXN6	80700	hgsc.bcm.edu	37	19	4457650	4457650	+	Silent	SNP	C	C	T	rs1044510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	8	23	0	0.32	0	C|0.660;T|0.340	0.340	strong	.	UBXN6	27	.	NM_025241	exon1	c.G45A	p.K15K	CGCGCTCTTGAAC	.	PASS	Atlas-SNP
ZNF70	7621	hgsc.bcm.edu	37	22	24086107	24086107	+	Silent	SNP	A	A	G	rs5759985	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	72	152	0	0.464516	0	A|0.481;G|0.519	0.519	strong	ZNF70,NS,carcinoma,-1,1	ZNF70	49	1	NM_021916	exon2	c.T1221C	p.I407I	GTGCTCAATGAGG	.	PASS	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33541216	33541216	+	Missense_Mutation	SNP	G	G	C	rs111814125		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	225	32	198	1	0.142222	0.00505051	G|0.500;C|0.500	0.500	weak	ANKRD18B,NS,carcinoma,0,1	ANKRD18B	46	1	NM_001244752	exon7	c.G880C	p.G294R	AAAGAAGGTGCAA	.	scavenged	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102247408	102247408	+	Missense_Mutation	SNP	C	C	A	rs2298075	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	35	54	0	0.546875	0	C|0.795;A|0.205	0.205	strong	SEC31B,NS,carcinoma,0,2	SEC31B	84	2	NM_015490	exon26	c.G3505T	p.A1169S	GGACAGCCTTCAG	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36856616	36856616	+	Missense_Mutation	SNP	G	G	A	rs16987188	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	8	26	0	0.4	0	G|0.949;A|0.051	0.051	strong	.	KIAA1755	145	.	NM_001029864	exon6	c.C1898T	p.A633V	AGGACCGCCAGCC	.	PASS	Atlas-SNP
LRRC36	55282	hgsc.bcm.edu	37	16	67381383	67381383	+	Missense_Mutation	SNP	G	G	C	rs79636320	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	29	88	0	0.414286	0	G|0.945;C|0.055	0.055	strong	.	LRRC36	68	.	NM_001161575	exon1	c.G14C	p.R5P	GACCACGGTTTTT	.	PASS	Atlas-SNP
HS6ST1	9394	hgsc.bcm.edu	37	2	129025860	129025860	+	Missense_Mutation	SNP	C	C	T	rs147436494	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	31	129	7	0.189024	0.0542636	C|0.729;T|0.271	0.271	strong	HS6ST1,NS,carcinoma,0,2	HS6ST1	31	2	NM_004807	exon2	c.G1112A	p.R371H	CTCAGGCGCTGCT	.	scavenged	Atlas-SNP
RUFY1	80230	hgsc.bcm.edu	37	5	179036433	179036433	+	Silent	SNP	G	G	A	rs17355294	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	14	32	0	0.411765	0	G|0.620;A|0.380	0.380	strong	.	RUFY1	101	.	NM_025158	exon18	c.G2040A	p.L680L	CGAGCTGGCCCTG	.	PASS	Atlas-SNP
COG1	9382	hgsc.bcm.edu	37	17	71197439	71197439	+	Silent	SNP	C	C	T	rs1551036	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	47	94	0	0.522222	0	C|0.867;N|0.001	.	strong	.	COG1	46	.	NM_018714	exon7	c.C1473T	p.S491S	GGTCAGCGTGGCA	.	PASS	Atlas-SNP
PRPF38B	55119	hgsc.bcm.edu	37	1	109242617	109242617	+	Missense_Mutation	SNP	A	A	G	rs147907392	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	50	88	0	0.555556	0	A|1.000;G|0.000	0.000	strong	.	PRPF38B	55	.	NM_018061	exon6	c.A1616G	p.H539R	AACAGCATAAAAA	.	PASS	Atlas-SNP
USP24	23358	hgsc.bcm.edu	37	1	55538462	55538462	+	Silent	SNP	C	C	T	rs17410294	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	42	99	0	0.477273	0	C|0.916;T|0.084	0.084	strong	.	USP24	323	.	NM_015306	exon65	c.G7599A	p.K2533K	TACCTTCTTCTGT	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25009297	25009297	+	Missense_Mutation	SNP	G	G	T	rs1050112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	132	119	0	0.916667	0	G|0.603;T|0.397	0.397	strong	.	PARP4	142	.	NM_006437	exon31	c.C3982A	p.P1328T	TCGGGGGAAGATA	.	PASS	Atlas-SNP
FABP6	2172	hgsc.bcm.edu	37	5	159659273	159659273	+	Missense_Mutation	SNP	C	C	T	rs1130435	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	79	0	1	0	C|0.576;T|0.424	0.424	strong	.	FABP6	37	.	NM_001130958	exon5	c.C383T	p.T128M	GCAAGACGTTCAA	.	PASS	Atlas-SNP
SPINK4	27290	hgsc.bcm.edu	37	9	33240225	33240225	+	Missense_Mutation	SNP	G	G	A	rs706107	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	63	140	0	0.431507	0	G|0.621;A|0.379	0.379	strong	.	SPINK4	7	.	NM_014471	exon1	c.G19A	p.V7I	CAGTGGGTAATCG	.	PASS	Atlas-SNP
NUP188	23511	hgsc.bcm.edu	37	9	131768786	131768786	+	Silent	SNP	G	G	A	rs150379581	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	53	108	0	0.486239	0	G|0.990;A|0.010	0.010	strong	.	NUP188	140	.	NM_015354	exon44	c.G5079A	p.T1693T	GAGCACGCTGCTG	.	PASS	Atlas-SNP
PWP2	5822	hgsc.bcm.edu	37	21	45528919	45528919	+	Missense_Mutation	SNP	G	G	A	rs2020945	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	55	120	0	0.443548	0	G|0.379;A|0.621	0.621	strong	.	PWP2	64	.	NM_005049	exon2	c.G73A	p.D25N	ACCTGCGATGGAA	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189859312	189859312	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	36	110	0	0.295082	0	.	.	none	COL3A1,NS,malignant_melanoma,-1,1	COL3A1	292	1	NM_000090	exon19	c.G1339A	p.G447S	CCACGTGGTGAAC	.	PASS	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	37	4	6606864	6606864	+	Missense_Mutation	SNP	A	A	G	rs2301788	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	109	94	1	1	0.0106383	A|0.484;G|0.516	0.516	strong	MAN2B2,NS,carcinoma,0,1	MAN2B2	80	1	NM_015274	exon11	c.A1622G	p.N541S	ACTACAACATCAG	.	scavenged	Atlas-SNP
DLC1	10395	hgsc.bcm.edu	37	8	12958025	12958025	+	Silent	SNP	C	C	A	rs3739298	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	16	21	0	0.457143	0	C|0.703;A|0.297	0.297	strong	.	DLC1	411	.	NM_182643	exon9	c.G1821T	p.A607A	GGGGGGCGCGTGG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552067	32552067	+	Silent	SNP	C	C	T	rs17882603	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	50	68	0	1	0	C|0.548;T|0.452	0.452	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.G189A	p.Q63Q	CTCCTCCTGGTTA	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56658871	56658871	+	Missense_Mutation	SNP	T	T	C	rs2291498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	239	95	174	0	0.39749	0	T|0.785;C|0.215	0.215	strong	.	FAM208A	113	.	NM_001112736	exon22	c.A4303G	p.I1435V	AGACTATGTGTCG	.	PASS	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23745533	23745533	+	Missense_Mutation	SNP	C	C	T	rs10131813	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	67	84	0	0.744444	0	C|0.636;N|0.001	.	strong	HOMEZ_ENST00000357460,NS,carcinoma,0,3	HOMEZ	80	3	NM_020834	exon2	c.G904A	p.A302T	TAGAGGCGGCAGT	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147499616	147499616	+	Silent	SNP	C	C	T	rs17704908	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	120	105	1	1	0.00952381	C|0.489;T|0.511	0.511	strong	.	SPINK5	245	.	NM_001127699	exon25	c.C2358T	p.L786L	AAAACTCATCTGC	.	PASS	Atlas-SNP
RPL3L	6123	hgsc.bcm.edu	37	16	1996629	1996629	+	Silent	SNP	C	C	T	rs74930354	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	17	41	0	0.459459	0	C|0.970;T|0.030	0.030	strong	.	RPL3L	42	.	NM_005061	exon7	c.G948A	p.P316P	CACCAGCGGTGTG	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26385578	26385578	+	Silent	SNP	G	G	A	rs41279908	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	58	196	0	0.453125	0	G|0.909;A|0.091	0.091	strong	.	MYO3A	371	.	NM_017433	exon17	c.G1743A	p.E581E	AATTGAGCAATGT	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80900348	80900348	+	Missense_Mutation	SNP	T	T	G	rs7965277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	18	27	0	0.580645	0	T|0.686;G|0.314	0.314	strong	PTPRQ,NS,carcinoma,0,1	PTPRQ	119	1	NM_001145026	exon13	c.T1940G	p.V647G	CTTTAGTACTGAA	.	PASS	Atlas-SNP
KIAA1751	85452	hgsc.bcm.edu	37	1	1887245	1887245	+	Silent	SNP	G	G	A	rs28575980	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	38	64	0	0.463415	0	G|0.777;A|0.223	0.223	strong	KIAA1751,NS,carcinoma,0,1	KIAA1751	92	1	NM_001080484	exon18	c.C2061T	p.A687A	GGTGGCGGCTTTG	.	PASS	Atlas-SNP
TRABD2B	388630	hgsc.bcm.edu	37	1	48459907	48459907	+	Silent	SNP	C	C	T	rs3814006	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	5	4	5	0	0.8	0	C|0.817;T|0.183	0.183	strong	RP11-543D5.3,NS,carcinoma,0,1	.	.	1	NM_001194986	exon2	c.G465A	p.A155A	GTTGCCCGCGATG	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201166383	201166383	+	Missense_Mutation	SNP	G	G	A	rs4915221	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	31	62	0	0.508197	0	G|0.289;A|0.710	0.710	strong	.	IGFN1	220	.	NM_001164586	exon5	c.G305A	p.R102H	TGTACCGCTGCAC	.	PASS	Atlas-SNP
USP21	27005	hgsc.bcm.edu	37	1	161132777	161132777	+	Missense_Mutation	SNP	G	G	A	rs17356051	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	82	102	0	0.546667	0	G|0.960;A|0.040	0.040	strong	.	USP21	63	.	NM_012475	exon6	c.G962A	p.G321D	GCCGAGGCCGCCG	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112162854	112162854	+	Silent	SNP	T	T	C	rs2229992	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	119	98	0	1	0	A|0.002;C|0.475	0.475	strong	APC,colon,carcinoma,0,1	APC	4158	1	NM_001127510	exon13	c.T1458C	p.Y486Y	AATGTATGGGCTT	.	PASS	Atlas-SNP
CTDP1	9150	hgsc.bcm.edu	37	18	77475455	77475455	+	Silent	SNP	G	G	A	rs11549119	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	25	23	0	0.568182	0	G|0.969;A|0.031	0.031	strong	.	CTDP1	67	.	NM_004715	exon8	c.G1995A	p.A665A	GGGAGCGAAGATC	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10465097	10465097	+	Missense_Mutation	SNP	C	C	T	rs4354268	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	54	92	0	0.504673	0	C|0.615;T|0.385	0.385	strong	.	RP1L1	453	.	NM_178857	exon4	c.G6511A	p.E2171K	CCTCCTCTTCAGC	.	PASS	Atlas-SNP
NAA60	79903	hgsc.bcm.edu	37	16	3533577	3533577	+	Silent	SNP	C	C	G	rs1137454	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	184	192	0	1	0	C|0.294;G|0.706	0.706	strong	.	NAA60	21	.	NM_001083600	exon5	c.C552G	p.G184G	CGGCGGCCACCCT	.	PASS	Atlas-SNP
UGT2B17	7367	hgsc.bcm.edu	37	4	69417570	69417570	+	Silent	SNP	A	A	G	rs76593659		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	278	128	0	0	0.460432	.	.	.	weak	.	UGT2B17	34	.	NM_001077	exon4	c.T1065C	p.Y355Y	CCACTTATACAGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9015351	9015351	+	Missense_Mutation	SNP	G	G	A	rs201449501	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	18	119	0	0.160714	0	G|0.998;A|0.002	0.002	weak	.	MUC16	4315	.	NM_024690	exon30	c.C38237T	p.P12746L	TACAGAGGGCCAA	.	PASS	Atlas-SNP
UNC5B	219699	hgsc.bcm.edu	37	10	73046625	73046625	+	Silent	SNP	C	C	T	rs7069294	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	23	63	0	0.45098	0	C|0.942;T|0.058	0.058	strong	.	UNC5B	123	.	NM_001244889	exon5	c.C732T	p.Y244Y	CGTCTACGGTGCG	.	PASS	Atlas-SNP
TPRX1	284355	hgsc.bcm.edu	37	19	48305651	48305651	+	Missense_Mutation	SNP	G	G	A	rs62130758	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	15	14	0	0.405405	0	G|0.764;A|0.236	0.236	strong	.	TPRX1	46	.	NM_198479	exon2	c.C617T	p.P206L	GGGATCGGGCCTG	.	PASS	Atlas-SNP
TTC37	9652	hgsc.bcm.edu	37	5	94861118	94861118	+	Missense_Mutation	SNP	G	G	C	rs17084873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	73	178	0	0.437126	0	G|0.773;C|0.227	0.227	strong	.	TTC37	128	.	NM_014639	exon15	c.C1309G	p.L437V	CTTGTAGATAGTC	.	PASS	Atlas-SNP
FASTKD1	79675	hgsc.bcm.edu	37	2	170417031	170417031	+	Silent	SNP	T	T	C	rs35933910	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	46	124	0	0.464646	0	T|0.967;C|0.033	0.033	strong	.	FASTKD1	86	.	NM_024622	exon5	c.A837G	p.Q279Q	ATTAAATTGTAGA	.	PASS	Atlas-SNP
AGBL2	79841	hgsc.bcm.edu	37	11	47712213	47712213	+	Missense_Mutation	SNP	C	C	T	rs7941404	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	46	111	1	0.46	0.00900901	C|0.916;T|0.084	0.084	strong	AGBL2,caecum,carcinoma,-1,1	AGBL2	73	1	NM_024783	exon10	c.G1046A	p.R349H	ATATTGCGGGTGT	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152278689	152278689	+	Silent	SNP	C	C	A	rs57672167	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	537	399	335	0	0.743017	0	C|0.688;A|0.312	0.312	strong	FLG,NS,carcinoma,-2,1	FLG	900	1	NM_002016	exon3	c.G8673T	p.V2891V	CTGGCTCACACTG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134735672	134735672	+	Silent	SNP	A	A	G	rs7915371	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	122	137	0	1	0	A|0.515;G|0.485	0.485	strong	.	TTC40	100	.	NM_001200049	exon13	c.T1542C	p.N514N	GCCTGCATTCACC	.	PASS	Atlas-SNP
E2F2	1870	hgsc.bcm.edu	37	1	23847464	23847464	+	Missense_Mutation	SNP	C	C	A	rs2075995	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	62	94	0	0.484375	0	C|0.614;A|0.386	0.386	strong	E2F2,colon,carcinoma,-2,1	E2F2	31	1	NM_004091	exon4	c.G678T	p.Q226H	GATGAGCTGGTCC	.	PASS	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22974370	22974370	+	Silent	SNP	G	G	A	rs151239314	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	13	104	7	0.132653	0.0673077	G|0.882;A|0.118	0.118	strong	TNFRSF10C,colon,carcinoma,0,2	TNFRSF10C	30	2	NM_003841	exon5	c.G606A	p.P202P	CAGCCCGGGGACT	.	scavenged	Atlas-SNP
CRELD2	79174	hgsc.bcm.edu	37	22	50313438	50313438	+	Silent	SNP	T	T	C	rs9616388	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	44	84	0	0.488889	0	T|0.754;C|0.246	0.246	strong	CRELD2_ENST00000404488,NS,carcinoma,0,3	CRELD2	57	3	NM_024324	exon3	c.T273C	p.N91N	ATGCAATCAGATG	.	PASS	Atlas-SNP
CKAP2	26586	hgsc.bcm.edu	37	13	53035665	53035665	+	Missense_Mutation	SNP	T	T	A	rs35975899	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	27	63	0	0.397059	0	T|0.964;A|0.036	0.036	strong	.	CKAP2	51	.	NM_001098525	exon4	c.T707A	p.M236K	CCAATATGACTGC	.	PASS	Atlas-SNP
MTMR10	54893	hgsc.bcm.edu	37	15	31234064	31234064	+	Missense_Mutation	SNP	C	C	T	rs6493352	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	81	127	0	0.465517	0	C|0.844;T|0.156	0.156	strong	.	MTMR10	74	.	NM_017762	exon16	c.G1943A	p.R648H	GAGACACGTGGCA	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122372183	122372183	+	Missense_Mutation	SNP	G	G	A	rs77540055	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	44	54	0	1	0	G|0.960;A|0.040	0.040	strong	WDR66,caecum,carcinoma,0,1	WDR66	143	1	NM_001178003	exon5	c.G919A	p.V307I	CTCTGCGTCAGTG	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5425077	5425077	+	Missense_Mutation	SNP	T	T	C	rs11651270	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	27	50	0	0.529412	0	T|0.542;C|0.458	0.458	strong	.	NLRP1	358	.	NM_001033053	exon13	c.A3562G	p.M1188V	GGGCCATTTGGAA	.	PASS	Atlas-SNP
CCNE1	898	hgsc.bcm.edu	37	19	30314666	30314666	+	Silent	SNP	C	C	T	rs7257694	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	12	36	0	0.461538	0	C|0.724;T|0.276	0.276	strong	.	CCNE1	49	.	NM_001238	exon12	c.C1215T	p.S405S	GAGCAGCGGGCCG	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56392875	56392875	+	Silent	SNP	T	T	G	rs302456	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	22	59	1	0.5	0.0169492	T|0.716;G|0.284	0.284	strong	NLRP4_ENST00000301295,colon,carcinoma,+2,2	NLRP4	331	2	NM_134444	exon10	c.T2907G	p.L969L	GGCACTTCTGACG	.	scavenged	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602438	5602438	+	Missense_Mutation	SNP	T	T	A	rs2341432	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	131	149	0	0.992424	0	T|0.358;A|0.642	0.642	strong	.	OR52B6	37	.	NM_001005162	exon1	c.T332A	p.L111H	ATAGCCTCATTTC	.	PASS	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	37	12	52827740	52827740	+	Missense_Mutation	SNP	G	G	C	rs2232386	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	64	143	0	0.481203	0	G|0.888;C|0.112	0.112	strong	.	KRT75	75	.	NM_004693	exon1	c.C349G	p.P117A	CAGGGGGACACAC	.	PASS	Atlas-SNP
CASD1	64921	hgsc.bcm.edu	37	7	94180691	94180691	+	Silent	SNP	T	T	C	rs10280457	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	48	97	0	0.484848	0	T|0.879;C|0.121	0.121	strong	.	CASD1	70	.	NM_022900	exon15	c.T1857C	p.A619A	TCTGGCTTTGCAG	.	PASS	Atlas-SNP
SPA17	53340	hgsc.bcm.edu	37	11	124564252	124564252	+	Silent	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	46	112	0	0.464646	0	.	.	none	SPA17,NS,malignant_melanoma,+2,1	SPA17	16	1	NM_017425	exon5	c.A366G	p.Q122Q	AATCCAAGCTGCC	.	PASS	Atlas-SNP
EBLN2	55096	hgsc.bcm.edu	37	3	73111998	73111998	+	Missense_Mutation	SNP	C	C	T	rs1060584	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	76	111	0	0.554745	0	C|0.490;T|0.510	0.510	strong	.	EBLN2	18	.	NM_018029	exon1	c.C766T	p.L256F	TTCACACTTCTAT	.	PASS	Atlas-SNP
SEMA6B	10501	hgsc.bcm.edu	37	19	4550183	4550183	+	Missense_Mutation	SNP	G	G	A	rs142864702	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	66	117	0	0.503817	0	G|0.999;A|0.001	0.001	strong	SEMA6B,NS,carcinoma,+1,1	SEMA6B	51	1	NM_032108	exon12	c.C1223T	p.A408V	GGCACCGCCTCGT	.	PASS	Atlas-SNP
IKZF3	22806	hgsc.bcm.edu	37	17	37944519	37944519	+	Missense_Mutation	SNP	C	C	G	rs112301322	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	76	166	1	0.503311	0.0060241	C|0.979;G|0.021	0.021	strong	IKZF3,rectum,carcinoma,0,1	IKZF3	79	1	NM_012481	exon6	c.G701C	p.G234A	GTGTCCCCTGGGT	.	scavenged	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5842081	5842081	+	Silent	SNP	G	G	A	rs73394378	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	105	212	0	0.502392	0	G|0.939;A|0.061	0.061	strong	.	OR52N2	58	.	NM_001005174	exon1	c.G516A	p.R172R	TTGCCGGGGGAAC	.	PASS	Atlas-SNP
AMPH	273	hgsc.bcm.edu	37	7	38433726	38433726	+	Missense_Mutation	SNP	T	T	G	rs35024632	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	63	91	0	0.65625	0	T|0.934;G|0.066	0.066	strong	.	AMPH	157	.	NM_001635	exon18	c.A1487C	p.K496T	GTGGCCTTCTCCG	.	PASS	Atlas-SNP
SPATA25	128497	hgsc.bcm.edu	37	20	44515322	44515322	+	Missense_Mutation	SNP	C	C	T	rs76638086	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	42	110	0	0.451613	0	C|0.997;T|0.003	0.003	strong	.	.	.	.	NM_080608	exon2	c.G518A	p.R173Q	TCTTCCCGAACTC	.	PASS	Atlas-SNP
TBX4	9496	hgsc.bcm.edu	37	17	59560463	59560463	+	Silent	SNP	C	C	T	rs7218485	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	36	71	0	0.493151	0	C|0.886;T|0.114	0.114	strong	TBX4,colon,carcinoma,0,2	TBX4	69	2	NM_018488	exon8	c.C1224T	p.D408D	GGTGGACGACCTG	.	PASS	Atlas-SNP
PDLIM1	9124	hgsc.bcm.edu	37	10	96997820	96997820	+	Silent	SNP	A	A	G	rs1049814	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	37	118	0	0.362745	0	A|0.818;G|0.182	0.182	strong	.	PDLIM1	33	.	NM_020992	exon7	c.T852C	p.Y284Y	GCACACATAACAC	.	PASS	Atlas-SNP
PIGQ	9091	hgsc.bcm.edu	37	16	633353	633353	+	Missense_Mutation	SNP	T	T	C	rs71391136	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	39	63	0	0.6	0	CA|0.500;TG|0.500	.	alt	PIGQ,NS,carcinoma,0,1	PIGQ	43	1	NM_148920	exon10	c.T2002C	p.C668R	ACCCTGTGTACCC	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25009485	25009485	+	Missense_Mutation	SNP	C	C	G	rs41506549		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	71	94	0	0.986111	0	.	.	weak	.	PARP4	142	.	NM_006437	exon31	c.G3794C	p.G1265A	CCTAAGCCATCCT	.	PASS	Atlas-SNP
C1orf162	128346	hgsc.bcm.edu	37	1	112018657	112018657	+	Missense_Mutation	SNP	G	G	A	rs6703267	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	43	71	0	0.518072	0	G|0.782;A|0.218	0.218	strong	.	C1orf162	14	.	NM_174896	exon2	c.G7A	p.G3S	ATGGGAGGCAATG	.	PASS	Atlas-SNP
ZNF835	90485	hgsc.bcm.edu	37	19	57175121	57175121	+	Silent	SNP	G	G	A	rs115625349	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	35	70	0	0.426829	0	G|0.942;A|0.058	0.058	strong	.	ZNF835	106	.	NM_001005850	exon2	c.C1446T	p.A482A	GCTGAAGGCCTTC	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	37	7	107738882	107738882	+	Silent	SNP	G	G	A	rs1735499	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	95	100	1	1	0.01	T|0.052;G|0.532;C|0.144;A|0.272	0.272	strong	.	LAMB4	253	.	NM_007356	exon11	c.C1326T	p.Y442Y	TAGTCCGTAGTGG	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59781800	59781800	+	Silent	SNP	A	A	G	rs13381627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	42	51	0	1	0	A|0.876;G|0.124	0.124	strong	.	PIGN	62	.	NM_176787	exon15	c.T1245C	p.D415D	CACTTCATCAAAC	.	PASS	Atlas-SNP
LIME1	54923	hgsc.bcm.edu	37	20	62369997	62369997	+	Missense_Mutation	SNP	C	C	T	rs1151625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	19	45	0	0.431818	0	C|0.944;T|0.056	0.056	strong	.	LIME1	13	.	NM_017806	exon6	c.C632T	p.P211L	GGGACCCAGGACC	.	PASS	Atlas-SNP
NELFA	7469	hgsc.bcm.edu	37	4	1986542	1986542	+	Silent	SNP	C	C	T	rs2234570	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	24	56	0	0.521739	0	C|0.820;T|0.180	0.180	strong	.	.	.	.	NM_005663	exon8	c.G1062A	p.T354T	TGGGGGCGTCTCG	.	PASS	Atlas-SNP
FBXO7	25793	hgsc.bcm.edu	37	22	32875190	32875190	+	Missense_Mutation	SNP	G	G	A	rs11107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	66	113	0	0.536585	0	G|0.577;N|0.000	.	strong	.	FBXO7	131	.	NM_012179	exon2	c.G345A	p.M115I	TAGCATGCAGGAT	.	PASS	Atlas-SNP
HEPH	9843	hgsc.bcm.edu	37	X	65427124	65427124	+	Silent	SNP	A	A	G	rs809363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	44	56	0	1	0	A|0.687;0|0.002	.	strong	.	HEPH	224	.	NM_138737	exon14	c.A2541G	p.T847T	TGGTACATTCAGG	.	PASS	Atlas-SNP
BCAT2	587	hgsc.bcm.edu	37	19	49303070	49303070	+	Missense_Mutation	SNP	G	G	C	rs11548193	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	67	50	0	1	0	G|0.904;C|0.096	0.096	strong	.	BCAT2	35	.	NM_001190	exon6	c.C557G	p.T186R	GCGCGCGTGGGCT	.	PASS	Atlas-SNP
HLA-DQB2	3120	hgsc.bcm.edu	37	6	32726756	32726756	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	14	116	0	0.126126	0	.	.	none	.	HLA-DQB2	22	.	NM_001198858	exon3	c.T517C	p.S173P	TGAGGGAGGTGGA	.	PASS	Atlas-SNP
MTPAP	55149	hgsc.bcm.edu	37	10	30629226	30629226	+	Missense_Mutation	SNP	G	G	A	rs1047991	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	45	140	0	0.420561	0	G|0.755;A|0.245	0.245	strong	.	MTPAP	113	.	NM_018109	exon3	c.C484T	p.R162C	GTACGCGTGACCG	.	PASS	Atlas-SNP
ST14	6768	hgsc.bcm.edu	37	11	130066261	130066261	+	Missense_Mutation	SNP	C	C	A	rs17667603	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	29	48	0	0.517857	0	C|0.949;A|0.051	0.051	strong	.	ST14	82	.	NM_021978	exon10	c.C1141A	p.R381S	AAGGTGCGCTTCA	.	PASS	Atlas-SNP
COPE	11316	hgsc.bcm.edu	37	19	19017862	19017862	+	Missense_Mutation	SNP	G	G	A	rs10330	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	45	83	0	0.592105	0	G|0.804;A|0.196	0.196	strong	.	COPE	26	.	NM_007263	exon4	c.C350T	p.T117I	AAGGTGGTGTTGG	.	PASS	Atlas-SNP
ZKSCAN3	80317	hgsc.bcm.edu	37	6	28331094	28331094	+	Missense_Mutation	SNP	G	G	A	rs17856167	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	25	64	0	0.384615	0	G|0.921;A|0.079	0.079	strong	.	ZKSCAN3	50	.	NM_024493	exon4	c.G565A	p.V189M	GTCCCCGTGCTTG	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19499560	19499560	+	Missense_Mutation	SNP	T	T	C	rs16862578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	54	89	2	0.568421	0.0224719	T|0.826;C|0.174	0.174	strong	UBR4,NS,carcinoma,0,1	UBR4	415	1	NM_020765	exon25	c.A3319G	p.T1107A	TGGTGGTACAGTC	.	scavenged	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79387586	79387586	+	Silent	SNP	A	A	G	rs34840208	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	53	124	0	0.490741	0	A|0.709;G|0.291	0.291	strong	.	FRAS1	779	.	NM_025074	exon50	c.A7254G	p.K2418K	GGGAAAAGAGGTG	.	PASS	Atlas-SNP
CSN3	1448	hgsc.bcm.edu	37	4	71115060	71115060	+	Missense_Mutation	SNP	G	G	A	rs3775739	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	42	75	0	0.446809	0	G|0.881;A|0.119	0.119	strong	.	CSN3	43	.	NM_005212	exon4	c.G433A	p.A145T	ACACCAGCTCCTG	.	PASS	Atlas-SNP
PRR5	55615	hgsc.bcm.edu	37	22	45075741	45075741	+	Missense_Mutation	SNP	C	C	T	rs74960825	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	47	105	0	0.465347	0	C|0.996;T|0.004	0.004	strong	.	PRR5	75	.	NM_001198721	exon2	c.C62T	p.P21L	AGATGCCGGCGCA	.	PASS	Atlas-SNP
OR52N1	79473	hgsc.bcm.edu	37	11	5809673	5809673	+	Missense_Mutation	SNP	C	C	T	rs10769224	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	60	94	0	1	0	C|0.675;T|0.325	0.325	strong	.	OR52N1	70	.	NM_001001913	exon1	c.G374A	p.C125Y	GCCACACAGTGGT	.	PASS	Atlas-SNP
TRIM6	117854	hgsc.bcm.edu	37	11	5632212	5632212	+	Silent	SNP	G	G	A	rs10769124	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	66	143	0	0.488889	0	G|0.300;A|0.700	0.700	strong	.	TRIM6	55	.	NM_001003818	exon8	c.G1191A	p.L397L	GATCCTGGGGGTA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	711905	711905	+	Silent	SNP	A	A	G	rs2301426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	44	58	0	0.977778	0	A|0.387;G|0.613	0.613	strong	WDR90,NS,carcinoma,0,1	WDR90	107	1	NM_145294	exon32	c.A3879G	p.P1293P	AGAGCCAGTCCCA	.	PASS	Atlas-SNP
ETV7	51513	hgsc.bcm.edu	37	6	36341294	36341294	+	Silent	SNP	C	C	T	rs3213530	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	43	84	0	0.394495	0	C|0.813;T|0.187	0.187	strong	.	ETV7	31	.	NM_001207035	exon4	c.G369A	p.G123G	AAAGGGCCCACAC	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6559961	6559961	+	Silent	SNP	G	G	A	rs118078642	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	44	71	0	0.656716	0	G|0.997;A|0.003	0.003	strong	.	DNHD1	198	.	NM_144666	exon16	c.G3246A	p.E1082E	GGGGGAGTTTCGC	.	PASS	Atlas-SNP
WDR35	57539	hgsc.bcm.edu	37	2	20135283	20135283	+	Silent	SNP	T	T	C	rs6741091	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	42	107	0	0.567568	0	T|0.533;C|0.467	0.467	strong	.	WDR35	92	.	NM_001006657	exon22	c.A2529G	p.E843E	TAACCCTTCATAA	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42386630	42386630	+	Missense_Mutation	SNP	G	G	T	rs75734921	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	52	0	0.471698	0	G|0.922;T|0.078	0.078	strong	.	PLA2G4D	72	.	NM_178034	exon1	c.C28A	p.P10T	GGCCAGGTGGTCC	.	PASS	Atlas-SNP
HIST1H2AL	8332	hgsc.bcm.edu	37	6	27833378	27833378	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	49	108	0	0.485149	0	.	.	none	.	HIST1H2AL	14	.	NM_003511	exon1	c.C246T	p.R82R	CCCGCGCCACTTG	.	PASS	Atlas-SNP
SLC4A11	83959	hgsc.bcm.edu	37	20	3218634	3218634	+	Missense_Mutation	SNP	G	G	C	rs3810562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	101	0	1	0	G|0.367;C|0.633	0.633	strong	SLC4A11_ENST00000380059,NS,lymphoid_neoplasm,0,1	SLC4A11	188	1	NM_001174090	exon1	c.C77G	p.P26R	CTCCTCGGATGCC	.	PASS	Atlas-SNP
EFHB	151651	hgsc.bcm.edu	37	3	19962044	19962044	+	Missense_Mutation	SNP	G	G	A	rs13078867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	31	45	0	0.525424	0	G|0.804;A|0.196	0.196	strong	.	EFHB	186	.	NM_144715	exon2	c.C805T	p.P269S	CAACTGGAATAAC	.	PASS	Atlas-SNP
OMP	4975	hgsc.bcm.edu	37	11	76814110	76814110	+	Silent	SNP	G	G	A	rs2233549	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	53	109	1	0.576087	0.00917431	G|0.790;A|0.210	0.210	strong	OMP,NS,carcinoma,+2,1	OMP	14	1	NM_006189	exon1	c.G225A	p.P75P	CAAGCCGGGCAAG	.	scavenged	Atlas-SNP
SESTD1	91404	hgsc.bcm.edu	37	2	179979930	179979930	+	Silent	SNP	T	T	C	rs2289993	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	59	106	0	0.460938	0	T|0.810;C|0.190	0.190	strong	.	SESTD1	66	.	NM_178123	exon16	c.A1701G	p.Q567Q	CAAAGATTGGCAT	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79086883	79086883	+	Missense_Mutation	SNP	G	G	A	rs1129770	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	37	84	0	0.578125	0	G|0.884;A|0.116	0.116	strong	.	CMYA5	643	.	NM_153610	exon11	c.G11780A	p.R3927Q	GGAGACGGCTGAC	.	PASS	Atlas-SNP
ARHGAP4	393	hgsc.bcm.edu	37	X	153175295	153175295	+	Missense_Mutation	SNP	C	C	A	rs2070099	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	64	53	0	0.969697	0	C|0.979;A|0.021	0.021	strong	.	ARHGAP4	103	.	NM_001164741	exon20	c.G2434T	p.V812L	GCAGTACGTCCCC	.	PASS	Atlas-SNP
PLEKHS1	79949	hgsc.bcm.edu	37	10	115526177	115526177	+	Silent	SNP	A	A	G	rs10885500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	52	118	0	0.433333	0	A|0.729;G|0.271	0.271	strong	.	PLEKHS1	19	.	NM_024889	exon3	c.A36G	p.Q12Q	CAAACAATTTACA	.	PASS	Atlas-SNP
CEP120	153241	hgsc.bcm.edu	37	5	122682348	122682348	+	Silent	SNP	A	A	G	rs1047438	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	61	88	0	0.488	0	G|0.709;N|0.000	0.709	strong	CEP120,colon,carcinoma,0,1	CEP120	72	1	NM_153223	exon21	c.T2826C	p.D942D	ATAATCATCCAAA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152286002	152286002	+	Missense_Mutation	SNP	T	T	C	rs2011331	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	263	161	184	0	0.612167	0	T|0.667;C|0.333	0.333	strong	.	FLG	900	.	NM_002016	exon3	c.A1360G	p.T454A	CACGTGTGGACTC	.	PASS	Atlas-SNP
SAMD4A	23034	hgsc.bcm.edu	37	14	55243152	55243152	+	Silent	SNP	C	C	T	rs1951437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	26	37	0	0.565217	0	C|0.974;T|0.026	0.026	strong	.	SAMD4A	68	.	NM_015589	exon10	c.C1938T	p.P646P	CAACCCCGGGGGC	.	PASS	Atlas-SNP
POLE	5426	hgsc.bcm.edu	37	12	133253995	133253995	+	Missense_Mutation	SNP	G	G	A	rs5744751	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	48	136	0	0.448598	0	G|0.928;A|0.072	0.072	strong	.	POLE	416	.	NM_006231	exon8	c.C755T	p.A252V	GGAAAAGCATTTC	.	PASS	Atlas-SNP
SH2D2A	9047	hgsc.bcm.edu	37	1	156784982	156784982	+	Missense_Mutation	SNP	T	T	C	rs926103	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	237	234	156	0	0.987342	0	T|0.445;C|0.555	0.555	strong	SH2D2A_ENST00000392306,NS,carcinoma,0,2	SH2D2A	78	2	NM_003975	exon3	c.A155G	p.N52S	CCTGTGTTGGAGG	.	PASS	Atlas-SNP
DHX57	90957	hgsc.bcm.edu	37	2	39050141	39050141	+	Silent	SNP	A	A	C	rs3770681	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	28	66	0	0.466667	0	A|0.422;C|0.578	0.578	strong	.	DHX57	127	.	NM_198963	exon17	c.T3285G	p.S1095S	AAACGGAGACTTA	.	PASS	Atlas-SNP
COPS3	8533	hgsc.bcm.edu	37	17	17168164	17168164	+	Silent	SNP	G	G	A	rs3182911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	30	100	0	0.416667	0	G|0.540;N|0.000	.	strong	.	COPS3	41	.	NM_003653	exon6	c.C573T	p.I191I	AGTATAGATCATC	.	PASS	Atlas-SNP
OR5R1	219479	hgsc.bcm.edu	37	11	56185327	56185327	+	Missense_Mutation	SNP	T	T	C	rs7933772	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	14	49	0	0.4	0	C|0.324;N|0.000	0.324	strong	.	OR5R1	83	.	NM_001004744	exon1	c.A382G	p.S128G	GGGGACTACAGAT	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74497152	74497152	+	Missense_Mutation	SNP	G	G	A	rs5023688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	40	63	0	0.512821	0	G|0.598;A|0.402	0.402	strong	.	CD109	170	.	NM_133493	exon21	c.G2533A	p.V845I	GATGCTGTCACCC	.	PASS	Atlas-SNP
CWF19L2	143884	hgsc.bcm.edu	37	11	107299631	107299631	+	Missense_Mutation	SNP	G	G	A	rs659040	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	82	150	0	0.565517	0	G|0.822;A|0.178	0.178	strong	.	CWF19L2	135	.	NM_152434	exon8	c.C1327T	p.H443Y	GTTGGTGTTCATC	.	PASS	Atlas-SNP
IL17RD	54756	hgsc.bcm.edu	37	3	57136585	57136585	+	Missense_Mutation	SNP	C	C	T	rs17057718	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	47	106	0	0.335714	0	C|0.840;T|0.160	0.160	strong	.	IL17RD	93	.	NM_017563	exon10	c.G901A	p.V301M	TGGCCACGGCTCT	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	256508	256508	+	Silent	SNP	C	C	T	rs3211499		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	7	93	0	0.0686275	0	.	.	weak	SDHA,NS,carcinoma,+2,1	SDHA	80	1	NM_004168	exon15	c.C1968T	p.T656T	TGCCACCGTCCCG	.	scavenged	Atlas-SNP
TNFRSF11A	8792	hgsc.bcm.edu	37	18	60027236	60027236	+	Silent	SNP	C	C	T	rs12721430	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	114	145	0	0.7125	0	C|0.997;T|0.003	0.003	strong	.	TNFRSF11A	51	.	NM_001270951	exon6	c.C570T	p.S190S	GAAATCCGATGCG	.	PASS	Atlas-SNP
KDM5A	5927	hgsc.bcm.edu	37	12	427575	427575	+	Missense_Mutation	SNP	A	A	G	rs11062385	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	60	113	0	0.512821	0	A|0.651;G|0.349	0.349	strong	.	KDM5A	307	.	NM_001042603	exon19	c.T2594C	p.M865T	TCATCCATCATGG	.	PASS	Atlas-SNP
FABP1	2168	hgsc.bcm.edu	37	2	88424066	88424066	+	Missense_Mutation	SNP	T	T	C	rs2241883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	33	84	0	0.354839	0	A|0.004;C|0.254	0.254	strong	.	FABP1	23	.	NM_001443	exon3	c.A280G	p.T94A	TGAAAGTTGTCAC	.	PASS	Atlas-SNP
C17orf49	124944	hgsc.bcm.edu	37	17	6920257	6920257	+	Silent	SNP	C	C	T	rs11078662	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	28	38	0	0.595745	0	T|0.072;G|0.000;C|0.928	0.072	strong	.	C17orf49	28	.	NM_174893	exon5	c.C438T	p.S146S	CGACTCCGATGCC	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	744415	744415	+	Missense_Mutation	SNP	G	G	A	rs3746804	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	78	58	0	1	0	G|0.794;A|0.206	0.206	strong	.	.	.	.	NM_033409	exon3	c.C800T	p.P267L	TCCCGCGGCCGGA	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50123688	50123688	+	Silent	SNP	G	G	T	rs62637571	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	53	97	0	0.546392	0	G|0.471;T|0.529	0.529	strong	.	RCBTB1	34	.	NM_018191	exon9	c.C951A	p.S317S	GATCACGGACTGA	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60927412	60927412	+	Silent	SNP	G	G	A	rs624313	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	25	25	0	1	0	G|0.486;A|0.514	0.514	strong	LAMA5,NS,carcinoma,0,2	LAMA5	268	2	NM_005560	exon4	c.C573T	p.S191S	CCTCTTGGAGGCT	.	PASS	Atlas-SNP
OPRM1	4988	hgsc.bcm.edu	37	6	154428666	154428666	+	Nonsense_Mutation	SNP	C	C	T	rs677830	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	24	46	0	0.5	0	C|0.837;T|0.163	0.163	strong	.	OPRM1	241	.	NM_001145286	exon4	c.C1231T	p.Q411X	GCAGGGCAGTCTC	.	PASS	Atlas-SNP
BRICD5	283870	hgsc.bcm.edu	37	16	2259393	2259393	+	Silent	SNP	C	C	G	rs1129185	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	31	65	0	0.62	0	C|0.956;G|0.044	0.044	strong	.	.	.	.	NM_182563	exon6	c.G657C	p.V219V	GACCGACACGCAG	.	PASS	Atlas-SNP
ZNF778	197320	hgsc.bcm.edu	37	16	89289624	89289624	+	Silent	SNP	G	G	A	rs12920028	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	63	92	0	0.520661	0	G|0.901;A|0.099	0.099	strong	.	ZNF778	67	.	NM_182531	exon4	c.G177A	p.L59L	TTTACTGGACCCA	.	PASS	Atlas-SNP
OR10X1	128367	hgsc.bcm.edu	37	1	158549422	158549422	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	3	116	0	0.0164835	0	.	.	none	OR10X1,face,carcinoma,0,1	OR10X1	96	1	NM_001004477	exon1	c.A268G	p.T90A	TCAGCGTATAGCA	.	scavenged	Atlas-SNP
FAM205A	259308	hgsc.bcm.edu	37	9	34728065	34728065	+	Missense_Mutation	SNP	G	G	A	rs75766630	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	45	88	0	0.45	0	G|0.970;A|0.030	0.030	strong	.	FAM205A	45	.	NM_001141917	exon3	c.C205T	p.R69W	CTTCCCGGGAACG	.	PASS	Atlas-SNP
CLMN	79789	hgsc.bcm.edu	37	14	95660242	95660242	+	Silent	SNP	A	A	G	rs1128468	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	27	40	0	0.55102	0	A|0.884;G|0.116	0.116	strong	.	CLMN	103	.	NM_024734	exon12	c.T2784C	p.Y928Y	CTGAACATAGCTA	.	PASS	Atlas-SNP
ZFYVE9	9372	hgsc.bcm.edu	37	1	52703491	52703491	+	Missense_Mutation	SNP	G	G	C	rs35385323	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	60	117	0	0.46875	0	G|0.935;C|0.065	0.065	strong	.	ZFYVE9	131	.	NM_007323	exon4	c.G402C	p.K134N	AGAGAAGAAATGT	.	PASS	Atlas-SNP
GLRX3	10539	hgsc.bcm.edu	37	10	131934747	131934747	+	Missense_Mutation	SNP	G	G	C	rs13991	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	18	13	0	0.545455	0	G|0.849;C|0.151	0.151	strong	TXNL2,NS,carcinoma,0,2	GLRX3	39	2	NM_006541	exon1	c.G63C	p.Q21H	CGGGCAGTTTGAG	.	PASS	Atlas-SNP
MRGPRX1	259249	hgsc.bcm.edu	37	11	18955515	18955515	+	Missense_Mutation	SNP	A	A	G	rs138263314	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	29	61	1	0.341176	0.0163934	A|0.980;G|0.020	0.020	strong	MRGPRX1,NS,carcinoma,+1,1	MRGPRX1	84	1	NM_147199	exon1	c.T817C	p.F273L	CGAAGAAGTAAAT	.	scavenged	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632714	32632714	+	Silent	SNP	G	G	C	rs3210148	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	23	83	0	1	0	G|0.427;C|0.573	0.573	strong	.	HLA-DQB1	15	.	NM_002123	exon2	c.C240G	p.R80R	CACCGCGCGGTAC	.	PASS	Atlas-SNP
CRELD1	78987	hgsc.bcm.edu	37	3	9985656	9985656	+	Silent	SNP	C	C	T	rs3774207	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	54	120	0	0.346154	0	C|0.600;T|0.400	0.400	strong	CRELD1,NS,carcinoma,0,1	CRELD1	48	1	NM_001031717	exon11	c.C1119T	p.H373H	TCCCCACTCTACA	.	PASS	Atlas-SNP
CCND1	595	hgsc.bcm.edu	37	11	69462802	69462802	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	35	73	0	0.486111	0	.	.	none	CCND1,NS,carcinoma,0,1	CCND1	107	1	NM_053056	exon4	c.G615A	p.A205A	GGCAGCGGGGAGC	.	PASS	Atlas-SNP
IPO13	9670	hgsc.bcm.edu	37	1	44422622	44422622	+	Silent	SNP	C	C	T	rs17402858	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	48	73	0	0.45283	0	C|0.973;T|0.027	0.027	strong	.	IPO13	86	.	NM_014652	exon5	c.C1245T	p.D415D	CTCAGACGAGAAG	.	PASS	Atlas-SNP
MRGPRE	116534	hgsc.bcm.edu	37	11	3249984	3249984	+	Missense_Mutation	SNP	C	C	T	rs12295710	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	56	49	0	0.982456	0	C|0.601;T|0.399	0.399	strong	MRGPRE,colon,carcinoma,+2,1	MRGPRE	35	1	NM_001039165	exon2	c.G46A	p.G16S	GGGCGCCGTTGGC	.	PASS	Atlas-SNP
APLF	200558	hgsc.bcm.edu	37	2	68729931	68729931	+	Silent	SNP	A	A	G	rs112136813	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	69	121	0	0.5	0	A|0.972;G|0.028	0.028	strong	.	APLF	69	.	NM_173545	exon3	c.A237G	p.L79L	AAATCTATGGTGC	.	PASS	Atlas-SNP
SSRP1	6749	hgsc.bcm.edu	37	11	57100225	57100225	+	Silent	SNP	A	A	G	rs2230650	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	45	101	0	0.483871	0	A|0.978;G|0.022	0.022	strong	.	SSRP1	75	.	NM_003146	exon6	c.T642C	p.Y214Y	AATGTCATAACGA	.	PASS	Atlas-SNP
KIF21A	55605	hgsc.bcm.edu	37	12	39735348	39735348	+	Missense_Mutation	SNP	C	C	A	rs79089655	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	49	101	0	0.453704	0	C|0.971;A|0.029	0.029	strong	.	KIF21A	238	.	NM_001173464	exon14	c.G1880T	p.G627V	CTTTCACCCCCAT	.	PASS	Atlas-SNP
SORD	6652	hgsc.bcm.edu	37	15	45365724	45365724	+	Missense_Mutation	SNP	C	C	T	rs76283634	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	584	176	456	0	0.30137	0	C|0.918;T|0.082	0.082	strong	.	SORD	24	.	NM_003104	exon9	c.C1070T	p.P357L	AGAATCCCTGATG	.	PASS	Atlas-SNP
C8orf34	116328	hgsc.bcm.edu	37	8	69699756	69699756	+	Missense_Mutation	SNP	G	G	A	rs16935065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	58	106	0	0.487395	0	G|0.813;A|0.187	0.187	strong	.	C8orf34	170	.	NM_052958	exon12	c.G1534A	p.A512T	GTGGAAGCAGAAC	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91484780	91484780	+	Silent	SNP	G	G	A	rs8181361	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	29	48	0	0.439394	0	G|0.688;A|0.312	0.312	strong	.	KIF20B	191	.	NM_016195	exon15	c.G1866A	p.E622E	AAGGGAGACTCTG	.	PASS	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	37	1	247006051	247006051	+	Missense_Mutation	SNP	G	G	C	rs12410563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	18	65	0	0.339623	0	G|0.784;C|0.216	0.216	strong	.	AHCTF1	187	.	NM_015446	exon35	c.C6580G	p.L2194V	TTCCCAGAGTTTC	.	PASS	Atlas-SNP
DZIP1	22873	hgsc.bcm.edu	37	13	96239805	96239805	+	Missense_Mutation	SNP	G	G	A	rs11070136	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	27	89	0	0.3375	0	G|0.704;A|0.296	0.296	strong	DZIP1,NS,carcinoma,0,1	DZIP1	195	1	NM_198968	exon20	c.C2206T	p.P736S	GCTTGGGAGAATC	.	PASS	Atlas-SNP
MMP26	56547	hgsc.bcm.edu	37	11	5010905	5010905	+	Missense_Mutation	SNP	A	A	G	rs2499953	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	24	35	0	0.6	0	A|0.858;G|0.142	0.142	strong	.	MMP26	49	.	NM_021801	exon2	c.A127G	p.K43E	CTGACCAAGAAGG	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102108532	102108532	+	Silent	SNP	G	G	A	rs73189880	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	59	101	0	0.513043	0	G|0.901;A|0.099	0.099	strong	LRWD1,NS,carcinoma,0,1	LRWD1	41	1	NM_152892	exon6	c.G702A	p.R234R	GAAACGGCCAGAC	.	PASS	Atlas-SNP
SCAPER	49855	hgsc.bcm.edu	37	15	76726465	76726465	+	Missense_Mutation	SNP	G	G	T	rs1607017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	136	112	0	1	0	G|0.674;T|0.326	0.326	strong	.	SCAPER	160	.	NM_020843	exon25	c.C3265A	p.P1089T	GTGAGGGTTTGTT	.	PASS	Atlas-SNP
NKIRAS1	28512	hgsc.bcm.edu	37	3	23934772	23934772	+	Silent	SNP	G	G	A	rs3762775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	104	134	0	0.615385	0	G|0.868;A|0.132	0.132	strong	.	NKIRAS1	18	.	NM_020345	exon5	c.C393T	p.D131D	TTCAGCGTCCACT	.	PASS	Atlas-SNP
ANXA13	312	hgsc.bcm.edu	37	8	124710729	124710729	+	Missense_Mutation	SNP	C	C	T	rs2294013	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	51	106	0	0.495146	0	C|0.733;T|0.267	0.267	strong	.	ANXA13	38	.	NM_001003954	exon5	c.G380A	p.R127H	CTGGGACGGTCCA	.	PASS	Atlas-SNP
MEFV	4210	hgsc.bcm.edu	37	16	3293880	3293880	+	Missense_Mutation	SNP	A	A	G	rs11466045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	36	74	0	0.428571	0	A|0.990;G|0.010	0.010	strong	.	MEFV	170	.	NM_000243	exon9	c.T1772C	p.I591T	GCGCCAATCAGCT	.	PASS	Atlas-SNP
OR10Z1	128368	hgsc.bcm.edu	37	1	158577167	158577167	+	Silent	SNP	A	A	T	rs2427808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	53	77	0	0.602273	0	A|0.898;T|0.102	0.102	strong	.	OR10Z1	99	.	NM_001004478	exon1	c.A939T	p.G313G	TAAAGGATGAAGG	.	PASS	Atlas-SNP
EFCAB6	64800	hgsc.bcm.edu	37	22	44079645	44079645	+	Silent	SNP	T	T	C	rs8141450	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	69	152	1	0.463087	0.00657895	T|0.909;C|0.091	0.091	strong	EFCAB6,NS,carcinoma,0,1	EFCAB6	177	1	NM_022785	exon12	c.A1233G	p.A411A	CAGTAATGCTTTC	.	scavenged	Atlas-SNP
PSMD3	5709	hgsc.bcm.edu	37	17	38137364	38137364	+	Silent	SNP	G	G	A	rs3087852	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	56	66	0	0.583333	0	G|0.491;A|0.509	0.509	strong	.	PSMD3	56	.	NM_002809	exon1	c.G141A	p.S47S	CGGGTCGACGGGG	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	37	8	77616519	77616519	+	Missense_Mutation	SNP	G	G	C	rs56261025	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	41	96	0	0.525641	0	A|0.002;C|0.025;G|0.973	0.025	strong	.	ZFHX4	878	.	NM_024721	exon2	c.G196C	p.V66L	TTCAGCGTTGAGA	.	PASS	Atlas-SNP
LCLAT1	253558	hgsc.bcm.edu	37	2	30863108	30863108	+	Missense_Mutation	SNP	A	A	G	rs12471868	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	65	135	0	0.515873	0	A|0.870;G|0.130	0.130	strong	.	LCLAT1	51	.	NM_182551	exon7	c.A868G	p.I290V	TATCCAATAGACA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152277717	152277717	+	Silent	SNP	C	C	A	rs9436066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	117	209	0	0.570732	0	C|0.695;A|0.305	0.305	strong	.	FLG	900	.	NM_002016	exon3	c.G9645T	p.V3215V	CTGGCTCACACTG	.	PASS	Atlas-SNP
CCDC61	729440	hgsc.bcm.edu	37	19	46518651	46518651	+	Missense_Mutation	SNP	A	A	G	rs7895	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	12	41	0	0.545455	0	A|0.897;G|0.103	0.103	strong	.	CCDC61	32	.	NM_001267723	exon7	c.A811G	p.T271A	CTGAAGACGCTGA	.	PASS	Atlas-SNP
SLFN13	146857	hgsc.bcm.edu	37	17	33768199	33768199	+	Silent	SNP	G	G	A	rs56321651		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	52	85	0	0.547368	0	.	.	weak	SLFN13,NS,carcinoma,0,1	SLFN13	79	1	NM_144682	exon6	c.C2109T	p.D703D	AAAGTAGTCCAGA	.	PASS	Atlas-SNP
SIRPB1	10326	hgsc.bcm.edu	37	20	1600524	1600524	+	Missense_Mutation	SNP	T	T	C	rs1535882	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	21	56	0	0.456522	0	T|0.729;C|0.271	0.271	strong	SIRPB1_ENST00000279477,NS,adenoma,0,2	SIRPB1	83	2	NM_001083910	exon1	c.A67G	p.R23G	TGAGTCTCCCCAG	.	PASS	Atlas-SNP
KLHL21	9903	hgsc.bcm.edu	37	1	6659505	6659505	+	Silent	SNP	G	G	A	rs2232460	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	50	1	0.471698	0.02	G|0.689;A|0.311	0.311	strong	KLHL21,NS,carcinoma,0,1	KLHL21	27	1	NM_014851	exon2	c.C1029T	p.S343S	GCCATCGGACCCA	.	scavenged	Atlas-SNP
PECR	55825	hgsc.bcm.edu	37	2	216923679	216923679	+	Missense_Mutation	SNP	C	C	T	rs1429148	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	76	113	0	0.513514	0	C|0.862;T|0.138	0.138	strong	.	PECR	22	.	NM_018441	exon4	c.G445A	p.E149K	CATGCTCTTTCAT	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48313510	48313510	+	Missense_Mutation	SNP	A	A	G	rs17547830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	143	90	0	1	0	A|0.781;G|0.219	0.219	strong	.	ABCA13	1192	.	NM_152701	exon17	c.A4247G	p.H1416R	AAGGTCATCTTCA	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	370244	370244	+	Silent	SNP	A	A	G	rs913703	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	51	100	0	0.463636	0	A|0.770;G|0.230	0.230	strong	.	DOCK8	401	.	NM_203447	exon16	c.A1812G	p.K604K	TGGAAAATCCAGC	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169512120	169512120	+	Silent	SNP	G	G	A	rs6016	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	99	146	0	0.607362	0	G|0.758;A|0.242	0.242	strong	.	F5	301	.	NM_000130	exon13	c.C2208T	p.I736I	TGACCTGATTCCT	.	PASS	Atlas-SNP
ERGIC3	51614	hgsc.bcm.edu	37	20	34144746	34144746	+	Silent	SNP	A	A	G	rs8825	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	100	0	0.493827	0	A|0.855;G|0.145	0.145	strong	.	ERGIC3	41	.	NM_198398	exon12	c.A897G	p.V299V	CCAGGTACTGAGG	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5427652	5427652	+	Silent	SNP	G	G	A	rs4720623	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	23	52	0	0.25	0	G|0.633;A|0.367	0.367	strong	.	TNRC18	311	.	NM_001080495	exon5	c.C1803T	p.A601A	GCGCACGGCCACG	.	PASS	Atlas-SNP
ZNF8	7554	hgsc.bcm.edu	37	19	58806083	58806083	+	Silent	SNP	T	T	C	rs260471	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	28	51	0	0.528302	0	T|0.652;C|0.348	0.348	strong	.	ZNF8	60	.	NM_021089	exon4	c.T909C	p.H303H	CCAGCATGAGCGC	.	PASS	Atlas-SNP
DNAJB6	10049	hgsc.bcm.edu	37	7	157202683	157202683	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	13	17	0	0.464286	0	.	.	none	.	DNAJB6	39	.	NM_058246	exon9	c.G886A	p.A296T	CCCCTCGCGTCCG	.	PASS	Atlas-SNP
OR4C46	119749	hgsc.bcm.edu	37	11	51515912	51515912	+	Missense_Mutation	SNP	C	C	T	rs77689730	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	50	111	0	0.442478	0	C|0.864;T|0.136	0.136	strong	OR4C46,NS,carcinoma,-2,1	OR4C46	96	1	NM_001004703	exon1	c.C631T	p.L211F	TTTGCCCTCCTGC	.	PASS	Atlas-SNP
CCDC14	64770	hgsc.bcm.edu	37	3	123634046	123634046	+	Silent	SNP	G	G	A	rs2700373	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	149	102	0	0.993333	0	G|0.166;A|0.834	0.834	strong	.	CCDC14	97	.	NM_022757	exon12	c.C2319T	p.S773S	AAGTCCGCTGTTG	.	PASS	Atlas-SNP
KRI1	65095	hgsc.bcm.edu	37	19	10676423	10676423	+	Silent	SNP	G	G	A	rs3745245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	19	31	0	1	0	G|0.330;A|0.670	0.670	strong	KRI1,rectum,carcinoma,0,1	KRI1	65	1	NM_023008	exon2	c.C156T	p.S52S	CTCGGAGCTGGAG	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159650978	159650978	+	Missense_Mutation	SNP	A	A	G	rs509648	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	34	95	0	0.447368	0	A|0.529;G|0.471	0.471	strong	.	FNDC1	250	.	NM_032532	exon10	c.A1312G	p.T438A	CGGGCCACAAACA	.	PASS	Atlas-SNP
TYRO3	7301	hgsc.bcm.edu	37	15	41857303	41857303	+	Silent	SNP	T	T	C	rs2277536	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	19	52	0	0.44186	0	T|0.736;C|0.264	0.264	strong	.	TYRO3	169	.	NM_006293	exon6	c.T747C	p.A249A	AGGTGCTGATGGC	.	PASS	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102265815	102265815	+	Silent	SNP	A	A	G	rs2295773	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	36	75	0	0.48	0	A|0.807;G|0.193	0.193	strong	SEC31B,colon,carcinoma,-2,1	SEC31B	84	1	NM_015490	exon9	c.T1026C	p.H342H	TCTCATATGCTGG	.	PASS	Atlas-SNP
SLC12A9	56996	hgsc.bcm.edu	37	7	100454796	100454796	+	Missense_Mutation	SNP	G	G	A	rs143666254	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	21	36	0	0.477273	0	G|0.996;A|0.004	0.004	strong	.	SLC12A9	81	.	NM_001267812	exon5	c.G755A	p.G252D	ACTTGGGCGGTGA	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43819139	43819139	+	Silent	SNP	A	A	G	rs17031095	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	40	98	0	0.425532	0	A|0.886;G|0.114	0.114	strong	.	THADA	131	.	NM_001083953	exon3	c.T123C	p.H41H	CACACAATGTAAC	.	PASS	Atlas-SNP
PLEKHA1	59338	hgsc.bcm.edu	37	10	124189197	124189197	+	Missense_Mutation	SNP	A	A	G	rs1045216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	99	84	0	0.980198	0	A|0.314;G|0.686	0.686	strong	.	PLEKHA1	33	.	NM_021622	exon12	c.A958G	p.T320A	GCAGCCACCGCCA	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3150898	3150898	+	Silent	SNP	C	C	T	rs11251721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	52	122	0	0.485981	0	C|0.826;T|0.174	0.174	strong	.	PFKP	182	.	NM_002627	exon9	c.C876T	p.V292V	GCTTGTCGTCACG	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100677409	100677409	+	Silent	SNP	G	G	A	rs150735476	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	4	45	1	0.0816327	0.0222222	G|0.957;A|0.043	0.043	strong	MUC17,NS,carcinoma,+1,1	MUC17	804	1	NM_001040105	exon3	c.G2712A	p.S904S	CCGTTCGTCTCCT	.	scavenged	Atlas-SNP
SCYL2	55681	hgsc.bcm.edu	37	12	100708367	100708367	+	Missense_Mutation	SNP	C	C	T	rs33968174	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	224	102	266	0	0.455357	0	C|0.924;T|0.076	0.076	strong	.	SCYL2	99	.	NM_017988	exon8	c.C1070T	p.P357L	GACTGCCAAAGGT	.	PASS	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102269085	102269085	+	Missense_Mutation	SNP	C	C	A	rs3793706	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	61	115	0	0.484127	0	C|0.796;A|0.204	0.204	strong	.	SEC31B	84	.	NM_015490	exon4	c.G387T	p.L129F	AGGATTCAAGTCG	.	PASS	Atlas-SNP
IL1RAP	3556	hgsc.bcm.edu	37	3	190363594	190363594	+	Silent	SNP	G	G	A	rs34879831	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	59	101	0	0.457364	0	G|0.811;A|0.189	0.189	strong	.	IL1RAP	96	.	NM_001167929	exon10	c.G1308A	p.K436K	ATACAAGCTGTGC	.	PASS	Atlas-SNP
KRTAP5-10	387273	hgsc.bcm.edu	37	11	71276909	71276909	+	Silent	SNP	G	G	A	rs12289712	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	8	53	0	0.148148	0	A|0.153;G|0.847	0.153	strong	KRTAP5-10,rectum,carcinoma,0,3	KRTAP5-10	37	3	NM_001012710	exon1	c.G276A	p.G92G	CAAGGGGGGCTGT	.	PASS	Atlas-SNP
UCP2	7351	hgsc.bcm.edu	37	11	73689104	73689104	+	Missense_Mutation	SNP	G	G	A	rs660339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	44	0	0.454545	0	G|0.573;T|0.004	.	strong	.	UCP2	24	.	NM_003355	exon4	c.C164T	p.A55V	GCGCTGGCTGTAG	.	PASS	Atlas-SNP
DNAJC11	55735	hgsc.bcm.edu	37	1	6705944	6705944	+	Missense_Mutation	SNP	C	C	T	rs12137794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	56	104	0	0.466667	0	C|0.951;T|0.049	0.049	strong	.	DNAJC11	93	.	NM_018198	exon8	c.G799A	p.V267M	AGCCCACGGTGTT	.	PASS	Atlas-SNP
BRD8	10902	hgsc.bcm.edu	37	5	137500665	137500665	+	Missense_Mutation	SNP	G	G	A	rs11750814	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	311	141	325	0	0.453376	0	G|0.879;A|0.121	0.121	strong	.	BRD8	192	.	NM_006696	exon13	c.C1688T	p.T563M	TTTTCCGTTTCCT	.	PASS	Atlas-SNP
USP4	7375	hgsc.bcm.edu	37	3	49343175	49343175	+	Silent	SNP	G	G	A	rs2230929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	114	140	0	0.616216	0	G|0.864;C|0.000;A|0.136	0.136	strong	USP4,NS,carcinoma,0,1	USP4	72	1	NM_003363	exon9	c.C1101T	p.D367D	ATGGGCGTCCCTT	.	PASS	Atlas-SNP
TCF7	6932	hgsc.bcm.edu	37	5	133477951	133477951	+	Silent	SNP	G	G	A	rs34995273	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	19	69	0	0.339286	0	G|0.991;A|0.009	0.009	strong	.	TCF7	81	.	NM_003202	exon6	c.G711A	p.V237V	CATTGTGCCCCCC	.	PASS	Atlas-SNP
ANO8	57719	hgsc.bcm.edu	37	19	17439320	17439320	+	Missense_Mutation	SNP	C	C	T	rs76655932	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	7	7	3	0	1	0	C|0.940;T|0.060	0.060	strong	.	ANO8	67	.	NM_020959	exon13	c.G1877A	p.R626Q	CGACGCCGCCCCG	.	PASS	Atlas-SNP
PTPN12	5782	hgsc.bcm.edu	37	7	77247821	77247821	+	Missense_Mutation	SNP	G	G	A	rs9640663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	31	23	1	0.756098	0.0434783	G|0.277;A|0.722	0.722	strong	PTPN12,rectum,carcinoma,0,1	PTPN12	83	1	NM_002835	exon12	c.G964A	p.V322I	AACATGGTCAGCT	.	scavenged	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	390512	390512	+	Silent	SNP	C	C	T	rs2297075	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	258	152	252	1	0.589147	0.00396825	C|0.729;T|0.271	0.271	strong	DOCK8_ENST00000453981,NS,adenoma,0,2	DOCK8	401	2	NM_203447	exon24	c.C2916T	p.T972T	CAGCACCGGAATG	.	PASS	Atlas-SNP
INSR	3643	hgsc.bcm.edu	37	19	7125297	7125297	+	Silent	SNP	G	G	A	rs1799817	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	13	23	0	0.419355	0	G|0.771;A|0.229	0.229	strong	.	INSR	265	.	NM_000208	exon17	c.C3255T	p.H1085H	CACCACGTGATGG	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129903802	129903802	+	Missense_Mutation	SNP	A	A	G	rs11016073	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	371	189	348	1	0.509434	0.00287356	A|0.842;G|0.158	0.158	strong	MKI67,NS,carcinoma,+1,1	MKI67	363	1	NM_002417	exon13	c.T6302C	p.I2101T	CAGGCTATTTTGG	.	PASS	Atlas-SNP
SLC39A12	221074	hgsc.bcm.edu	37	10	18280214	18280214	+	Silent	SNP	T	T	A	rs59434947	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	18	39	0	0.666667	0	T|0.888;A|0.112	0.112	strong	.	SLC39A12	181	.	NM_152725	exon8	c.T1404A	p.L468L	TCTTCTTGTATCA	.	PASS	Atlas-SNP
SEC14L5	9717	hgsc.bcm.edu	37	16	5061113	5061113	+	Silent	SNP	G	G	A	rs116849014	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	26	65	0	0.472727	0	G|0.990;A|0.010	0.010	strong	.	SEC14L5	79	.	NM_014692	exon15	c.G1818A	p.R606R	GACCCGGTGGCCC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548544	32548544	+	Missense_Mutation	SNP	T	T	G	rs199873800	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	277	28	213	0	0.101083	0	T|0.954;G|0.046	0.046	strong	HLA-DRB1,NS,haematopoietic_neoplasm,0,1	HLA-DRB1	41	1	NM_002124	exon4	c.A742C	p.I248L	AGTAGATGAACAG	.	PASS	Atlas-SNP
RUFY4	285180	hgsc.bcm.edu	37	2	218940418	218940418	+	Silent	SNP	C	C	T	rs4674246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	97	190	1	0.530055	0.00526316	C|0.836;T|0.164	0.164	strong	.	RUFY4	59	.	NM_198483	exon9	c.C1203T	p.A401A	TGTGGCCAGAAGG	.	PASS	Atlas-SNP
SPATA21	374955	hgsc.bcm.edu	37	1	16736327	16736327	+	Missense_Mutation	SNP	G	G	A	rs41269197	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	36	48	0	0.428571	0	G|0.960;A|0.040	0.040	strong	.	SPATA21	47	.	NM_198546	exon6	c.C356T	p.P119L	GGCACCGGGGTCA	.	PASS	Atlas-SNP
PGLYRP4	57115	hgsc.bcm.edu	37	1	153320401	153320401	+	Missense_Mutation	SNP	G	G	A	rs12096209	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	68	103	0	0.465753	0	G|0.905;A|0.095	0.095	strong	.	PGLYRP4	45	.	NM_020393	exon2	c.C8T	p.P3L	AGCCACGGCAGCA	.	PASS	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	37	2	207170026	207170026	+	Silent	SNP	T	T	C	rs77622365	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	67	160	0	0.452703	0	T|0.979;C|0.021	0.021	strong	.	ZDBF2	531	.	NM_020923	exon5	c.T774C	p.N258N	ATCAAATAGGAAA	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21245813	21245813	+	Silent	SNP	G	G	A	rs1801700	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	56	113	0	0.411765	0	G|0.970;A|0.030	0.030	strong	.	APOB	761	.	NM_000384	exon18	c.C2706T	p.N902N	GTTGGTGTTCATC	.	PASS	Atlas-SNP
OSGIN1	29948	hgsc.bcm.edu	37	16	83999261	83999261	+	Silent	SNP	C	C	A	rs35132222	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	80	173	0	0.487805	0	C|0.902;A|0.098	0.098	strong	OSGIN1,colon,carcinoma,+2,1	OSGIN1	33	1	NM_182981	exon6	c.C1083A	p.L361L	CAGCCTCCCCAGG	.	PASS	Atlas-SNP
OR7G2	390882	hgsc.bcm.edu	37	19	9213026	9213026	+	Silent	SNP	T	T	C	rs4804400	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	111	147	0	1	0	T|0.687;C|0.313	0.313	strong	.	OR7G2	48	.	NM_001005193	exon1	c.A957G	p.K319K	GGTTCCTTTCATG	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207646322	207646322	+	Silent	SNP	G	G	A	rs1048971	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	36	112	0	0.395604	0	G|0.556;A|0.444	0.444	strong	.	CR2	164	.	NM_001006658	exon10	c.G1776A	p.L592L	TCCCCTGTGTAAA	.	PASS	Atlas-SNP
RNF215	200312	hgsc.bcm.edu	37	22	30782731	30782731	+	Silent	SNP	G	G	A	rs12171261	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	12	26	0	0.571429	0	G|0.810;A|0.190	0.190	strong	.	RNF215	19	.	NM_001017981	exon2	c.C303T	p.A101A	CTGCTCGGCATCC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629904	32629904	+	Silent	SNP	A	A	G	rs1049086	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	37	117	1	0.948718	0.00854701	A|0.394;G|0.606	0.606	strong	.	HLA-DQB1	15	.	NM_002123	exon3	c.T501C	p.D167D	CTCCTGATCATTC	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46657261	46657261	+	Silent	SNP	A	A	G	rs6007747	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	34	40	0	0.607143	0	A|0.721;G|0.279	0.279	strong	.	PKDREJ	195	.	NM_006071	exon1	c.T1959C	p.D653D	TAGAGAATCATAG	.	PASS	Atlas-SNP
CBWD6	644019	hgsc.bcm.edu	37	9	69256816	69256816	+	Silent	SNP	G	G	A	rs62557779	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	2037	309	1003	1	0.151694	0.000997009	G|0.525;A|0.475	0.475	strong	.	CBWD6	19	.	NM_001085457	exon3	c.C315T	p.N105N	GCAACCGTTTCTA	.	PASS	Atlas-SNP
C10orf118	55088	hgsc.bcm.edu	37	10	115922774	115922774	+	Missense_Mutation	SNP	G	G	A	rs1061159	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	73	168	0	0.489933	0	G|0.762;N|0.000	.	strong	.	C10orf118	70	.	NM_018017	exon2	c.C254T	p.T85I	GAGCCTGTGTCTG	.	PASS	Atlas-SNP
KCNV2	169522	hgsc.bcm.edu	37	9	2718534	2718534	+	Silent	SNP	C	C	G	rs12237048	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	42	86	1	0.407767	0.0116279	C|0.535;G|0.465	0.465	strong	KCNV2,NS,carcinoma,0,2	KCNV2	72	2	NM_133497	exon1	c.C795G	p.A265A	GGTGGCCTCCAGC	.	scavenged	Atlas-SNP
AGMAT	79814	hgsc.bcm.edu	37	1	15909850	15909850	+	Missense_Mutation	SNP	C	C	G	rs6429757	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	65	71	0	1	0	C|0.348;G|0.652	0.652	strong	.	AGMAT	25	.	NM_024758	exon2	c.G313C	p.G105R	CTGTCCCAAGCAT	.	PASS	Atlas-SNP
ZNF835	90485	hgsc.bcm.edu	37	19	57176304	57176304	+	Missense_Mutation	SNP	T	T	G	rs12460400	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	31	72	0	0.492063	0	T|0.628;G|0.372	0.372	strong	.	ZNF835	106	.	NM_001005850	exon2	c.A263C	p.E88A	GGGCTCTCCCCAG	.	PASS	Atlas-SNP
CLEC3B	7123	hgsc.bcm.edu	37	3	45077123	45077123	+	Missense_Mutation	SNP	G	G	A	rs13963	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	68	85	0	0.576271	0	G|0.539;A|0.461	0.461	strong	.	CLEC3B	15	.	NM_003278	exon3	c.G316A	p.G106S	ACCCTGGGCACCC	.	PASS	Atlas-SNP
DOLK	22845	hgsc.bcm.edu	37	9	131708710	131708710	+	Silent	SNP	G	G	A	rs148646968	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	36	70	0	0.486486	0	G|1.000;A|0.000	0.000	strong	DOLK,colon,carcinoma,-2,1	DOLK	39	1	NM_014908	exon1	c.C873T	p.L291L	CTGGAAGAGAAAC	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158584091	158584091	+	Missense_Mutation	SNP	A	A	G	rs952094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	36	145	0	0.268657	0	A|0.461;G|0.539	0.539	strong	.	SPTA1	720	.	NM_003126	exon49	c.T6794C	p.I2265T	CCTTTGATGTCCC	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20837701	20837701	+	Missense_Mutation	SNP	G	G	C	rs938886	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	243	115	231	0	0.473251	0	G|0.702;C|0.297	0.297	strong	.	TEP1	224	.	NM_007110	exon53	c.C7458G	p.I2486M	CCATAGGATCCCA	.	PASS	Atlas-SNP
OR8U1	219417	hgsc.bcm.edu	37	11	56143966	56143966	+	Silent	SNP	C	C	T	rs12291978	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	34	73	0	0.586207	0	C|0.738;T|0.262	0.262	strong	.	OR8U1	59	.	NM_001005204	exon1	c.C867T	p.I289I	CTTAATCTATAGC	.	PASS	Atlas-SNP
DRD5	1816	hgsc.bcm.edu	37	4	9784853	9784853	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	4	130	0	0.0283688	0	.	.	none	DRD5,NS,carcinoma,0,2	DRD5	119	2	NM_000798	exon1	c.C1200G	p.I400M	AGACATCGTCTTC	.	scavenged	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	37	6	43008298	43008298	+	Silent	SNP	C	C	T	rs2273917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	38	78	0	0.59375	0	C|0.709;T|0.291	0.291	strong	.	CUL7	133	.	NM_001168370	exon21	c.G4245A	p.L1415L	CAGCTTCAGGAGT	.	PASS	Atlas-SNP
ZNF311	282890	hgsc.bcm.edu	37	6	28963248	28963248	+	Missense_Mutation	SNP	T	T	G	rs6456880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	43	107	0	0.530864	0	G|0.602;N|0.000	0.602	strong	ZNF311,colon,carcinoma,0,2	ZNF311	59	2	NM_001010877	exon7	c.A1531C	p.K511Q	AGTGCTTATCTTG	.	PASS	Atlas-SNP
SLC39A4	55630	hgsc.bcm.edu	37	8	145641328	145641328	+	Missense_Mutation	SNP	C	C	T	rs17855765	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	18	28	0	0.514286	0	C|0.574;T|0.426	0.426	strong	SLC39A4_ENST00000276833,NS,carcinoma,0,2	SLC39A4	54	2	NM_130849	exon2	c.G340A	p.A114T	CCCGAGCGTCCTC	.	PASS	Atlas-SNP
FBN2	2201	hgsc.bcm.edu	37	5	127680130	127680130	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	31	86	0	0.430556	0	.	.	none	.	FBN2	858	.	NM_001999	exon25	c.A3290C	p.K1097T	CGGCATTTGAAGC	.	PASS	Atlas-SNP
SNPH	9751	hgsc.bcm.edu	37	20	1285933	1285933	+	Silent	SNP	G	G	A	rs3795139	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	39	72	0	0.4875	0	G|0.650;A|0.350	0.350	strong	.	SNPH	89	.	NM_014723	exon6	c.G720A	p.G240G	GGATGGGGCAGAC	.	PASS	Atlas-SNP
MEP1A	4224	hgsc.bcm.edu	37	6	46793175	46793175	+	Silent	SNP	G	G	A	rs6920863	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	144	154	1	0.986301	0.00649351	G|0.598;A|0.402	0.402	strong	.	MEP1A	93	.	NM_005588	exon8	c.G723A	p.Q241Q	CGGACAGCGCCTG	.	PASS	Atlas-SNP
NCR3	259197	hgsc.bcm.edu	37	6	31557640	31557640	+	Missense_Mutation	SNP	C	C	T	rs11575840	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	41	76	0	0.482353	0	C|0.982;T|0.018	0.018	strong	.	NCR3	21	.	NM_001145466	exon2	c.G307A	p.A103T	TGCTGGCGTCATG	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52876385	52876385	+	Missense_Mutation	SNP	G	G	A	rs14048	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	25	75	0	0.328947	0	G|0.941;A|0.059	0.059	strong	.	ZNF880	45	.	NM_001145434	exon2	c.G34A	p.V12M	AGGGACGTGGCCA	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74196686	74196686	+	Silent	SNP	T	T	C	rs2075025	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	21	37	0	0.477273	0	T|0.490;C|0.510	0.510	strong	.	.	.	.	NM_194278	exon4	c.A1752G	p.A584A	GTCCTCTGCCTGG	.	PASS	Atlas-SNP
MPHOSPH10	10199	hgsc.bcm.edu	37	2	71360625	71360625	+	Missense_Mutation	SNP	G	G	T	rs1813160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	252	121	246	0	0.480159	0	G|0.673;T|0.327	0.327	strong	.	MPHOSPH10	81	.	NM_005791	exon2	c.G687T	p.E229D	TGATGAGGAGGAG	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419695	28419695	+	Silent	SNP	T	T	C	rs149592795	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	401	80	292	0	0.199501	0	T|0.915;C|0.085	0.085	strong	HERC2,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	HERC2	501	1	NM_004667	exon65	c.A9903G	p.T3301T	CACGAGTGTGGGC	.	PASS	Atlas-SNP
FLVCR1	28982	hgsc.bcm.edu	37	1	213068595	213068595	+	Missense_Mutation	SNP	C	C	T	rs3207090	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	43	107	0	0.377193	0	C|0.616;T|0.384	0.384	strong	FLVCR1,rectum,carcinoma,0,2	FLVCR1	31	2	NM_014053	exon10	c.C1631T	p.T544M	CAAAAACGGTTAT	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152187276	152187276	+	Missense_Mutation	SNP	C	C	T	rs199952550	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	364	38	380	1	0.104396	0.00263158	C|0.993;T|0.007	0.007	strong	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.G6829A	p.G2277S	GCTGACCGTGGCT	.	scavenged	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	936230	936230	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	17	87	0	0.182796	0	.	.	none	.	WNK1	403	.	NM_001184985	exon3	c.A955T	p.M319L	AAAGTGATGAAGA	.	PASS	Atlas-SNP
MED16	10025	hgsc.bcm.edu	37	19	868115	868115	+	Missense_Mutation	SNP	C	C	T	rs13090	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	20	36	0	0.454545	0	C|0.702;T|0.298	0.298	strong	MED16,NS,carcinoma,0,1	MED16	61	1	NM_005481	exon16	c.G2620A	p.E874K	GGTCCTCTGGATG	.	PASS	Atlas-SNP
SPEF2	79925	hgsc.bcm.edu	37	5	35646784	35646784	+	Missense_Mutation	SNP	A	A	G	rs80010329	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	73	227	0	0.424419	0	A|0.995;G|0.005	0.005	strong	.	SPEF2	324	.	NM_024867	exon5	c.A601G	p.R201G	AACAGAAGACGAC	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61831984	61831984	+	Missense_Mutation	SNP	G	G	T	rs11599164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	94	117	0	0.989474	0	G|0.934;T|0.066	0.066	strong	.	ANK3	703	.	NM_020987	exon37	c.C8655A	p.H2885Q	CTCAGGGTGACCA	.	PASS	Atlas-SNP
USP30	84749	hgsc.bcm.edu	37	12	109520769	109520769	+	Missense_Mutation	SNP	A	A	G	rs16939904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	28	78	0	0.509091	0	A|0.928;G|0.072	0.072	strong	.	USP30	48	.	NM_032663	exon11	c.A1070G	p.H357R	AGTACCACCTCCT	.	PASS	Atlas-SNP
STRADB	55437	hgsc.bcm.edu	37	2	202342402	202342402	+	Silent	SNP	G	G	T	rs3175787	byfrequency;bysubmitter	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	226	216	188	0	0.955752	0	G|0.513;T|0.487	0.487	strong	.	STRADB	33	.	NM_001206864	exon8	c.G609T	p.L203L	TGGCCTGTCCCAT	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71163693	71163693	+	Silent	SNP	A	A	G	rs4788770	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	53	121	0	0.410853	0	A|0.625;G|0.375	0.375	strong	.	HYDIN	788	.	NM_001198542	exon9	c.T1158C	p.D386D	AGTCTCATCCTTC	.	PASS	Atlas-SNP
HDGFL1	154150	hgsc.bcm.edu	37	6	22570064	22570064	+	Missense_Mutation	SNP	C	C	T	rs2076506	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	10	18	0	0.526316	0	C|0.862;T|0.138	0.138	strong	.	HDGFL1	33	.	NM_138574	exon1	c.C260T	p.T87M	ACCCCACGGTCCA	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14859356	14859356	+	Silent	SNP	T	T	C	rs10961757	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	64	105	0	0.528926	0	T|0.752;C|0.248	0.248	strong	.	FREM1	261	.	NM_144966	exon5	c.A456G	p.Q152Q	AATCGCTTGGGAC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9077060	9077060	+	Silent	SNP	C	C	T	rs2591596	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	36	98	0	0.439024	0	C|0.743;T|0.257	0.257	strong	.	MUC16	4315	.	NM_024690	exon3	c.G10386A	p.V3462V	CAGAGACACTAGT	.	PASS	Atlas-SNP
AGMAT	79814	hgsc.bcm.edu	37	1	15904318	15904318	+	Silent	SNP	C	C	T	rs11544523	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	89	68	0	0.988889	0	C|0.729;T|0.271	0.271	strong	.	AGMAT	25	.	NM_024758	exon5	c.G762A	p.S254S	AACCAGCGACTTC	.	PASS	Atlas-SNP
DMRT2	10655	hgsc.bcm.edu	37	9	1056728	1056728	+	Missense_Mutation	SNP	G	G	C	rs3824419	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	25	60	0	0.423729	0	G|0.685;C|0.315	0.315	strong	DMRT2_ENST00000302441,NS,carcinoma,0,2	DMRT2	70	2	NM_181872	exon4	c.G1141C	p.A381P	AAGGGAGCACGAG	.	PASS	Atlas-SNP
NT5DC3	51559	hgsc.bcm.edu	37	12	104171742	104171742	+	Silent	SNP	C	C	T	rs17034524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	43	115	0	0.581081	0	C|0.815;T|0.185	0.185	strong	NT5DC3,NS,carcinoma,0,1	NT5DC3	113	1	NM_001031701	exon14	c.G1512A	p.L504L	GCAGCTCAGAGAC	.	PASS	Atlas-SNP
C22orf42	150297	hgsc.bcm.edu	37	22	32554996	32554996	+	Silent	SNP	C	C	T	rs12160688	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	92	197	0	0.420091	0	C|0.930;T|0.070	0.070	strong	C22orf42,NS,carcinoma,-2,1	C22orf42	37	1	NM_001010859	exon1	c.G207A	p.T69T	CTTCGGCGTCTTC	.	PASS	Atlas-SNP
KRTAP2-4	85294	hgsc.bcm.edu	37	17	39221816	39221816	+	Nonsense_Mutation	SNP	C	C	T	rs200049107		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	4	10	0	0.235294	0	.	.	weak	KRTAP2-4,trunk,malignant_melanoma,0,1	KRTAP2-4	2	1	NM_033184	exon1	c.G282A	p.W94X	GGTGGCCCAGCAG	.	scavenged	Atlas-SNP
POLE2	5427	hgsc.bcm.edu	37	14	50131846	50131846	+	Silent	SNP	G	G	T	rs3218791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	50	131	0	0.485437	0	G|0.766;T|0.234	0.234	strong	.	POLE2	36	.	NM_001197331	exon8	c.C612A	p.V204V	TAGTTGGACTGTT	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	37	6	170871061	170871061	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	7	40	0	0.194444	0	.	.	none	TBP,caecum,carcinoma,0,5	TBP	58	5	NM_003194	exon3	c.G237A	p.Q79Q	GCAGCAGCAGCAG	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970951	151970951	+	Missense_Mutation	SNP	C	C	T	rs2951027	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	14	156	1	0.0848485	0.00641026	C|0.750;T|0.250	0.250	strong	MLL3_ENST00000355193,NS,carcinoma,0,12	MLL3	1564	12	NM_170606	exon7	c.G851A	p.R284Q	GCACATCGCTGAA	.	scavenged	Atlas-SNP
MON2	23041	hgsc.bcm.edu	37	12	62979216	62979216	+	Silent	SNP	G	G	A	rs11174557	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	53	121	0	0.514563	0	G|0.884;A|0.116	0.116	strong	.	MON2	160	.	NM_015026	exon33	c.G4842A	p.R1614R	AAAGAGGTCCCAA	.	PASS	Atlas-SNP
PRKCB	5579	hgsc.bcm.edu	37	16	24202458	24202458	+	Silent	SNP	C	C	T	rs3729904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	40	104	0	0.47619	0	C|0.765;T|0.235	0.235	strong	PRKCB_ENST00000321728,NS,carcinoma,+2,3	PRKCB	383	3	NM_212535	exon16	c.C1770T	p.G590G	TGAAGGCGAACGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9063935	9063935	+	Silent	SNP	G	G	A	rs2252675	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	69	150	0	0.526718	0	G|0.772;A|0.228	0.228	strong	MUC16_ENST00000397910,NS,carcinoma,0,3	MUC16	4315	3	NM_024690	exon3	c.C23511T	p.S7837S	AGAGCCGCTGGAC	.	PASS	Atlas-SNP
GALNT4	8693	hgsc.bcm.edu	37	12	89917518	89917518	+	Missense_Mutation	SNP	A	A	G	rs2230281	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	108	85	0	1	0	G|0.754;N|0.000	0.754	strong	.	GALNT4	38	.	NM_003774	exon1	c.T809C	p.I270T	TCCCCTATCTGCA	.	PASS	Atlas-SNP
DCTD	1635	hgsc.bcm.edu	37	4	183815688	183815688	+	Silent	SNP	A	A	G	rs4742	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	71	144	0	0.446541	0	T|0.125;G|0.280;C|0.062;A|0.534	0.280	strong	.	DCTD	30	.	NM_001012732	exon4	c.T348C	p.V116V	CAAGGCAACATAC	.	PASS	Atlas-SNP
NUDT8	254552	hgsc.bcm.edu	37	11	67395714	67395714	+	Silent	SNP	C	C	T	rs7124513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	11	20	0	0.578947	0	C|0.746;T|0.254	0.254	strong	.	NUDT8	12	.	NM_001243750	exon4	c.G414A	p.E138E	AAACACCTCATCT	.	PASS	Atlas-SNP
ARHGAP20	57569	hgsc.bcm.edu	37	11	110450382	110450382	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	2	77	0	0.0246914	0	.	.	none	ARHGAP20,NS,carcinoma,0,1	ARHGAP20	150	1	NM_020809	exon16	c.G3288A	p.R1096R	AGCTGCCCTTAAG	.	scavenged	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13845045	13845045	+	Silent	SNP	G	G	A	rs10041113	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	33	70	0	0.634615	0	G|0.574;A|0.426	0.426	strong	.	DNAH5	868	.	NM_001369	exon32	c.C5172T	p.A1724A	TAGAAGGGCAGGA	.	PASS	Atlas-SNP
GPR110	266977	hgsc.bcm.edu	37	6	46977277	46977277	+	Silent	SNP	G	G	A	rs16875406	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	84	177	0	0.57931	0	G|0.932;A|0.068	0.068	strong	.	GPR110	102	.	NM_153840	exon11	c.C1894T	p.L632L	GGGACAGGGCTAT	.	PASS	Atlas-SNP
RTEL1	51750	hgsc.bcm.edu	37	20	62293272	62293272	+	Missense_Mutation	SNP	A	A	G	rs3848668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	46	87	0	0.418182	0	A|0.946;G|0.054	0.054	strong	.	RTEL1	114	.	NM_032957	exon4	c.A371G	p.N124S	TCATCAACGAGCT	.	PASS	Atlas-SNP
DENND4C	55667	hgsc.bcm.edu	37	9	19352096	19352096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	19	79	0	0.202128	0	.	.	none	.	DENND4C	120	.	NM_017925	exon24	c.G4374A	p.M1458I	AGGCATGAAAGGG	.	PASS	Atlas-SNP
DSC2	1824	hgsc.bcm.edu	37	18	28673565	28673565	+	Silent	SNP	T	T	C	rs12954874	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	48	55	0	0.648649	0	T|0.885;C|0.115	0.115	strong	.	DSC2	168	.	NM_024422	exon2	c.A111G	p.L37L	AACATGTAATGTC	.	PASS	Atlas-SNP
RRP36	88745	hgsc.bcm.edu	37	6	42992825	42992825	+	Missense_Mutation	SNP	C	C	G	rs3749903	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	89	0	0.523077	0	C|0.705;G|0.295	0.295	strong	.	RRP36	20	.	NM_033112	exon2	c.C233G	p.A78G	AACAAGCTTCTAG	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373964	27373964	+	Missense_Mutation	SNP	T	T	C	rs1805012	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	25	63	0	0.352113	0	T|0.902;C|0.098	0.098	strong	IL4R,lymph_node,lymphoid_neoplasm,0,1	IL4R	70	1	NM_000418	exon11	c.T1291C	p.C431R	GAGTCATGCCTTC	.	PASS	Atlas-SNP
OBSL1	23363	hgsc.bcm.edu	37	2	220420785	220420785	+	Silent	SNP	G	G	A	rs3087971	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	286	136	254	1	0.475524	0.00393701	G|0.730;A|0.270	0.270	strong	.	OBSL1	120	.	NM_001173431	exon14	c.C4566T	p.C1522C	GCTCTCGCAGCCG	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46656479	46656479	+	Missense_Mutation	SNP	A	A	G	rs6519993	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	47	92	0	0.522222	0	A|0.724;G|0.276	0.276	strong	.	PKDREJ	195	.	NM_006071	exon1	c.T2741C	p.L914P	GGAAAGAGGTCAT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9026257	9026257	+	Silent	SNP	G	G	A	rs62118274	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	51	129	0	0.428571	0	G|0.902;A|0.098	0.098	strong	.	MUC16	4315	.	NM_024690	exon14	c.C36729T	p.Y12243Y	CTCCTCGTACTGC	.	PASS	Atlas-SNP
ATP1B2	482	hgsc.bcm.edu	37	17	7557419	7557419	+	Silent	SNP	A	A	G	rs1642763	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	91	126	0	1	0	A|0.209;C|0.004	.	strong	.	ATP1B2	24	.	NM_001678	exon4	c.A396G	p.G132G	CCCTGGACGCTAT	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97852399	97852399	+	Missense_Mutation	SNP	G	G	A	rs11762014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	98	75	0	1	0	G|0.777;A|0.223	0.223	strong	TECPR1,NS,carcinoma,0,1	TECPR1	77	1	NM_015395	exon21	c.C2831T	p.P944L	GCACCCGGGCTCT	.	PASS	Atlas-SNP
ASTE1	28990	hgsc.bcm.edu	37	3	130743812	130743812	+	Silent	SNP	G	G	A	rs35558913	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	78	81	0	0.624	0	G|0.817;A|0.183	0.183	strong	.	ASTE1	67	.	NM_014065	exon3	c.C339T	p.Y113Y	ACATACGTACCCA	.	PASS	Atlas-SNP
THBS4	7060	hgsc.bcm.edu	37	5	79351852	79351852	+	Silent	SNP	A	A	T	rs71594659	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	28	75	0	0.341463	0	ACAGGTAGG|0.500;TCAGGTAAA|0.500	.	alt	THBS4,NS,carcinoma,0,1	THBS4	82	1	NM_003248	exon3	c.A537T	p.P179P	GAAGCCACAGGTA	.	PASS	Atlas-SNP
LRIT2	340745	hgsc.bcm.edu	37	10	85984323	85984323	+	Missense_Mutation	SNP	G	G	A	rs11200925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	43	61	0	0.518072	0	G|0.817;A|0.183	0.183	strong	.	LRIT2	81	.	NM_001017924	exon2	c.C658T	p.L220F	CTGGGAGGGTAAT	.	PASS	Atlas-SNP
CALCOCO1	57658	hgsc.bcm.edu	37	12	54110197	54110197	+	Silent	SNP	A	A	G	rs2277369	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	52	79	0	0.577778	0	A|0.937;G|0.063	0.063	strong	.	CALCOCO1	50	.	NM_020898	exon8	c.T852C	p.A284A	GAGCTCAGCCTGA	.	PASS	Atlas-SNP
ZNF350	59348	hgsc.bcm.edu	37	19	52472295	52472295	+	Silent	SNP	A	A	G	rs4986773	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	59	81	0	0.572816	0	A|0.608;G|0.392	0.392	strong	.	ZNF350	48	.	NM_021632	exon3	c.T105C	p.D35D	CATCACATCCCGG	.	PASS	Atlas-SNP
C5orf45	51149	hgsc.bcm.edu	37	5	179269011	179269011	+	Silent	SNP	G	G	C	rs61736195	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	59	102	0	0.453846	0	G|0.974;C|0.026	0.026	strong	.	C5orf45	23	.	NM_016175	exon5	c.C345G	p.S115S	TTCTTGGGAGTCC	.	PASS	Atlas-SNP
CRTAM	56253	hgsc.bcm.edu	37	11	122742050	122742050	+	Silent	SNP	T	T	C	rs34242434	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	83	130	0	0.538961	0	T|0.878;C|0.122	0.122	strong	.	CRTAM	50	.	NM_019604	exon10	c.T1125C	p.N375N	GGAAAATGTACAA	.	PASS	Atlas-SNP
POMT1	10585	hgsc.bcm.edu	37	9	134386781	134386781	+	Missense_Mutation	SNP	G	G	A	rs4740164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	52	91	0	0.495238	0	G|0.954;A|0.046	0.046	strong	.	POMT1	59	.	NM_007171	exon10	c.G979A	p.V327I	TCCCAGGTCACTC	.	PASS	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27478899	27478899	+	Silent	SNP	A	A	G	rs2029618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	46	71	0	0.38983	0	A|0.867;G|0.133	0.133	strong	.	SLC4A7	119	.	NM_001258379	exon4	c.T396C	p.Y132Y	CCATTCATATTCT	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46787697	46787697	+	Missense_Mutation	SNP	A	A	G	rs6008795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	30	68	0	0.491803	0	A|0.783;G|0.217	0.217	strong	.	CELSR1	242	.	NM_014246	exon15	c.T5981C	p.L1994P	GCTAGGAGCTTGT	.	PASS	Atlas-SNP
NFYC	4802	hgsc.bcm.edu	37	1	41232588	41232588	+	Splice_Site	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	5	63	0	0.0724638	0	.	.	none	.	NFYC	39	.	NM_001142588	exon9	c.829-2A>G	.	TTCTCAAGGGGCA	.	PASS	Atlas-SNP
NUDT9	53343	hgsc.bcm.edu	37	4	88344154	88344154	+	Missense_Mutation	SNP	C	C	A	rs146952902	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	11	40	0	0.275	0	C|0.997;A|0.003	0.003	strong	.	NUDT9	21	.	NM_001248011	exon1	c.C97A	p.Q33K	GGCATCCAGGCGT	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957592	111957592	+	Missense_Mutation	SNP	A	A	G	rs56294468	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	50	124	2	0.420168	0.016129	A|0.767;G|0.233	0.233	strong	OVGP1_ENST00000369728,NS,malignant_melanoma,+1,2	OVGP1	177	2	NM_002557	exon11	c.T1531C	p.S511P	CCACAGAGGTCAG	.	scavenged	Atlas-SNP
RBFA	79863	hgsc.bcm.edu	37	18	77805856	77805856	+	Missense_Mutation	SNP	A	A	C	rs3744872	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	63	92	0	0.605769	0	A|0.688;C|0.312	0.312	strong	.	RBFA	27	.	NM_024805	exon7	c.A733C	p.N245H	GCGCTCAACAAGC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910538	29910538	+	Silent	SNP	C	C	T	rs1136657	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	13	22	0	0.236364	0	C|0.821;T|0.179	0.179	strong	HLA-A,caecum,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon2	c.C78T	p.S26S	AGGCTCCCACTCC	.	PASS	Atlas-SNP
ZNF383	163087	hgsc.bcm.edu	37	19	37733771	37733771	+	Silent	SNP	A	A	C	rs12974332	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	21	38	0	0.477273	0	A|0.967;C|0.033	0.033	strong	.	ZNF383	42	.	NM_152604	exon5	c.A633C	p.S211S	TGGTTCACATGTT	.	PASS	Atlas-SNP
ESYT3	83850	hgsc.bcm.edu	37	3	138191232	138191232	+	Missense_Mutation	SNP	G	G	A	rs10935282	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	30	31	0	0.625	0	G|0.622;A|0.378	0.378	strong	.	ESYT3	64	.	NM_031913	exon18	c.G1768A	p.G590R	GAGCTGGGGAGCC	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	37	4	85612823	85612823	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	25	69	0	0.342466	0	.	.	none	.	WDFY3	314	.	NM_014991	exon60	c.A9165G	p.A3055A	GAGGTCTGCATAG	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104171523	104171523	+	Silent	SNP	A	A	G	rs45455902	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	31	44	0	0.563636	0	A|0.952;G|0.048	0.048	strong	.	ZNF189	79	.	NM_003452	exon3	c.A1473G	p.K491K	TGGGAAAAGCTTC	.	PASS	Atlas-SNP
ZNF773	374928	hgsc.bcm.edu	37	19	58017753	58017753	+	Missense_Mutation	SNP	C	C	A	rs61731281	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	36	71	0	0.5	0	C|0.813;A|0.187	0.187	strong	.	ZNF773	62	.	NM_198542	exon4	c.C290A	p.A97E	CTGAGGCAGCTGC	.	PASS	Atlas-SNP
RARS2	57038	hgsc.bcm.edu	37	6	88240570	88240570	+	Missense_Mutation	SNP	C	C	T	rs35862137	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	54	85	0	0.457627	0	C|0.973;T|0.027	0.027	strong	.	RARS2	61	.	NM_020320	exon9	c.G703A	p.V235M	CTTGCACATCGCC	.	PASS	Atlas-SNP
ADCY7	113	hgsc.bcm.edu	37	16	50342658	50342658	+	Silent	SNP	C	C	T	rs17289102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	17	37	0	0.53125	0	C|0.842;T|0.158	0.158	strong	ADCY7,NS,carcinoma,0,1	ADCY7	90	1	NM_001114	exon16	c.C2016T	p.A672A	CCTGGCCGTCCTG	.	PASS	Atlas-SNP
MUSK	4593	hgsc.bcm.edu	37	9	113457726	113457726	+	Silent	SNP	G	G	A	rs10980531	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	27	82	0	0.346154	0	G|0.813;A|0.187	0.187	strong	.	MUSK	112	.	NM_001166281	exon4	c.G402A	p.E134E	AATAGAGGGATTA	.	PASS	Atlas-SNP
COL5A3	50509	hgsc.bcm.edu	37	19	10085054	10085054	+	Missense_Mutation	SNP	G	G	A	rs3815745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	14	14	0	0.7	0	G|0.822;A|0.178	0.178	strong	.	COL5A3	243	.	NM_015719	exon46	c.C3373T	p.P1125S	CTGGGGGTCCCCG	.	PASS	Atlas-SNP
CARD10	29775	hgsc.bcm.edu	37	22	37900762	37900762	+	Silent	SNP	G	G	A	rs3817805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	25	64	0	0.409836	0	G|0.894;A|0.106	0.106	strong	.	CARD10	55	.	NM_014550	exon8	c.C1398T	p.S466S	GGAATGGGAGGAG	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29225463	29225463	+	Silent	SNP	C	C	T	rs370488483		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	32	80	0	0.410256	0	.	.	weak	.	FAM179A	106	.	NM_199280	exon5	c.C489T	p.A163A	CCGAGCCACCTCT	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17084152	17084152	+	Missense_Mutation	SNP	C	C	T	rs202123117	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	1073	103	747	1	0.0959925	0.00133869	C|0.973;T|0.027	0.027	strong	Q13209_HUMAN,NS,haematopoietic_neoplasm,0,1	.	.	1	NM_001271733	exon14	c.G1769A	p.G590D	CCCGTACCTGCAG	.	scavenged	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24409191	24409191	+	Missense_Mutation	SNP	C	C	T	rs4320729	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	34	43	0	0.453333	0	C|0.679;T|0.321	0.321	strong	.	MYOM3	131	.	NM_152372	exon17	c.G1984A	p.G662R	TCAGCCCGGGAAC	.	PASS	Atlas-SNP
KRT73	319101	hgsc.bcm.edu	37	12	53010024	53010024	+	Silent	SNP	C	C	T	rs61736101	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	81	134	0	0.457627	0	C|0.917;T|0.083	0.083	strong	KRT73,NS,malignant_melanoma,-1,3	KRT73	101	3	NM_175068	exon2	c.G588A	p.T196T	AGACAGCGTCTCC	.	PASS	Atlas-SNP
SLC18B1	116843	hgsc.bcm.edu	37	6	133105120	133105120	+	Missense_Mutation	SNP	C	C	T	rs6926101	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	53	95	0	0.495327	0	C|0.812;T|0.188	0.188	strong	.	.	.	.	NM_052831	exon6	c.G610A	p.V204I	AAACGACGCATCC	.	PASS	Atlas-SNP
MSH6	2956	hgsc.bcm.edu	37	2	48025764	48025764	+	Silent	SNP	C	C	T	rs1800937	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	11	30	0	0.407407	0	C|0.942;T|0.058	0.058	strong	.	MSH6	341	.	NM_000179	exon4	c.C642T	p.Y214Y	AACTTACGTAACA	.	PASS	Atlas-SNP
SLC35G3	146861	hgsc.bcm.edu	37	17	33521276	33521276	+	Silent	SNP	C	C	T	rs34540158	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	91	160	0	0.52907	0	C|0.910;T|0.090	0.090	strong	AMAC1,NS,carcinoma,0,1	.	.	1	NM_152462	exon1	c.G51A	p.S17S	GGGCGGCGATGGG	.	PASS	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	37	16	19455468	19455468	+	Missense_Mutation	SNP	G	G	T	rs72785308	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	48	93	0	0.571429	0	G|0.969;T|0.031	0.031	strong	.	TMC5	169	.	NM_001105249	exon4	c.G854T	p.S285I	TGGGCAGTCTTTG	.	PASS	Atlas-SNP
RFX4	5992	hgsc.bcm.edu	37	12	107113769	107113769	+	Silent	SNP	G	G	A	rs17038732	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	61	115	0	0.458647	0	G|0.928;A|0.072	0.072	strong	.	RFX4	218	.	NM_001206691	exon12	c.G1197A	p.E399E	GGAGGAGCAGTCT	.	PASS	Atlas-SNP
SNX18	112574	hgsc.bcm.edu	37	5	53815560	53815560	+	Missense_Mutation	SNP	A	A	C	rs13162502	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	53	102	0	0.504762	0	A|0.866;C|0.134	0.134	strong	.	SNX18	102	.	NM_052870	exon1	c.A1778C	p.K593T	AGTGTAAGTTGGA	.	PASS	Atlas-SNP
COPG1	22820	hgsc.bcm.edu	37	3	128976396	128976396	+	Silent	SNP	T	T	C	rs4927910	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	64	127	0	0.385542	0	T|0.755;C|0.245	0.245	strong	COPG,NS,carcinoma,0,1	.	.	1	NM_016128	exon9	c.T663C	p.H221H	ACGGCATGGCCTT	.	PASS	Atlas-SNP
PSG11	5680	hgsc.bcm.edu	37	19	43529027	43529027	+	Silent	SNP	A	A	G	rs1058958	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	45	93	0	0.494505	0	A|0.479;G|0.521	0.521	strong	.	PSG11	57	.	NM_002785	exon2	c.T246C	p.Y82Y	TACTACATATGAT	.	PASS	Atlas-SNP
ACD	65057	hgsc.bcm.edu	37	16	67691515	67691515	+	Silent	SNP	C	C	A	rs14920	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	33	70	0	0.5	0	C|0.968;A|0.032	0.032	strong	.	ACD	34	.	NM_001082486	exon12	c.G1629T	p.P543P	TCACATCGGAGTT	.	PASS	Atlas-SNP
FCN2	2220	hgsc.bcm.edu	37	9	137775155	137775155	+	Silent	SNP	T	T	C	rs4520243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	44	52	0	1	0	T|0.642;C|0.358	0.358	strong	.	FCN2	55	.	NM_004108	exon3	c.T222C	p.R74R	AGAACGTGGCCCC	.	PASS	Atlas-SNP
SERPINB10	5273	hgsc.bcm.edu	37	18	61584726	61584726	+	Missense_Mutation	SNP	G	G	T	rs143009235	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	34	77	0	0.330097	0	G|0.993;T|0.007	0.007	strong	.	SERPINB10	53	.	NM_005024	exon2	c.G205T	p.D69Y	AAATGTGACCCTG	.	PASS	Atlas-SNP
ZBTB39	9880	hgsc.bcm.edu	37	12	57397250	57397250	+	Silent	SNP	G	G	C	rs145214115	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	44	104	0	0.473118	0	G|0.999;C|0.001	0.001	strong	.	ZBTB39	58	.	NM_014830	exon2	c.C1452G	p.V484V	GTCGCAGACACTG	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124821696	124821696	+	Silent	SNP	C	C	T	rs2229842	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	47	110	0	0.465347	0	C|0.762;T|0.238	0.238	strong	NCOR2_ENST00000405201,caecum,carcinoma,0,1	NCOR2	475	1	NM_006312	exon40	c.G5718A	p.P1906P	GGCAGCCGGGCGA	.	PASS	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	37	19	22156943	22156943	+	Missense_Mutation	SNP	G	G	A	rs12462668	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	7	4	17	0	0.571429	0	G|0.839;A|0.161	0.161	strong	.	ZNF208	817	.	NM_007153	exon4	c.C893T	p.S298L	AGAGTCGAGACCT	.	PASS	Atlas-SNP
UGT2A2	574537	hgsc.bcm.edu	37	4	70462042	70462042	+	Missense_Mutation	SNP	C	C	T	rs4148301	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	40	94	0	0.533333	0	C|0.916;T|0.084	0.084	strong	.	.	.	.	NM_001105677	exon3	c.G949A	p.G317R	TTGATCCCAGAGA	.	PASS	Atlas-SNP
KSR1	8844	hgsc.bcm.edu	37	17	25909805	25909805	+	Silent	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	3	125	4	0.0258621	0.032	.	.	none	KSR1_ENST00000319524,caecum,carcinoma,+2,2	KSR1	151	2	NM_014238	exon5	c.A243G	p.A81A	CAGAGCAGGCAAC	.	scavenged	Atlas-SNP
EXOSC1	51013	hgsc.bcm.edu	37	10	99205731	99205731	+	Silent	SNP	A	A	G	rs4919098	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	91	65	0	0.978495	0	A|0.888;G|0.112	0.112	strong	.	EXOSC1	8	.	NM_016046	exon1	c.T12C	p.P4P	TCTCACAGGTGGC	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62422080	62422080	+	Missense_Mutation	SNP	T	T	C	rs2281929	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	16	32	0	0.551724	0	T|0.799;C|0.201	0.201	strong	ZBTB46,NS,carcinoma,+1,2	ZBTB46	72	2	NM_025224	exon2	c.A31G	p.T11A	GGGACGTGATTTC	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80427495	80427495	+	Silent	SNP	C	C	A	rs1880959	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	64	139	0	0.467153	0	C|0.925;A|0.075	0.075	strong	SEMA3C,NS,carcinoma,-2,1	SEMA3C	106	1	NM_006379	exon11	c.G1044T	p.V348V	ATTAAACACAGTC	.	PASS	Atlas-SNP
SPTY2D1	144108	hgsc.bcm.edu	37	11	18633897	18633897	+	Missense_Mutation	SNP	T	T	C	rs35411689	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	65	140	0	0.496183	0	T|0.921;C|0.079	0.079	strong	SPTY2D1,NS,carcinoma,0,1	SPTY2D1	72	1	NM_194285	exon4	c.A1850G	p.K617R	ATGTGCTTGGATA	.	PASS	Atlas-SNP
TRIM6-TRIM34	445372	hgsc.bcm.edu	37	11	5625847	5625847	+	Silent	SNP	A	A	G	rs3751006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	65	50	0	0.984848	0	A|0.329;G|0.671	0.671	strong	.	TRIM6-TRIM34	68	.	NM_001003819	exon3	c.A591G	p.K197K	GAAGAAAACATCC	.	PASS	Atlas-SNP
OR13H1	347468	hgsc.bcm.edu	37	X	130678844	130678844	+	Missense_Mutation	SNP	A	A	C	rs655415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	79	103	0	0.9875	0	A|0.292;0|0.012	.	strong	.	OR13H1	41	.	NM_001004486	exon1	c.A797C	p.Y266S	AGTCCTACCCTGA	.	PASS	Atlas-SNP
HAGHL	84264	hgsc.bcm.edu	37	16	778820	778820	+	Silent	SNP	G	G	A	rs12448432	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	46	87	0	0.528736	0	G|0.733;A|0.267	0.267	strong	.	HAGHL	18	.	NM_032304	exon6	c.G525A	p.T175T	GCACACGCTTAGC	.	PASS	Atlas-SNP
RBM5	10181	hgsc.bcm.edu	37	3	50147061	50147061	+	Silent	SNP	G	G	A	rs116604207	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	193	69	167	0	0.357513	0	G|0.998;A|0.002	0.002	strong	.	RBM5	76	.	NM_005778	exon15	c.G1218A	p.A406A	CTCAGCGGCTGTA	.	PASS	Atlas-SNP
SSFA2	6744	hgsc.bcm.edu	37	2	182780874	182780874	+	Missense_Mutation	SNP	C	C	T	rs17647806	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	68	131	0	0.511278	0	C|0.966;T|0.034	0.034	strong	.	SSFA2	130	.	NM_001130445	exon11	c.C2507T	p.P836L	TTGCTCCACCACC	.	PASS	Atlas-SNP
SLC1A2	6506	hgsc.bcm.edu	37	11	35327748	35327748	+	Silent	SNP	C	C	T	rs752949	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	30	49	0	0.612245	0	C|0.786;T|0.214	0.214	strong	SLC1A2,NS,carcinoma,-1,1	SLC1A2	54	1	NM_004171	exon5	c.G603A	p.P201P	CTCGTCCGGCGGT	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8212263	8212263	+	Silent	SNP	G	G	A	rs11878432	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	34	31	0	0.465753	0	G|0.760;A|0.240	0.240	strong	.	FBN3	300	.	NM_032447	exon1	c.C102T	p.D34D	GGCCCCGTCCCAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152285930	152285930	+	Missense_Mutation	SNP	G	G	A	rs11584340	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	237	153	176	0	0.64557	0	G|0.785;A|0.215	0.215	strong	.	FLG	900	.	NM_002016	exon3	c.C1432T	p.P478S	AGTCAGGCTGTTC	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9988175	9988175	+	Silent	SNP	C	C	T	rs61740128	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	47	35	0	0.671429	0	C|0.983;T|0.017	0.017	strong	.	PRRT3	35	.	NM_207351	exon4	c.G2682A	p.G894G	GGCTGCCCCGTCG	.	PASS	Atlas-SNP
FAM151B	167555	hgsc.bcm.edu	37	5	79817898	79817898	+	Silent	SNP	A	A	G	rs2431224	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	39	71	0	0.506494	0	A|0.954;G|0.046	0.046	strong	.	FAM151B	25	.	NM_205548	exon5	c.A612G	p.R204R	TGTCAGAGCAGCA	.	PASS	Atlas-SNP
GSTO2	119391	hgsc.bcm.edu	37	10	106039185	106039185	+	Missense_Mutation	SNP	A	A	G	rs156697	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	31	67	0	0.424658	0	A|0.537;G|0.463	0.463	strong	GSTO2,NS,carcinoma,0,1	GSTO2	23	1	NM_183239	exon5	c.A424G	p.N142D	TGCACTAATCTGA	.	PASS	Atlas-SNP
ARHGEF10L	55160	hgsc.bcm.edu	37	1	17961345	17961345	+	Silent	SNP	C	C	T	rs34725104	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	34	108	0	0.459459	0	C|0.874;T|0.126	0.126	strong	.	ARHGEF10L	219	.	NM_018125	exon18	c.C1761T	p.I587I	GGAGATCAGCAGC	.	PASS	Atlas-SNP
MCCC2	64087	hgsc.bcm.edu	37	5	70888804	70888804	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	256	137	245	0	0.535156	0	.	.	none	.	MCCC2	47	.	NM_022132	exon2	c.G181A	p.E61K	CGAGTGGAGCATA	.	PASS	Atlas-SNP
PTCH2	8643	hgsc.bcm.edu	37	1	45292173	45292173	+	Missense_Mutation	SNP	G	G	A	rs11573590	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	52	94	0	0.468468	0	G|0.962;A|0.038	0.038	strong	PTCH2,NS,carcinoma,0,1	PTCH2	96	1	NM_001166292	exon18	c.C2963T	p.T988M	CCAGCCGTCCAGG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276282	152276282	+	Missense_Mutation	SNP	C	C	G	rs76133835	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	249	32	183	0	0.128514	0	C|0.500;G|0.500	0.500	weak	FLG,extremity,malignant_melanoma,0,1	FLG	900	1	NM_002016	exon3	c.G11080C	p.E3694Q	TGGACTCTTGGTG	.	scavenged	Atlas-SNP
B4GALT3	8703	hgsc.bcm.edu	37	1	161143801	161143801	+	Silent	SNP	G	G	A	rs3813619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	16	27	0	0.296296	0	G|0.946;A|0.054	0.054	strong	.	B4GALT3	39	.	NM_003779	exon5	c.C528T	p.N176N	CCCAACGTTCAAC	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501900	501900	+	Missense_Mutation	SNP	C	C	A	rs3745925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	19	52	0	0.575758	0	C|0.760;A|0.240	0.240	strong	.	MADCAM1	29	.	NM_130760	exon4	c.C899A	p.P300H	CTGGGCCCACGCA	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96555149	96555149	+	Missense_Mutation	SNP	C	C	T	rs33949518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	26	66	0	0.419355	0	C|0.858;T|0.142	0.142	strong	.	UGGT2	127	.	NM_020121	exon21	c.G2461A	p.A821T	AAATAGCTGTAGC	.	PASS	Atlas-SNP
TTC39B	158219	hgsc.bcm.edu	37	9	15188106	15188106	+	Missense_Mutation	SNP	T	T	C	rs1407977	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	44	74	0	0.505747	0	T|0.284;C|0.716	0.716	strong	TTC39B_ENST00000512701,NS,carcinoma,0,1	TTC39B	83	1	NM_152574	exon14	c.A1258G	p.I420V	CTGAAATGCATTT	.	PASS	Atlas-SNP
NUP153	9972	hgsc.bcm.edu	37	6	17675553	17675553	+	Silent	SNP	T	T	C	rs61748704	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	44	90	0	0.44	0	T|0.978;C|0.022	0.022	strong	.	NUP153	116	.	NM_005124	exon4	c.A630G	p.P210P	AGCTTCTGGGGAC	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	37	3	58118555	58118555	+	Missense_Mutation	SNP	G	G	A	rs12632456	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	34	71	0	0.361702	0	G|0.538;A|0.462	0.462	strong	.	FLNB	430	.	NM_001164317	exon27	c.G4504A	p.V1502M	GTGAACGTGGTGG	.	PASS	Atlas-SNP
TBX6	6911	hgsc.bcm.edu	37	16	30100401	30100401	+	Missense_Mutation	SNP	C	C	T	rs56098093	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	46	48	0	0.582278	0	C|0.997;T|0.003	0.003	strong	.	TBX6	29	.	NM_004608	exon4	c.G484A	p.G162S	CCTTGCCGCTGGG	.	PASS	Atlas-SNP
CMBL	134147	hgsc.bcm.edu	37	5	10282396	10282396	+	Silent	SNP	A	A	G	rs10067744	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	55	104	0	0.392857	0	A|0.476;G|0.524	0.524	strong	CMBL,NS,carcinoma,0,1	CMBL	24	1	NM_138809	exon5	c.T471C	p.I157I	CTTGACAATGCCT	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140994419	140994419	+	Missense_Mutation	SNP	T	T	C	rs138268726	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	105	116	0	0.929204	0	T|0.932;C|0.068	0.068	strong	.	MAGEC1	317	.	NM_005462	exon4	c.T1229C	p.I410T	TCCAGATTCCTAT	.	PASS	Atlas-SNP
TRIM59	286827	hgsc.bcm.edu	37	3	160156951	160156951	+	Silent	SNP	C	C	T	rs1141023	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	100	135	0	0.591716	0	C|0.882;T|0.118	0.118	strong	.	TRIM59	42	.	NM_173084	exon3	c.G21A	p.E7E	AGTTAACTCTTCC	.	PASS	Atlas-SNP
C1orf114	57821	hgsc.bcm.edu	37	1	169391154	169391154	+	Missense_Mutation	SNP	A	A	G	rs3820059	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	34	71	0	0.386364	0	A|0.308;G|0.692	0.692	strong	.	C1orf114	67	.	NM_021179	exon3	c.T515C	p.F172S	TTTTTAAAAGTAG	.	PASS	Atlas-SNP
PLXNB1	5364	hgsc.bcm.edu	37	3	48461313	48461313	+	Silent	SNP	C	C	G	rs2362450	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	85	99	0	0.541401	0	C|0.517;G|0.483	0.483	strong	PLXNB1,colon,carcinoma,-2,1	PLXNB1	150	1	NM_001130082	exon11	c.G2382C	p.P794P	CTCTGACGGTGAC	.	PASS	Atlas-SNP
PWP2	5822	hgsc.bcm.edu	37	21	45538647	45538647	+	Silent	SNP	T	T	C	rs756553	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	44	116	0	0.4	0	T|0.327;C|0.673	0.673	strong	.	PWP2	64	.	NM_005049	exon9	c.T984C	p.I328I	CAGCATTTCAGAT	.	PASS	Atlas-SNP
QRICH2	84074	hgsc.bcm.edu	37	17	74290008	74290008	+	Missense_Mutation	SNP	G	G	T	rs62621822	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	39	60	0	0.527027	0	G|0.982;T|0.018	0.018	strong	.	QRICH2	143	.	NM_032134	exon4	c.C302A	p.P101Q	ATACTTGGTTGCT	.	PASS	Atlas-SNP
MED16	10025	hgsc.bcm.edu	37	19	890165	890165	+	Silent	SNP	G	G	A	rs6678	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	42	0	0.479167	0	G|0.765;A|0.235	0.235	strong	.	MED16	61	.	NM_005481	exon3	c.C249T	p.A83A	GGTGATGGCCTCG	.	PASS	Atlas-SNP
CYSLTR2	57105	hgsc.bcm.edu	37	13	49281554	49281554	+	Missense_Mutation	SNP	A	A	G	rs41347648	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	42	74	0	0.575342	0	A|0.985;G|0.015	0.015	strong	.	CYSLTR2	55	.	NM_020377	exon1	c.A601G	p.M201V	CAGACCATGAACT	.	PASS	Atlas-SNP
IGSF5	150084	hgsc.bcm.edu	37	21	41137499	41137499	+	Silent	SNP	A	A	G	rs12626544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	23	80	0	0.410714	0	A|0.661;G|0.339	0.339	strong	.	IGSF5	62	.	NM_001080444	exon3	c.A138G	p.Q46Q	CCCCCAAAATGCA	.	PASS	Atlas-SNP
FAM25A	643161	hgsc.bcm.edu	37	10	88782111	88782111	+	Silent	SNP	C	C	T	rs61857037	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	8	8	0	0.571429	0	C|0.913;T|0.087	0.087	strong	FAM25A,colon,carcinoma,0,1	FAM25A	4	1	NM_001146157	exon2	c.C114T	p.H38H	GGGACACGCCAAG	.	PASS	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115064423	115064423	+	Missense_Mutation	SNP	G	G	A	rs3752107	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	243	117	249	0	0.481481	0	G|0.949;A|0.051	0.051	strong	UPF3A,colon,carcinoma,0,1	UPF3A	47	1	NM_023011	exon8	c.G955A	p.A319T	CCCGGTGCAGTCG	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238247734	238247734	+	Missense_Mutation	SNP	C	C	G	rs36104025	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	29	36	0	1	0	C|0.942;G|0.058	0.058	strong	.	COL6A3	608	.	NM_004369	exon39	c.G8491C	p.D2831H	TGATATCTGGGGA	.	PASS	Atlas-SNP
OR8U1	219417	hgsc.bcm.edu	37	11	56143977	56143977	+	Missense_Mutation	SNP	A	A	G	rs12272403	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	25	66	0	0.625	0	A|0.655;G|0.345	0.345	strong	.	OR8U1	59	.	NM_001005204	exon1	c.A878G	p.Q293R	GCCTCCAGAATAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513126	195513126	+	Silent	SNP	G	G	A	rs62282488	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	438	72	280	0	0.164384	0	G|0.897;A|0.103	0.103	strong	.	MUC4	1505	.	NM_018406	exon2	c.C5325T	p.T1775T	AAGTGGGGTGGCG	.	PASS	Atlas-SNP
RABGGTA	5875	hgsc.bcm.edu	37	14	24736027	24736027	+	Silent	SNP	G	G	A	rs14193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	137	169	1	0.985611	0.00591716	T|0.000;G|0.465;A|0.534	0.534	strong	.	RABGGTA	43	.	NM_004581	exon14	c.C1422T	p.R474R	TCGGAGGCGATTG	.	PASS	Atlas-SNP
TNFAIP8L3	388121	hgsc.bcm.edu	37	15	51350287	51350287	+	Missense_Mutation	SNP	T	T	G	rs78897873	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	49	82	0	0.538462	0	T|0.968;G|0.032	0.032	strong	.	TNFAIP8L3	30	.	NM_207381	exon3	c.A670C	p.N224H	GGAGATTGGAGAG	.	PASS	Atlas-SNP
SLC22A18	5002	hgsc.bcm.edu	37	11	2929502	2929502	+	Missense_Mutation	SNP	G	G	A	rs143044180	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	21	59	0	0.388889	0	G|0.998;T|0.002	.	alt	SLC22A18,NS,carcinoma,0,1	SLC22A18	20	1	NM_002555	exon3	c.G184A	p.G62S	GCCTTCGGCTACC	.	PASS	Atlas-SNP
COL4A3	1285	hgsc.bcm.edu	37	2	228135631	228135631	+	Missense_Mutation	SNP	C	C	T	rs28381984	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	29	77	0	0.42029	0	C|0.604;T|0.396	0.396	strong	COL4A3_ENST00000328380,NS,carcinoma,-1,2	COL4A3	293	2	NM_000091	exon25	c.C1721T	p.P574L	GAACTCCGGGAGT	.	PASS	Atlas-SNP
NCR2	9436	hgsc.bcm.edu	37	6	41303995	41303995	+	Missense_Mutation	SNP	A	A	G	rs9471577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	19	62	0	0.413043	0	A|0.858;G|0.142	0.142	strong	.	NCR2	44	.	NM_004828	exon2	c.A223G	p.M75V	AGGACGATGGCTT	.	PASS	Atlas-SNP
NDUFA10	4705	hgsc.bcm.edu	37	2	240946766	240946766	+	Silent	SNP	T	T	C	rs13848	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	76	74	0	1	0	A|0.120;C|0.311	0.311	strong	.	NDUFA10	40	.	NM_004544	exon7	c.A771G	p.Q257Q	AGAATATTGTAAA	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169529973	169529973	+	Silent	SNP	C	C	T	rs6029	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	61	120	0	0.38125	0	C|0.653;T|0.347	0.347	strong	.	F5	301	.	NM_000130	exon4	c.G405A	p.A135A	CTTCTCCGCAGGG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134738232	134738232	+	Silent	SNP	A	A	G	rs4075501	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	62	76	0	1	0	A|0.499;G|0.501	0.501	strong	.	TTC40	100	.	NM_001200049	exon11	c.T1224C	p.A408A	AACGCCAGCCAGG	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62421622	62421622	+	Silent	SNP	A	A	G	rs755017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	22	50	0	0.468085	0	A|0.797;G|0.203	0.203	strong	ZBTB46,caecum,carcinoma,0,1	ZBTB46	72	1	NM_025224	exon2	c.T489C	p.A163A	CCTCCCAGCCATC	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201166435	201166435	+	Silent	SNP	T	T	C	rs11589317	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	45	46	0	1	0	T|0.124;C|0.876	0.876	strong	.	IGFN1	220	.	NM_001164586	exon5	c.T357C	p.T119T	ACTCACTGTCATC	.	PASS	Atlas-SNP
SCN1B	6324	hgsc.bcm.edu	37	19	35524939	35524939	+	Missense_Mutation	SNP	C	C	A	rs67701503	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	94	235	0	0.5	0	C|0.866;A|0.134	0.134	strong	.	SCN1B	32	.	NM_199037	exon3	c.C744A	p.S248R	TCTGAGCCAAAGG	.	PASS	Atlas-SNP
SLC39A12	221074	hgsc.bcm.edu	37	10	18242311	18242311	+	Missense_Mutation	SNP	A	A	G	rs10764176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	34	64	0	0.414634	0	A|0.724;G|0.276	0.276	strong	.	SLC39A12	181	.	NM_152725	exon2	c.A106G	p.S36G	AGCAGAAGCCGTG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179498303	179498303	+	Silent	SNP	T	T	C	rs16866425	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	95	215	0	0.489691	0	A|0.000;C|0.061;T|0.938	0.061	strong	.	TTN	18412	.	NM_001267550	exon232	c.A42783G	p.K14261K	GAACCATTTCACT	.	PASS	Atlas-SNP
SLFN5	162394	hgsc.bcm.edu	37	17	33592194	33592194	+	Missense_Mutation	SNP	C	C	G	rs117695297	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	49	111	0	0.49	0	C|0.988;G|0.012	0.012	strong	.	SLFN5	92	.	NM_144975	exon5	c.C1963G	p.R655G	AATTTCCGTACTG	.	PASS	Atlas-SNP
AIRE	326	hgsc.bcm.edu	37	21	45709568	45709568	+	Silent	SNP	C	C	T	rs1055311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	87	148	0	0.480663	0	C|0.833;T|0.167	0.167	strong	.	AIRE	61	.	NM_000383	exon6	c.C681T	p.G227G	GGTTGGCGGGGAG	.	PASS	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162909716	162909716	+	Missense_Mutation	SNP	C	C	T	rs299295	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	290	142	273	1	0.489655	0.003663	C|0.774;N|0.000	.	strong	.	HMMR	64	.	NM_001142556	exon13	c.C1454T	p.A485V	AAAAAGCGGCCAA	.	PASS	Atlas-SNP
FCRLB	127943	hgsc.bcm.edu	37	1	161697068	161697068	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	4	60	0	0.0615385	0	.	.	none	.	FCRLB	35	.	NM_001002901	exon6	c.C897T	p.A299A	CACCGCCCCAGCT	.	PASS	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43585253	43585253	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	3	130	2	0.026087	0.0153846	.	.	none	PSG2,NS,carcinoma,0,2	PSG2	84	2	NM_031246	exon2	c.G210A	p.G70G	GATTTGCCCTTTG	.	scavenged	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84896628	84896628	+	Silent	SNP	G	G	A	rs17708884	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	35	62	0	0.555556	0	G|0.926;A|0.074	0.074	strong	DNAH6,colon,carcinoma,+1,1	DNAH6	194	1	NM_001370	exon38	c.G6300A	p.V2100V	TGGAGTGGGCAAG	.	PASS	Atlas-SNP
CXCR5	643	hgsc.bcm.edu	37	11	118765267	118765267	+	Silent	SNP	G	G	C	rs598207	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	18	35	0	0.72	0	G|0.684;C|0.316	0.316	strong	.	CXCR5	34	.	NM_001716	exon2	c.G1014C	p.T338T	CCTGACGAAGCTG	.	PASS	Atlas-SNP
ERAL1	26284	hgsc.bcm.edu	37	17	27185827	27185827	+	Silent	SNP	C	C	T	rs2242345	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	85	59	0	1	0	C|0.197;T|0.803	0.803	strong	.	ERAL1	28	.	NM_005702	exon7	c.C945T	p.D315D	GGAGGACGTGAAA	.	PASS	Atlas-SNP
LRRC43	254050	hgsc.bcm.edu	37	12	122674758	122674758	+	Silent	SNP	G	G	A	rs4758651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	117	107	1	0.983193	0.00934579	G|0.305;N|0.003	.	strong	.	LRRC43	105	.	NM_001098519	exon5	c.G744A	p.R248R	CCTCCGGCACCTG	.	PASS	Atlas-SNP
JMY	133746	hgsc.bcm.edu	37	5	78573790	78573790	+	Missense_Mutation	SNP	A	A	T	rs13182512	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	83	67	0	0.988095	0	A|0.466;T|0.534	0.534	strong	.	JMY	82	.	NM_152405	exon2	c.A1090T	p.M364L	TATCAGATGGAGG	.	PASS	Atlas-SNP
STRA6	64220	hgsc.bcm.edu	37	15	74487969	74487969	+	Missense_Mutation	SNP	A	A	T	rs971756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	55	78	0	1	0	A|0.928;T|0.072	0.072	strong	.	STRA6	66	.	NM_001142620	exon6	c.T454A	p.L152M	GTCTCAACTCTGT	.	PASS	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	37	15	73615878	73615878	+	Silent	SNP	C	C	T	rs117819825	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	16	32	0	0.470588	0	C|0.965;T|0.035	0.035	strong	.	HCN4	150	.	NM_005477	exon8	c.G2556A	p.P852P	TGAAGACGGTGTG	.	PASS	Atlas-SNP
TIAF1	9220	hgsc.bcm.edu	37	17	27401176	27401176	+	Silent	SNP	G	G	C	rs1049848	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	27	48	0	0.490909	0	G|0.988;C|0.012	0.012	strong	.	TIAF1	9	.	NM_004740	exon1	c.C42G	p.L14L	TGCACAGAGAAAG	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	37	3	123452838	123452838	+	Silent	SNP	G	G	A	rs4678047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	110	105	0	0.964912	0	A|0.608;G|0.392	0.608	strong	.	MYLK	224	.	NM_053025	exon10	c.C1005T	p.T335T	GACCGGGGTCTGC	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66878099	66878099	+	Missense_Mutation	SNP	C	C	T	rs34987539	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	38	0	0.523077	0	C|0.992;T|0.008	0.008	strong	.	ABCA8	213	.	NM_007168	exon29	c.G3731A	p.C1244Y	CGTAGACAGCTGG	.	PASS	Atlas-SNP
ST6GALNAC1	55808	hgsc.bcm.edu	37	17	74625686	74625686	+	Missense_Mutation	SNP	A	A	G	rs8077382	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	331	166	292	1	0.501511	0.00342466	A|0.898;G|0.102	0.102	strong	.	ST6GALNAC1	42	.	NM_018414	exon2	c.T239C	p.V80A	TCTGGCACTGGCT	.	PASS	Atlas-SNP
TXLNG	55787	hgsc.bcm.edu	37	X	16859628	16859628	+	Silent	SNP	G	G	A	rs5924530	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	103	119	0	1	0	0|0.012;A|0.602	0.602	strong	.	TXLNG	40	.	NM_018360	exon10	c.G1326A	p.Q442Q	TCTTCAGACAGAA	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5372856	5372856	+	Missense_Mutation	SNP	A	A	G	rs4910756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	92	210	0	0.44878	0	A|0.824;G|0.176	0.176	strong	.	OR51B6	53	.	NM_001004750	exon1	c.A119G	p.N40S	TTGGCAATGGCAC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281690	152281690	+	Missense_Mutation	SNP	C	C	T	rs12407748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	267	160	196	1	0.599251	0.00510204	C|0.851;T|0.149	0.149	strong	.	FLG	900	.	NM_002016	exon3	c.G5672A	p.R1891Q	TCGGCCCGAGAGG	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32610008	32610008	+	Silent	SNP	C	C	T	rs2308890	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	97	374	0	0.795082	0	C|0.717;T|0.283	0.283	strong	.	HLA-DQA1	52	.	NM_002122	exon3	c.C591T	p.D197D	CCTGGACCAGCCT	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55541513	55541513	+	Missense_Mutation	SNP	T	T	C	rs414352	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	48	110	0	0.545455	0	C|0.269;N|0.000	0.269	strong	.	RP1	429	.	NM_006269	exon4	c.T5071C	p.S1691P	AGTTCATCTATGT	.	PASS	Atlas-SNP
ZNF350	59348	hgsc.bcm.edu	37	19	52468203	52468203	+	Missense_Mutation	SNP	T	T	A	rs2278415	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	65	145	0	0.488722	0	T|0.844;A|0.156	0.156	strong	.	ZNF350	48	.	NM_021632	exon5	c.A1503T	p.R501S	AAATCCTCTGTTA	.	PASS	Atlas-SNP
TRHDE	29953	hgsc.bcm.edu	37	12	72956782	72956782	+	Silent	SNP	C	C	T	rs79522035	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	93	171	0	0.489474	0	C|0.974;T|0.026	0.026	strong	.	TRHDE	194	.	NM_013381	exon9	c.C1869T	p.I623I	TGATATCAGTGCT	.	PASS	Atlas-SNP
HKR1	284459	hgsc.bcm.edu	37	19	37854273	37854273	+	Missense_Mutation	SNP	G	G	A	rs141902493	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	31	68	0	0.492063	0	G|0.997;A|0.003	0.003	strong	.	HKR1	74	.	NM_181786	exon6	c.G1576A	p.V526I	CCATTTGTATGTG	.	PASS	Atlas-SNP
ZDHHC19	131540	hgsc.bcm.edu	37	3	195936382	195936382	+	Silent	SNP	G	G	A	rs11719281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	66	79	0	0.640777	0	G|0.851;A|0.149	0.149	strong	.	ZDHHC19	25	.	NM_001039617	exon3	c.C273T	p.S91S	CTCAGCGGAGCCT	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42360950	42360950	+	Missense_Mutation	SNP	C	C	T	rs750051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	58	120	0	0.522523	0	C|0.926;T|0.074	0.074	strong	.	PLA2G4D	72	.	NM_178034	exon20	c.G2420A	p.R807Q	AGAGTCCGGTGCT	.	PASS	Atlas-SNP
ZNF490	57474	hgsc.bcm.edu	37	19	12692001	12692001	+	Silent	SNP	G	G	A	rs3745651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	26	23	0	0.962963	0	G|0.688;A|0.312	0.312	strong	.	ZNF490	42	.	NM_020714	exon5	c.C888T	p.H296H	CCTTTCGTGGGTT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910700	29910700	+	Silent	SNP	G	G	T	rs1059452	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	212	37	157	0	0.174528	0	G|0.769;T|0.231	0.231	strong	.	HLA-A	89	.	NM_001242758	exon2	c.G240T	p.G80G	GGAGGGGCCGGAG	.	PASS	Atlas-SNP
SLC6A17	388662	hgsc.bcm.edu	37	1	110738296	110738296	+	Silent	SNP	G	G	A	rs2784140	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	61	118	0	0.5	0	G|0.658;A|0.342	0.342	strong	SLC6A17,NS,carcinoma,0,1	SLC6A17	86	1	NM_001010898	exon10	c.G1581A	p.S527S	CTACTCGGCCACC	.	PASS	Atlas-SNP
SNAP23	8773	hgsc.bcm.edu	37	15	42820589	42820589	+	Silent	SNP	G	G	A	rs1060291	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	37	62	0	0.480519	0	G|0.678;A|0.322	0.322	strong	SNAP23,colon,carcinoma,+1,1	SNAP23	15	1	NM_003825	exon6	c.G396A	p.T132T	AACAACGGGAGCA	.	PASS	Atlas-SNP
CIDEC	63924	hgsc.bcm.edu	37	3	9920138	9920138	+	Silent	SNP	G	G	C	rs17851444	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	107	134	0	0.594444	0	G|0.895;C|0.105	0.105	strong	.	CIDEC	22	.	NM_001199623	exon2	c.C72G	p.L24L	GGGGTAGAGAAGG	.	PASS	Atlas-SNP
AMZ2	51321	hgsc.bcm.edu	37	17	66253095	66253095	+	Silent	SNP	T	T	A	rs7105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	62	75	0	1	0	T|0.663;A|0.337	0.337	strong	.	AMZ2	15	.	NM_001033572	exon8	c.T1068A	p.A356A	CCTGGCTGTTCTC	.	PASS	Atlas-SNP
HIPK1	204851	hgsc.bcm.edu	37	1	114515717	114515717	+	Silent	SNP	G	G	A	rs2358996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	39	64	0	0.573529	0	G|0.519;A|0.481	0.481	strong	.	HIPK1	195	.	NM_198268	exon16	c.G3216A	p.A1072A	GCAGGCGTTTGTG	.	PASS	Atlas-SNP
OSBP2	23762	hgsc.bcm.edu	37	22	31285190	31285190	+	Missense_Mutation	SNP	C	C	G	rs35702187	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	46	111	0	0.455446	0	C|0.995;G|0.005	0.005	strong	.	OSBP2	52	.	NM_030758	exon6	c.C1445G	p.T482R	CCGGGACAAGTTC	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17087521	17087521	+	Silent	SNP	G	G	A	rs11589598	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	348	57	279	0	0.163793	0	G|0.833;A|0.167	0.167	strong	Q13209_HUMAN,NS,carcinoma,0,2	.	.	2	NM_001271733	exon2	c.C144T	p.P48P	AGGCCCGGGCACC	.	PASS	Atlas-SNP
SLC7A8	23428	hgsc.bcm.edu	37	14	23652004	23652004	+	Silent	SNP	G	G	A	rs1884545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	21	49	0	0.396226	0	G|0.934;A|0.066	0.066	strong	.	SLC7A8	54	.	NM_012244	exon1	c.C120T	p.I40I	CAATCCGATCTCT	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91503660	91503660	+	Silent	SNP	A	A	G	rs1126480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	83	165	0	0.474286	0	A|0.701;G|0.299	0.299	strong	KIF20B_ENST00000416354,adrenal_gland,adrenal_cortical_adenoma,0,2	KIF20B	191	2	NM_016195	exon22	c.A3891G	p.K1297K	TATGAAACAGCGA	.	PASS	Atlas-SNP
BCKDHA	593	hgsc.bcm.edu	37	19	41930396	41930396	+	Silent	SNP	A	A	G	rs4674	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	81	51	0	1	0	A|0.349;G|0.651	0.651	strong	.	BCKDHA	36	.	NM_000709	exon9	c.A1221G	p.L407L	CAACCTACTCTTC	.	PASS	Atlas-SNP
DNAJC15	29103	hgsc.bcm.edu	37	13	43597865	43597865	+	Missense_Mutation	SNP	A	A	G	rs12015	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	35	68	0	0.530303	0	A|0.735;G|0.265	0.265	strong	DNAJC15_ENST00000379221,NS,carcinoma,0,2	DNAJC15	16	2	NM_013238	exon1	c.A103G	p.R35G	CAGCAGAGACTGG	.	PASS	Atlas-SNP
FAM21C	253725	hgsc.bcm.edu	37	10	46254776	46254776	+	Missense_Mutation	SNP	A	A	C	rs2596979	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	335	22	405	0	0.0656716	0	A|0.300;C|0.700	0.700	strong	FAM21C,NS,carcinoma,0,6	FAM21C	68	6	NM_015262	exon17	c.A1562C	p.Y521S	TATCTTACAGCAA	.	PASS	Atlas-SNP
PPP2R3B	28227	hgsc.bcm.edu	37	X	322257	322257	+	Silent	SNP	G	G	A	rs17855192	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	309	301	455	0	0.97411	0	G|0.704;A|0.296	0.296	strong	.	PPP2R3B	43	.	NM_013239	exon2	c.C393T	p.P131P	TCCTCTGGGGAAG	.	PASS	Atlas-SNP
KRT19	3880	hgsc.bcm.edu	37	17	39684321	39684321	+	Missense_Mutation	SNP	G	G	C	rs4602	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	10	62	0	0.277778	0	G|0.335;C|0.665	0.665	strong	KRT19,colon,carcinoma,-1,1	KRT19	41	1	NM_002276	exon1	c.C179G	p.A60G	CCGTAGGCCCCCG	.	scavenged	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18777422	18777422	+	Silent	SNP	G	G	A	rs45579937	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	30	43	0	0.454545	0	G|0.884;A|0.116	0.116	strong	ADAMTSL1_ENST00000380548,NS,carcinoma,0,1	ADAMTSL1	306	1	NM_001040272	exon19	c.G3195A	p.L1065L	GCTCCTGCACCTG	.	PASS	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	37	1	223991959	223991959	+	Missense_Mutation	SNP	G	G	A	rs61749337	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	84	149	0	0.47191	0	G|0.990;A|0.010	0.010	strong	.	TP53BP2	144	.	NM_001031685	exon6	c.C566T	p.A189V	TTCTCAGCTATTT	.	PASS	Atlas-SNP
HK3	3101	hgsc.bcm.edu	37	5	176314459	176314459	+	Silent	SNP	G	G	A	rs2278492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	30	74	0	0.447761	0	G|0.694;A|0.306	0.306	strong	.	HK3	210	.	NM_002115	exon11	c.C1593T	p.D531D	GCTGCCGTCAGGG	.	PASS	Atlas-SNP
GUCY1A2	2977	hgsc.bcm.edu	37	11	106647222	106647222	+	Silent	SNP	G	G	A	rs34690080	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	72	135	0	0.5	0	G|0.953;A|0.047	0.047	strong	GUCY1A2,NS,carcinoma,-1,2	GUCY1A2	180	2	NM_000855	exon6	c.C1779T	p.A593A	CTTCAAGGCCATC	.	PASS	Atlas-SNP
CXXC1	30827	hgsc.bcm.edu	37	18	47810351	47810351	+	Silent	SNP	A	A	G	rs7228084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	51	43	0	1	0	A|0.305;G|0.695	0.695	strong	.	CXXC1	50	.	NM_001101654	exon10	c.T1338C	p.T446T	AAGGCGAGTGCGG	.	PASS	Atlas-SNP
FCHO1	23149	hgsc.bcm.edu	37	19	17885880	17885880	+	Silent	SNP	C	C	T	rs2287855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	37	101	0	0.4625	0	C|0.894;T|0.106	0.106	strong	.	FCHO1	69	.	NM_001161358	exon13	c.C936T	p.P312P	GGAGCCCGATTCA	.	PASS	Atlas-SNP
OR2S2	56656	hgsc.bcm.edu	37	9	35957669	35957669	+	Missense_Mutation	SNP	T	T	C	rs2233564	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	27	86	0	0.428571	0	T|0.657;C|0.343	0.343	strong	.	OR2S2	46	.	NM_019897	exon1	c.A427G	p.M143V	TGGGCATGTAGGC	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	42041712	42041712	+	Silent	SNP	G	G	A	rs2695163	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	76	82	0	1	0	G|0.275;A|0.725	0.725	strong	.	MGA	264	.	NM_001164273	exon17	c.G5907A	p.K1969K	GATGAAGAGAGAA	.	PASS	Atlas-SNP
NPR2	4882	hgsc.bcm.edu	37	9	35792423	35792423	+	Silent	SNP	T	T	C	rs2228580	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	61	75	0	0.521368	0	T|0.691;C|0.309	0.309	strong	.	NPR2	162	.	NM_003995	exon1	c.T18C	p.L6L	ATCACTTCTGCTG	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	215916563	215916563	+	Missense_Mutation	SNP	G	G	A	rs11120616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	19	52	0	0.38	0	G|0.807;A|0.193	0.193	strong	USH2A,NS,carcinoma,0,1	USH2A	1168	1	NM_206933	exon59	c.C11504T	p.T3835I	AATGGAGTCAAAT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281948	152281948	+	Missense_Mutation	SNP	G	G	A	rs12405241	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	282	173	172	0	0.613475	0	G|0.839;A|0.161	0.161	strong	.	FLG	900	.	NM_002016	exon3	c.C5414T	p.A1805V	TGGGACGCTGAGT	.	PASS	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56410222	56410222	+	Silent	SNP	C	C	T	rs302827	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	34	69	0	0.515152	0	C|0.739;T|0.261	0.261	strong	.	NLRP13	220	.	NM_176810	exon10	c.G2871A	p.L957L	CAAATCCAAGATT	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20871901	20871901	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	34	64	0	0.618182	0	.	.	none	TEP1,NS,carcinoma,-1,1	TEP1	224	1	NM_007110	exon6	c.G1175A	p.R392H	GGCCGGCGGGGGT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911119	29911119	+	Missense_Mutation	SNP	G	G	T	rs3173419	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	28	152	0	0.21875	0	C|0.006;G|0.577;T|0.416	0.416	strong	.	HLA-A	89	.	NM_001242758	exon3	c.G418T	p.D140Y	CGGCAGGACGCCT	.	PASS	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56549532	56549532	+	Silent	SNP	A	A	G	rs306447	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	63	123	0	0.529412	0	A|0.693;G|0.307	0.307	strong	NLRP5,NS,carcinoma,0,1	NLRP5	217	1	NM_153447	exon10	c.A2757G	p.R919R	CTTGAGAGTCTCC	.	PASS	Atlas-SNP
DHRS1	115817	hgsc.bcm.edu	37	14	24760764	24760764	+	Missense_Mutation	SNP	G	G	A	rs10134537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	34	76	0	0.523077	0	G|0.913;A|0.087	0.087	strong	.	DHRS1	21	.	NM_138452	exon7	c.C722T	p.T241I	TCACCTGTTGCCA	.	PASS	Atlas-SNP
CBLB	868	hgsc.bcm.edu	37	3	105464766	105464766	+	Silent	SNP	G	G	A	rs9657906	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	51	72	0	0.689189	0	G|0.987;A|0.013	0.013	strong	.	CBLB	118	.	NM_170662	exon6	c.C840T	p.P280P	CCTTCCGGGTTTG	.	PASS	Atlas-SNP
BCLAF1	9774	hgsc.bcm.edu	37	6	136589448	136589448	+	Missense_Mutation	SNP	C	C	A	rs78267720	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	25	150	1	0.211864	0.00666667	C|0.811;A|0.190	0.190	strong	BCLAF1_ENST00000531224,bladder,carcinoma,-1,1	BCLAF1	203	1	NM_014739	exon10	c.G2249T	p.R750L	GAAGATCGAGAAT	.	scavenged	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5863013	5863013	+	Missense_Mutation	SNP	T	T	C	rs4362173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	63	131	0	0.538462	0	T|0.606;C|0.394	0.394	strong	.	OR52E6	70	.	NM_001005167	exon1	c.A115G	p.I39V	GTGCAATAAGATA	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	37	17	8792003	8792003	+	Silent	SNP	C	C	T	rs9915880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	20	48	0	0.392157	0	C|0.736;T|0.264	0.264	strong	.	PIK3R5	79	.	NM_001142633	exon10	c.G1101A	p.S367S	CGGCCCCGAGGCC	.	PASS	Atlas-SNP
ARL2	402	hgsc.bcm.edu	37	11	64789222	64789222	+	Silent	SNP	C	C	T	rs61736632	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	16	29	0	0.470588	0	C|0.992;T|0.008	0.008	strong	.	ARL2	11	.	NM_001667	exon5	c.C450T	p.H150H	CAGCCACCACTGG	.	PASS	Atlas-SNP
CNTLN	54875	hgsc.bcm.edu	37	9	17135115	17135115	+	Silent	SNP	C	C	T	rs41306071	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	39	56	0	0.513158	0	C|0.819;T|0.181	0.181	strong	CNTLN,NS,carcinoma,0,1	CNTLN	128	1	NM_017738	exon1	c.C52T	p.L18L	CGACAGCTGGGCC	.	PASS	Atlas-SNP
TRIM66	9866	hgsc.bcm.edu	37	11	8671296	8671296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	18	51	0	0.486486	0	.	.	none	.	TRIM66	45	.	NM_014818	exon3	c.G148A	p.G50R	GAGATCCCTTCTG	.	PASS	Atlas-SNP
KRT6B	3854	hgsc.bcm.edu	37	12	52841765	52841765	+	Silent	SNP	G	G	A	rs388626	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	56	111	0	0.474576	0	G|0.488;A|0.512	0.512	strong	.	KRT6B	90	.	NM_005555	exon7	c.C1221T	p.A407A	AATGGCGGCCTGT	.	PASS	Atlas-SNP
SAP30BP	29115	hgsc.bcm.edu	37	17	73702135	73702135	+	Silent	SNP	G	G	A	rs56144802	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	9	10	0	0.45	0	G|0.972;A|0.028	0.028	strong	.	SAP30BP	30	.	NM_013260	exon10	c.G708A	p.T236T	CGCCACGTCCACC	.	PASS	Atlas-SNP
STAT3	6774	hgsc.bcm.edu	37	17	40498635	40498635	+	Silent	SNP	C	C	T	rs146184566	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	42	128	0	0.42	0	C|0.999;T|0.001	0.001	strong	STAT3,NS,carcinoma,0,1	STAT3	268	1	NM_003150	exon3	c.G225A	p.S75S	AACATTCGACTCT	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62193733	62193733	+	Missense_Mutation	SNP	C	C	T	rs370768380		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	53	0	0.479167	0	.	.	weak	PRIC285,colon,carcinoma,0,1	.	.	1	NM_001037335	exon10	c.G6305A	p.R2102H	TCCTTGCGGCTGG	.	PASS	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73150918	73150918	+	Missense_Mutation	SNP	C	C	T	rs41287373	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	43	124	0	0.447917	0	C|0.770;T|0.230	0.230	strong	.	TRPM3	700	.	NM_001007471	exon25	c.G5075A	p.R1692K	GACAGTCTCCTCA	.	PASS	Atlas-SNP
DLX5	1749	hgsc.bcm.edu	37	7	96653684	96653684	+	Silent	SNP	G	G	C	rs61753628	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	61	120	1	0.512605	0.00833333	G|0.994;C|0.006	0.006	strong	DLX5,caecum,carcinoma,0,1	DLX5	52	1	NM_005221	exon1	c.C252G	p.A84A	GCTCCCGGCGGAG	.	scavenged	Atlas-SNP
TCEB3	6924	hgsc.bcm.edu	37	1	24083494	24083494	+	Silent	SNP	C	C	T	rs2076345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	96	159	0	0.536313	0	C|0.764;T|0.236	0.236	strong	.	TCEB3	61	.	NM_003198	exon10	c.C2214T	p.S738S	CAGTAGCATCAGC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284505	152284505	+	Missense_Mutation	SNP	C	C	G	rs201137357	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	280	14	216	0	0.05	0	.	.	weak	FLG,NS,carcinoma,0,1	FLG	900	1	NM_002016	exon3	c.G2857C	p.E953Q	GTCCCTCACTGTC	.	scavenged	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178581859	178581859	+	Silent	SNP	G	G	A	rs2278221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	137	177	0	0.985611	0	G|0.802;A|0.198	0.198	strong	.	ADAMTS2	190	.	NM_021599	exon7	c.C1194T	p.D398D	GAAGCCGTCCTCA	.	PASS	Atlas-SNP
CCDC14	64770	hgsc.bcm.edu	37	3	123665902	123665902	+	Missense_Mutation	SNP	T	T	G	rs17310144	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	151	113	0	0.993421	0	T|0.623;G|0.377	0.377	strong	.	CCDC14	97	.	NM_022757	exon7	c.A970C	p.T324P	GATGCGTTTCTTT	.	PASS	Atlas-SNP
SLC7A7	9056	hgsc.bcm.edu	37	14	23248112	23248112	+	Silent	SNP	A	A	G	rs1805061	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	58	104	0	0.508772	0	A|0.800;G|0.200	0.200	strong	.	SLC7A7	36	.	NM_001126105	exon5	c.T660C	p.G220G	TGATGAACCCTCA	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104123911	104123911	+	Silent	SNP	C	C	T	rs10778281	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	23	52	0	0.442308	0	C|0.717;T|0.283	0.283	strong	.	STAB2	370	.	NM_017564	exon49	c.C5100T	p.N1700N	TATAAACAATAAG	.	PASS	Atlas-SNP
TMC7	79905	hgsc.bcm.edu	37	16	19056695	19056695	+	Silent	SNP	C	C	T	rs137989665	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	69	172	0	0.442308	0	C|1.000;T|0.000	0.000	strong	.	TMC7	75	.	NM_024847	exon11	c.C1488T	p.Y496Y	AATGTACAAGCTG	.	PASS	Atlas-SNP
GLP1R	2740	hgsc.bcm.edu	37	6	39034072	39034072	+	Missense_Mutation	SNP	G	G	A	rs6923761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	30	78	0	0.47619	0	A|0.199;G|0.801	0.199	strong	.	GLP1R	64	.	NM_002062	exon5	c.G502A	p.G168S	CTCCTCGGCTTCA	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187540654	187540654	+	Silent	SNP	T	T	A	rs3796647	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	50	104	0	0.46729	0	T|0.927;A|0.073	0.073	strong	.	FAT1	500	.	NM_005245	exon10	c.A7086T	p.A2362A	ATCAACTGCCCTC	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152499143	152499143	+	Missense_Mutation	SNP	C	C	T	rs35974308	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	60	118	0	0.491803	0	C|0.981;T|0.019	0.019	strong	.	NEB	1697	.	NM_004543	exon60	c.G8318A	p.R2773Q	TCTACCCGCATGT	.	PASS	Atlas-SNP
PJA2	9867	hgsc.bcm.edu	37	5	108713982	108713982	+	Silent	SNP	T	T	C	rs12523186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	180	195	0	1	0	T|0.606;C|0.394	0.394	strong	.	PJA2	53	.	NM_014819	exon4	c.A1206G	p.A402A	CCTTCCTGCTGTG	.	PASS	Atlas-SNP
SH3TC1	54436	hgsc.bcm.edu	37	4	8229378	8229378	+	Silent	SNP	C	C	A	rs139890356	bycluster;by1000genomes;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	21	24	0	0.552632	0	C|0.996;T|0.004	.	alt	.	SH3TC1	105	.	NM_018986	exon12	c.C1957A	p.R653R	GCGCTGCGGCGGG	.	PASS	Atlas-SNP
TWISTNB	221830	hgsc.bcm.edu	37	7	19744417	19744417	+	Silent	SNP	T	T	C	rs11543308	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	172	160	1	0.693548	0.00625	T|0.918;C|0.082	0.082	strong	.	TWISTNB	63	.	NM_001002926	exon2	c.A381G	p.P127P	CTGCCCTGGTTCA	.	PASS	Atlas-SNP
CTAGE5	4253	hgsc.bcm.edu	37	14	39818145	39818145	+	Missense_Mutation	SNP	G	G	A	rs1060878	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	65	132	0	0.485075	0	G|0.654;A|0.346	0.346	strong	.	CTAGE5	75	.	NM_001247989	exon23	c.G2227A	p.G743R	CCACCAGGGGATT	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72170408	72170408	+	Missense_Mutation	SNP	C	C	A	rs35781168	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	74	149	0	0.453988	0	C|0.990;A|0.010	0.010	strong	.	PMFBP1	101	.	NM_031293	exon9	c.G1142T	p.R381L	TGCAGCCGGCACT	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70172890	70172890	+	Missense_Mutation	SNP	C	C	T	rs142218067	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	35	185	0	0.189189	0	C|0.870;T|0.130	0.130	strong	PDPR,colon,carcinoma,-1,2	PDPR	66	2	NM_017990	exon11	c.C1279T	p.R427C	AGCAGCCGCACCT	.	scavenged	Atlas-SNP
EEF2	1938	hgsc.bcm.edu	37	19	3982967	3982967	+	Silent	SNP	G	G	A	rs2230561	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	22	38	0	0.52381	0	G|0.937;A|0.063	0.063	strong	.	EEF2	57	.	NM_001961	exon4	c.C450T	p.R150R	CTTGATGCGCTCG	.	PASS	Atlas-SNP
TMEM177	80775	hgsc.bcm.edu	37	2	120438515	120438515	+	Missense_Mutation	SNP	G	G	C	rs11684353	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	69	110	0	0.579832	0	C|0.155;G|0.845;T|0.000	0.155	strong	.	TMEM177	26	.	NM_030577	exon2	c.G86C	p.G29A	TGTTTGGAGTTCC	.	PASS	Atlas-SNP
ARRDC4	91947	hgsc.bcm.edu	37	15	98513845	98513845	+	Missense_Mutation	SNP	T	T	C	rs2130882	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	100	95	1	0.990099	0.0105263	C|0.387;N|0.001	0.387	strong	ARRDC4,colon,carcinoma,0,1	ARRDC4	30	1	NM_183376	exon7	c.T1072C	p.S358P	GTGGTATCAGAGG	.	scavenged	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	37	7	135269656	135269656	+	Missense_Mutation	SNP	G	G	A	rs61459701	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	20	91	0	0.327869	0	G|0.964;A|0.036	0.036	strong	.	NUP205	198	.	NM_015135	exon8	c.G1119A	p.M373I	CCTCATGGAATCT	.	PASS	Atlas-SNP
HLA-DRA	3122	hgsc.bcm.edu	37	6	32411646	32411646	+	Missense_Mutation	SNP	T	T	G	rs7192	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	165	136	0	0.993976	0	T|0.376;G|0.624	0.624	strong	HLA-DRA,colon,carcinoma,0,1	HLA-DRA	34	1	NM_019111	exon4	c.T724G	p.L242V	AAGGGATTGCGCA	.	PASS	Atlas-SNP
LYZ	4069	hgsc.bcm.edu	37	12	69744014	69744014	+	Missense_Mutation	SNP	C	C	A	rs1800973	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	57	116	0	0.491379	0	C|0.961;A|0.039	0.039	strong	.	LYZ	7	.	NM_000239	exon2	c.C263A	p.T88N	GCAAAACCCCAGG	.	PASS	Atlas-SNP
TMEM175	84286	hgsc.bcm.edu	37	4	951947	951947	+	Missense_Mutation	SNP	T	T	C	rs34311866	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	33	61	0	0.492537	0	T|0.874;C|0.126	0.126	strong	.	TMEM175	44	.	NM_032326	exon11	c.T1178C	p.M393T	TGGCCATGTGGAC	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970859	151970859	+	Missense_Mutation	SNP	C	C	T	rs149992209	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	288	24	267	0	0.0833333	0	C|0.994;T|0.006	0.006	strong	MLL3_ENST00000355193,NS,carcinoma,0,14	MLL3	1564	14	NM_170606	exon7	c.G943A	p.G315S	AGGTGCCGGCTCC	.	PASS	Atlas-SNP
VSX2	338917	hgsc.bcm.edu	37	14	74711883	74711883	+	Silent	SNP	C	C	T	rs35435463	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	35	43	0	0.555556	0	C|0.634;T|0.366	0.366	strong	.	VSX2	32	.	NM_182894	exon3	c.C471T	p.S157S	TACCTCCTACCAG	.	PASS	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	37	2	186678633	186678633	+	Missense_Mutation	SNP	C	C	T	rs17826666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	89	168	0	0.549383	0	C|0.944;T|0.056	0.056	strong	.	FSIP2	251	.	NM_173651	exon18	c.C20456T	p.T6819I	AAAGTACTGAAGC	.	PASS	Atlas-SNP
UBR5	51366	hgsc.bcm.edu	37	8	103306033	103306033	+	Silent	SNP	T	T	C	rs16869352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	52	91	0	0.45614	0	T|0.957;C|0.043	0.043	strong	.	UBR5	285	.	NM_015902	exon34	c.A4389G	p.V1463V	TTGGAATACACGC	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114362515	114362515	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	2	126	0	0.0151515	0	.	.	none	RBM19,right_upper_lobe,carcinoma,-2,1	RBM19	117	1	NM_001146699	exon18	c.G2292A	p.K764K	GTTCTTCTTCTTG	.	scavenged	Atlas-SNP
SLC39A3	29985	hgsc.bcm.edu	37	19	2732986	2732986	+	Silent	SNP	T	T	C	rs759073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	8	10	0	1	0	T|0.411;C|0.589	0.589	strong	SLC39A3,NS,carcinoma,0,1	SLC39A3	20	1	NM_144564	exon3	c.A708G	p.V236V	GGCGCTTACGGTG	.	scavenged	Atlas-SNP
AKNAD1	254268	hgsc.bcm.edu	37	1	109369915	109369915	+	Missense_Mutation	SNP	G	G	T	rs7551421	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	50	103	0	0.537634	0	G|0.440;N|0.001	.	strong	AKNAD1,NS,carcinoma,-2,2	AKNAD1	83	2	NM_152763	exon11	c.C1848A	p.N616K	CTCCACGTTTTGC	.	PASS	Atlas-SNP
EFS	10278	hgsc.bcm.edu	37	14	23830042	23830042	+	Missense_Mutation	SNP	T	T	C	rs2231798	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	15	54	0	0.454545	0	T|0.564;C|0.436	0.436	strong	.	EFS	37	.	NM_005864	exon2	c.A19G	p.T7A	GCTGGGTCTGGTT	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38120542	38120542	+	Missense_Mutation	SNP	C	C	T	rs142024473	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	66	143	0	0.4125	0	C|0.963;T|0.037	0.037	strong	.	TRIOBP	262	.	NM_001039141	exon7	c.C1979T	p.A660V	CCAGAGCCTCCTC	.	PASS	Atlas-SNP
LRRC6	23639	hgsc.bcm.edu	37	8	133584558	133584558	+	Missense_Mutation	SNP	A	A	G	rs9297853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	258	147	199	0	0.569767	0	A|0.843;G|0.157	0.157	strong	.	LRRC6	58	.	NM_012472	exon12	c.T1397C	p.I466T	TTTCAAATCAGCG	.	PASS	Atlas-SNP
PCDHB15	56121	hgsc.bcm.edu	37	5	140626767	140626767	+	Silent	SNP	C	C	T	rs3096081	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	65	135	0	0.419355	0	C|0.770;T|0.230	0.230	strong	PCDHB15,NS,carcinoma,-2,1	PCDHB15	138	1	NM_018935	exon1	c.C1621T	p.L541L	CCGGCGCTGAGCA	.	PASS	Atlas-SNP
RPUSD4	84881	hgsc.bcm.edu	37	11	126081403	126081403	+	Missense_Mutation	SNP	T	T	C	rs2282580	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	57	56	0	1	0	T|0.608;C|0.392	0.392	strong	.	RPUSD4	36	.	NM_001144827	exon1	c.A131G	p.Q44R	AATCTCTGGGCAT	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112176559	112176559	+	Silent	SNP	T	T	G	rs866006	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	111	95	0	1	0	T|0.384;G|0.616	0.616	strong	.	APC	4158	.	NM_001127510	exon17	c.T5268G	p.S1756S	TGCGTCTTCTTCT	.	PASS	Atlas-SNP
ADCY6	112	hgsc.bcm.edu	37	12	49162439	49162439	+	Missense_Mutation	SNP	C	C	G	rs200204618	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	51	92	0	0.53125	0	.	.	weak	.	ADCY6	81	.	NM_015270	exon21	c.G3442C	p.V1148L	TGACCACCCCTCG	.	PASS	Atlas-SNP
KLHL33	123103	hgsc.bcm.edu	37	14	20898308	20898308	+	Missense_Mutation	SNP	C	C	T	rs17242648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	18	50	0	0.409091	0	C|0.873;T|0.127	0.127	strong	.	KLHL33	37	.	NM_001109997	exon2	c.G527A	p.R176Q	GCTGCCCGCACCC	.	PASS	Atlas-SNP
URGCP	55665	hgsc.bcm.edu	37	7	43916491	43916491	+	Silent	SNP	G	G	A	rs2232109	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	34	78	0	0.317757	0	G|0.918;A|0.082	0.082	strong	.	URGCP	170	.	NM_001077663	exon6	c.C2571T	p.D857D	GAAGCCGTCGCCC	.	PASS	Atlas-SNP
CCDC39	339829	hgsc.bcm.edu	37	3	180365956	180365956	+	Silent	SNP	G	G	A	rs6769457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	54	76	0	0.54	0	G|0.678;A|0.322	0.322	strong	.	CCDC39	242	.	NM_181426	exon10	c.C1359T	p.S453S	TACCTGGCTGTAC	.	PASS	Atlas-SNP
ZNF98	148198	hgsc.bcm.edu	37	19	22574357	22574357	+	Missense_Mutation	SNP	C	C	G	rs78240139		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	522	73	492	0	0.139847	0	C|0.500;G|0.500	0.500	weak	ZNF98_ENST00000357774,NS,carcinoma,0,4	ZNF98	230	4	NM_001098626	exon4	c.G1680C	p.K560N	GGAAATCTTTGCA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511294	195511294	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	10	102	0	0.0403226	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C7157A	p.P2386H	GTGACAGGAAGAG	.	PASS	Atlas-SNP
STARD7	56910	hgsc.bcm.edu	37	2	96859034	96859034	+	Silent	SNP	A	A	G	rs997547	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	77	162	0	0.432584	0	A|0.904;G|0.096	0.096	strong	STARD7,NS,carcinoma,0,1	STARD7	49	1	NM_020151	exon4	c.T606C	p.I202I	CCTCTCAATCACC	.	PASS	Atlas-SNP
GJA4	2701	hgsc.bcm.edu	37	1	35259946	35259946	+	Silent	SNP	G	G	A	rs1764389	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	64	147	1	0.457143	0.00680272	G|0.731;A|0.269	0.269	strong	GJA4,NS,carcinoma,0,1	GJA4	25	1	NM_002060	exon2	c.G132A	p.V44V	GTCAGTGTGGGGT	.	scavenged	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4511860	4511860	+	Silent	SNP	G	G	A	rs79731243	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	52	225	0	0.210526	0	G|0.912;A|0.088	0.088	strong	.	PLIN4	191	.	NM_001080400	exon3	c.C2070T	p.L690L	CCCCATGAGCCCA	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14824799	14824799	+	Silent	SNP	G	G	A	rs12236053	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	43	77	0	0.417476	0	G|0.831;A|0.169	0.169	strong	.	FREM1	261	.	NM_144966	exon12	c.C2073T	p.S691S	CCTGTGGCTGAAG	.	PASS	Atlas-SNP
ITFG3	83986	hgsc.bcm.edu	37	16	304514	304514	+	Silent	SNP	C	C	T	rs3213508	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	28	60	0	0.4	0	C|0.801;T|0.199	0.199	strong	.	ITFG3	42	.	NM_032039	exon3	c.C102T	p.N34N	GGATAACGTGAAA	.	PASS	Atlas-SNP
NOD2	64127	hgsc.bcm.edu	37	16	50753892	50753892	+	Missense_Mutation	SNP	G	G	A	rs201831159	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	41	51	0	0.61194	0	G|1.000;A|0.000	0.000	strong	.	NOD2	118	.	NM_022162	exon7	c.G2687A	p.R896Q	GGCTCCGAGGCAA	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56370166	56370166	+	Silent	SNP	C	C	T	rs379327	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	82	164	0	0.482353	0	C|0.899;T|0.101	0.101	strong	NLRP4_ENST00000301295,right_upper_lobe,carcinoma,+1,1	NLRP4	331	1	NM_134444	exon3	c.C1407T	p.H469H	GAGCCACCTTGAT	.	PASS	Atlas-SNP
CSTL1	128817	hgsc.bcm.edu	37	20	23424660	23424660	+	Silent	SNP	G	G	C	rs12625959	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	39	77	0	0.5	0	G|0.837;C|0.163	0.163	strong	.	CSTL1	30	.	NM_138283	exon3	c.G309C	p.L103L	CCCCCTGCAAAGC	.	PASS	Atlas-SNP
PYGB	5834	hgsc.bcm.edu	37	20	25255338	25255338	+	Silent	SNP	C	C	T	rs2227894	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	5	28	0	0.294118	0	C|0.873;G|0.000;T|0.126	0.126	strong	PYGB,NS,carcinoma,+2,1	PYGB	84	1	NM_002862	exon5	c.C639T	p.G213G	CGACGGCGTGAAG	.	PASS	Atlas-SNP
ALDH5A1	7915	hgsc.bcm.edu	37	6	24503590	24503590	+	Missense_Mutation	SNP	C	C	T	rs2760118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	15	18	0	0.5	0	C|0.656;T|0.344	0.344	strong	.	ALDH5A1	42	.	NM_001080	exon3	c.C538T	p.H180Y	ATTATCCACACCC	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6580495	6580495	+	Silent	SNP	G	G	A	rs72901756	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	57	97	0	0.518182	0	G|0.957;A|0.043	0.043	strong	.	DNHD1	198	.	NM_144666	exon28	c.G9501A	p.Q3167Q	ACAGCAGCTGAAA	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134340444	134340444	+	Missense_Mutation	SNP	A	A	G	rs201633009	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	37	63	0	0.528571	0	A|0.994;G|0.006	0.006	strong	.	PRRC2B	266	.	NM_013318	exon11	c.A1699G	p.N567D	CAGGAAAACGGCC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609097	32609097	+	Silent	SNP	T	T	C	rs1129738	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	54	166	0	0.915254	0	T|0.743;C|0.257	0.257	strong	.	HLA-DQA1	52	.	NM_002122	exon2	c.T93C	p.V31V	CCACGTTGCCTCT	.	PASS	Atlas-SNP
SHMT2	6472	hgsc.bcm.edu	37	12	57627074	57627074	+	Silent	SNP	G	G	T	rs2229717	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	44	85	0	0.5	0	G|0.952;T|0.048	0.048	strong	.	SHMT2	40	.	NM_005412	exon8	c.G969T	p.L323L	ATCCCTGCAGGGG	.	PASS	Atlas-SNP
FSCB	84075	hgsc.bcm.edu	37	14	44974189	44974189	+	Missense_Mutation	SNP	C	C	A	rs11621923	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	42	59	0	0.823529	0	C|0.624;A|0.376	0.376	strong	FSCB,NS,carcinoma,0,1	FSCB	173	1	NM_032135	exon1	c.G2002T	p.A668S	CTTCAGCGGGGGC	.	PASS	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28378472	28378472	+	Silent	SNP	A	A	G	rs5762430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	36	77	0	0.48	0	A|0.754;G|0.246	0.246	strong	.	TTC28	84	.	NM_001145418	exon23	c.T7183C	p.L2395L	AATTCAACAGACT	.	PASS	Atlas-SNP
C19orf35	374872	hgsc.bcm.edu	37	19	2278755	2278755	+	Missense_Mutation	SNP	C	C	T	rs73518414	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	24	25	0	0.444444	0	C|0.681;T|0.319	0.319	strong	.	C19orf35	18	.	NM_198532	exon3	c.G440A	p.R147H	ATGGTACGGAGGC	.	PASS	Atlas-SNP
SLCO4A1	28231	hgsc.bcm.edu	37	20	61299525	61299525	+	Silent	SNP	G	G	A	rs34985812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	72	132	0	0.510638	0	G|0.964;A|0.036	0.036	strong	.	SLCO4A1	65	.	NM_016354	exon9	c.G1800A	p.T600T	ACTAACGGCAACT	.	PASS	Atlas-SNP
ATXN3L	92552	hgsc.bcm.edu	37	X	13337059	13337059	+	Missense_Mutation	SNP	C	C	T	rs4830842	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	113	124	1	0.991228	0.00806452	C|0.321;0|0.030	.	strong	.	ATXN3L	64	.	NM_001135995	exon1	c.G995A	p.G332D	ACTGTGCCTTCAC	.	PASS	Atlas-SNP
TMEM259	91304	hgsc.bcm.edu	37	19	1014398	1014398	+	Silent	SNP	A	A	G	rs7146	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	74	141	0	0.493333	0	A|0.317;G|0.683	0.683	strong	.	.	.	.	NM_033420	exon2	c.T300C	p.H100H	ACGCACATGCTCC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324104	31324104	+	Silent	SNP	G	G	A	rs281864624		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	46	132	0	0.248649	0	G|0.820;A|0.180	0.180	weak	.	HLA-B	54	.	NM_005514	exon3	c.C459T	p.D153D	GCGCAGGTCCTCG	.	PASS	Atlas-SNP
ST8SIA2	8128	hgsc.bcm.edu	37	15	92987938	92987938	+	Silent	SNP	C	C	G	rs2305561	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	33	118	0	0.37931	0	C|0.758;G|0.242	0.242	strong	.	ST8SIA2	41	.	NM_006011	exon5	c.C621G	p.P207P	GAACCCCTCGGTC	.	PASS	Atlas-SNP
MTA1	9112	hgsc.bcm.edu	37	14	105930406	105930406	+	Missense_Mutation	SNP	G	G	A	rs4983413	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	70	125	0	0.4375	0	G|0.782;A|0.218	0.218	strong	MTA1,NS,carcinoma,0,1	MTA1	61	1	NM_004689	exon13	c.G1114A	p.V372I	AACAACGTCAAGG	.	PASS	Atlas-SNP
LHX9	56956	hgsc.bcm.edu	37	1	197896728	197896728	+	Silent	SNP	T	T	C	rs12046958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	69	108	0	0.420732	0	T|0.773;C|0.227	0.227	strong	LHX9,NS,carcinoma,0,1	LHX9	144	1	NM_020204	exon4	c.T741C	p.N247N	TTGTAATGAGAAT	.	PASS	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	37	10	135012429	135012429	+	Missense_Mutation	SNP	T	T	A	rs3008390	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	7	0	0	0.875	.	T|0.596;A|0.404	0.404	strong	.	KNDC1	155	.	NM_152643	exon14	c.T2417A	p.V806D	CTGGAGTTGCTTC	.	PASS	Atlas-SNP
OR5B12	390191	hgsc.bcm.edu	37	11	58207203	58207203	+	Missense_Mutation	SNP	C	C	T	rs11229457	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	27	78	0	0.385714	0	C|0.782;T|0.218	0.218	strong	.	OR5B12	80	.	NM_001004733	exon1	c.G422A	p.C141Y	GCCAGGCAAGCAC	.	PASS	Atlas-SNP
SPPL2A	84888	hgsc.bcm.edu	37	15	51041909	51041909	+	Missense_Mutation	SNP	C	C	T	rs145832874	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	46	73	0	0.522727	0	C|0.998;T|0.002	0.002	strong	.	SPPL2A	26	.	NM_032802	exon2	c.G101A	p.G34E	CCATTTCCAGACG	.	PASS	Atlas-SNP
ALDH3A1	218	hgsc.bcm.edu	37	17	19644472	19644472	+	Silent	SNP	A	A	T	rs2072330	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	58	124	0	0.495726	0	A|0.701;T|0.299	0.299	strong	.	ALDH3A1	40	.	NM_001135168	exon5	c.T741A	p.P247P	GTAGTCAGGGGCC	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13367406	13367406	+	Silent	SNP	C	C	T	rs665064	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	56	59	1	1	0.0169492	C|0.581;T|0.419	0.419	strong	NUP210,bladder,carcinoma,-1,1	NUP210	182	1	NM_024923	exon33	c.G4533A	p.S1511S	GTTGGCCGAGGAG	.	scavenged	Atlas-SNP
TGFB2	7042	hgsc.bcm.edu	37	1	218520315	218520315	+	Missense_Mutation	SNP	G	G	A	rs10482721	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	56	99	0	0.482759	0	G|0.996;A|0.004	0.004	strong	.	TGFB2	102	.	NM_003238	exon1	c.G272A	p.R91H	GCGAGCGCGAGAG	.	PASS	Atlas-SNP
CYB5RL	606495	hgsc.bcm.edu	37	1	54661150	54661150	+	Missense_Mutation	SNP	C	C	T	rs946448	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	26	39	0	0.464286	0	C|0.708;T|0.292	0.292	strong	.	CYB5RL	17	.	NM_001031672	exon3	c.G140A	p.R47K	TCCCACCTTGCCA	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1110829	1110829	+	Silent	SNP	G	G	A	rs2302109	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	180	181	0	0.994475	0	G|0.461;A|0.539	0.539	strong	.	SBNO2	112	.	NM_014963	exon26	c.C2943T	p.N981N	CAGGGCGTTCTGC	.	PASS	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	37	1	16356497	16356497	+	Silent	SNP	C	C	G	rs7411607	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	33	75	0	0.4125	0	C|0.926;G|0.074	0.074	strong	.	CLCNKA	56	.	NM_004070	exon14	c.C1335G	p.A445A	TCTTGCCGTCGCC	.	PASS	Atlas-SNP
BRAF	673	hgsc.bcm.edu	37	7	140449150	140449150	+	Silent	SNP	T	T	C	rs9648696	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	84	121	0	0.595745	0	T|0.696;C|0.304	0.304	strong	.	BRAF	36346	.	NM_004333	exon16	c.A1929G	p.G643G	AACAATTCCAAAT	.	PASS	Atlas-SNP
ANKEF1	63926	hgsc.bcm.edu	37	20	10036202	10036202	+	Missense_Mutation	SNP	G	G	A	rs6087119	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	31	101	0	0.392405	0	G|0.913;A|0.087	0.087	strong	.	.	.	.	NM_198798	exon10	c.G2225A	p.R742Q	AACTACGGCGAGA	.	PASS	Atlas-SNP
ITGB5	3693	hgsc.bcm.edu	37	3	124515308	124515308	+	Silent	SNP	A	A	G	rs1803825	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	17	54	0	0.278689	0	A|0.723;G|0.277	0.277	strong	.	ITGB5	66	.	NM_002213	exon10	c.T1620C	p.F540F	CTTGCCAAACTCG	.	PASS	Atlas-SNP
ZNF324	25799	hgsc.bcm.edu	37	19	58983321	58983321	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	14	27	0	0.388889	0	.	.	none	ZNF324,NS,carcinoma,-2,1	ZNF324	46	1	NM_014347	exon4	c.C1462T	p.R488C	TGTGGCCGCGCCT	.	PASS	Atlas-SNP
SDR42E1	93517	hgsc.bcm.edu	37	16	82033022	82033022	+	Silent	SNP	A	A	G	rs11861598	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	31	56	0	0.607843	0	A|0.956;G|0.044	0.044	strong	.	SDR42E1	26	.	NM_145168	exon3	c.T876C	p.F292F	TGTTAGAAAAGCA	.	PASS	Atlas-SNP
IDI2	91734	hgsc.bcm.edu	37	10	1068639	1068639	+	Silent	SNP	C	C	T	rs13377037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	26	57	0	0.619048	0	C|0.900;N|0.000	.	strong	.	IDI2	20	.	NM_033261	exon3	c.G219A	p.T73T	GACTTTCGTGTCC	.	PASS	Atlas-SNP
NCOA7	135112	hgsc.bcm.edu	37	6	126210395	126210395	+	Missense_Mutation	SNP	T	T	G	rs6919947	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	27	33	0	1	0	T|0.507;G|0.493	0.493	strong	.	NCOA7	92	.	NM_001199619	exon10	c.T1195G	p.S399A	ACTTCTTCTGCAT	.	PASS	Atlas-SNP
GUCY2F	2986	hgsc.bcm.edu	37	X	108708552	108708552	+	Missense_Mutation	SNP	A	A	G	rs12008095	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	72	81	0	1	0	A|0.790;0|0.012	.	strong	.	GUCY2F	178	.	NM_001522	exon3	c.T851C	p.L284P	TAGAGCAGGGCAT	.	PASS	Atlas-SNP
NPY2R	4887	hgsc.bcm.edu	37	4	156135676	156135676	+	Silent	SNP	C	C	T	rs1047214	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	83	70	0	1	0	C|0.329;N|0.000	.	strong	.	NPY2R	87	.	NM_000910	exon2	c.C585T	p.I195I	GATCATCCCGGAC	.	PASS	Atlas-SNP
DNTTIP2	30836	hgsc.bcm.edu	37	1	94341267	94341267	+	Silent	SNP	A	A	G	rs2273165	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	31	56	0	0.469697	0	A|0.510;G|0.490	0.490	strong	.	DNTTIP2	59	.	NM_014597	exon3	c.T1740C	p.F580F	TGCATTAAAATTA	.	PASS	Atlas-SNP
RHOU	58480	hgsc.bcm.edu	37	1	228871693	228871693	+	Silent	SNP	C	C	T	rs3738073	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	12	16	0	0.571429	0	T|0.149;G|0.000;C|0.851	0.149	strong	.	RHOU	20	.	NM_021205	exon1	c.C204T	p.S68S	GGTGAGCTACACC	.	PASS	Atlas-SNP
NLRP7	199713	hgsc.bcm.edu	37	19	55451256	55451256	+	Missense_Mutation	SNP	G	G	T	rs79513034	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	37	92	0	0.402174	0	G|0.989;T|0.011	0.011	strong	.	NLRP7	411	.	NM_001127255	exon4	c.C931A	p.L311I	CCAGGAGCTGGAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9048895	9048895	+	Missense_Mutation	SNP	A	A	C	rs2012761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	59	101	0	0.517544	0	A|0.849;C|0.151	0.151	strong	.	MUC16	4315	.	NM_024690	exon5	c.T32736G	p.S10912R	CCCATGACTGGTG	.	PASS	Atlas-SNP
TCEA3	6920	hgsc.bcm.edu	37	1	23720501	23720501	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	26	92	0	0.238532	0	.	.	none	.	TCEA3	20	.	NM_003196	exon8	c.G690A	p.T230T	CATGTCCGTGCTC	.	PASS	Atlas-SNP
ZC3H13	23091	hgsc.bcm.edu	37	13	46559703	46559703	+	Silent	SNP	T	T	C	rs17067518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	69	117	1	0.552	0.00854701	T|0.981;C|0.019	0.019	strong	ZC3H13,NS,carcinoma,0,1	ZC3H13	197	1	NM_015070	exon10	c.A1449G	p.R483R	ATAATCTCTCATC	.	scavenged	Atlas-SNP
KLF17	128209	hgsc.bcm.edu	37	1	44595410	44595410	+	Missense_Mutation	SNP	A	A	G	rs2485652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	31	0	1	0	A|0.702;G|0.298	0.298	strong	.	KLF17	92	.	NM_173484	exon2	c.A467G	p.N156S	CCCCCAATGGGCT	.	PASS	Atlas-SNP
ALAD	210	hgsc.bcm.edu	37	9	116153900	116153900	+	Silent	SNP	A	A	G	rs1139488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	42	65	0	0.451613	0	G|0.353;N|0.001	0.353	strong	ALAD,NS,carcinoma,0,1	ALAD	36	1	NM_000031	exon4	c.T168C	p.Y56Y	CACACCATACCTG	.	PASS	Atlas-SNP
STAB1	23166	hgsc.bcm.edu	37	3	52540773	52540773	+	Silent	SNP	T	T	C	rs1010553	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	196	65	116	1	0.331633	0.00862069	T|0.407;C|0.593	0.593	strong	STAB1,trunk,malignant_melanoma,+1,1	STAB1	178	1	NM_015136	exon18	c.T1896C	p.G632G	CAATGGTGTGATC	.	scavenged	Atlas-SNP
ZNF335	63925	hgsc.bcm.edu	37	20	44578961	44578961	+	Silent	SNP	A	A	G	rs3746503	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	56	132	0	0.427481	0	A|0.879;G|0.121	0.121	strong	.	ZNF335	115	.	NM_022095	exon22	c.T3384C	p.P1128P	CCCATCAGGACTG	.	PASS	Atlas-SNP
OR8S1	341568	hgsc.bcm.edu	37	12	48919659	48919659	+	Missense_Mutation	SNP	T	T	C	rs71439450	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	60	134	0	0.447761	0	CA|0.500;TG|0.500	.	alt	.	OR8S1	47	.	NM_001005203	exon1	c.T245C	p.L82P	AGATGCTGGAGAA	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47537804	47537804	+	Missense_Mutation	SNP	C	C	G	rs199929757	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	31	48	0	0.688889	0	C|0.996;G|0.005	0.005	strong	.	COL6A2	351	.	NM_058175	exon12	c.C1070G	p.P357R	GTTACCCGGGGGA	.	PASS	Atlas-SNP
GALNT15	117248	hgsc.bcm.edu	37	3	16268974	16268974	+	Silent	SNP	T	T	A	rs15767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	64	61	0	0.581818	0	T|0.600;A|0.400	0.400	strong	GALNTL2,colon,carcinoma,0,4	.	.	4	NM_054110	exon10	c.T1887A	p.R629R	GTGGCGTTTTGAC	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249183	71249183	+	Missense_Mutation	SNP	T	T	C	rs55921335	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	32	92	0	0.426667	0	T|0.650;C|0.350	0.350	strong	KRTAP5-8,colon,carcinoma,0,1	KRTAP5-8	28	1	NM_021046	exon1	c.T82C	p.C28R	TCTAGCTGCTGTG	.	PASS	Atlas-SNP
GPANK1	7918	hgsc.bcm.edu	37	6	31630241	31630241	+	Silent	SNP	C	C	T	rs7992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	66	145	0	0.503817	0	C|0.620;T|0.380	0.380	strong	.	GPANK1	19	.	NM_001199238	exon4	c.G873A	p.R291R	CTGGTCCCTCTTG	.	PASS	Atlas-SNP
FFAR3	2865	hgsc.bcm.edu	37	19	35850022	35850022	+	Missense_Mutation	SNP	A	A	G	rs149009291	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	367	192	409	0	0.523161	0	A|0.891;G|0.109	0.109	strong	.	FFAR3	40	.	NM_005304	exon2	c.A230G	p.N77S	CAGCCAATGGCAT	.	PASS	Atlas-SNP
DIS3L	115752	hgsc.bcm.edu	37	15	66618342	66618342	+	Missense_Mutation	SNP	A	A	G	rs3803412	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	81	77	0	0.987805	0	A|0.760;G|0.240	0.240	strong	.	DIS3L	175	.	NM_001143688	exon12	c.A1841G	p.D614G	ACTTGGATGAGAA	.	PASS	Atlas-SNP
SAT2	112483	hgsc.bcm.edu	37	17	7530271	7530271	+	Silent	SNP	C	C	T	rs858520	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	49	0	0.479167	0	C|0.723;T|0.277	0.277	strong	.	SAT2	8	.	NM_133491	exon4	c.G294A	p.P98P	ATATTCCGGCATC	.	PASS	Atlas-SNP
NRD1	4898	hgsc.bcm.edu	37	1	52264064	52264064	+	Silent	SNP	A	A	G	rs1770791	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	65	130	0	0.408805	0	G|0.360;N|0.000	0.360	strong	.	NRD1	89	.	NM_002525	exon24	c.T2665C	p.L889L	ATTCCAAGATTAA	.	PASS	Atlas-SNP
CCDC169-SOHLH2	100526761	hgsc.bcm.edu	37	13	36744910	36744910	+	Missense_Mutation	SNP	C	C	T	rs2296968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	51	102	0	0.459459	0	C|0.773;T|0.227	0.227	strong	.	.	.	.	NM_001198910	exon15	c.G1246A	p.A416T	CTGAGGCGGAGCT	.	PASS	Atlas-SNP
PODXL2	50512	hgsc.bcm.edu	37	3	127379270	127379270	+	Silent	SNP	C	C	T	rs920232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	86	91	0	0.614286	0	C|0.837;T|0.163	0.163	strong	.	PODXL2	53	.	NM_015720	exon3	c.C399T	p.T133T	AGACACCAGCCAG	.	PASS	Atlas-SNP
OR52I2	143502	hgsc.bcm.edu	37	11	4608116	4608116	+	Missense_Mutation	SNP	T	T	C	rs7128702	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	75	168	0	0.551471	0	T|0.870;C|0.130	0.130	strong	.	OR52I2	50	.	NM_001005170	exon1	c.T74C	p.L25P	TCTCACTTGTGAT	.	PASS	Atlas-SNP
OSBPL3	26031	hgsc.bcm.edu	37	7	24903139	24903139	+	Silent	SNP	C	C	T	rs17851558	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	115	85	0	0.688623	0	C|0.940;T|0.060	0.060	strong	.	OSBPL3	100	.	NM_145321	exon8	c.G753A	p.S251S	TGGTGCCGAGTAT	.	PASS	Atlas-SNP
ZNF853	54753	hgsc.bcm.edu	37	7	6661256	6661256	+	Missense_Mutation	SNP	C	C	G	rs11971880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	267	184	167	1	0.689139	0.00598802	C|0.905;G|0.095	0.095	strong	.	ZNF853	32	.	NM_017560	exon3	c.C634G	p.Q212E	CAGTTACAGCAGC	.	PASS	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329700	8329700	+	Missense_Mutation	SNP	A	A	C	rs10743253	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	210	101	190	0	0.480952	0	A|0.528;C|0.471	0.471	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.A424C	p.K142Q	GGAAAGAAACCCT	.	PASS	Atlas-SNP
ZCCHC9	84240	hgsc.bcm.edu	37	5	80604430	80604430	+	Silent	SNP	C	C	T	rs1055383	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	68	130	0	0.447368	0	C|0.842;T|0.158	0.158	strong	ZCCHC9,caecum,carcinoma,+1,1	ZCCHC9	26	1	NM_001131036	exon3	c.C435T	p.A145A	CCCCGCCGCCCTT	.	PASS	Atlas-SNP
FAM208B	54906	hgsc.bcm.edu	37	10	5784151	5784151	+	Missense_Mutation	SNP	A	A	G	rs45575338	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	68	166	1	0.49635	0.0060241	A|0.816;G|0.184	0.184	strong	C10orf18,NS,carcinoma,-2,1	.	.	1	NM_017782	exon14	c.A2419G	p.I807V	AACAAAATCATAC	.	scavenged	Atlas-SNP
ASB7	140460	hgsc.bcm.edu	37	15	101169694	101169694	+	Silent	SNP	A	A	G	rs61752833	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	53	81	0	0.481818	0	A|0.978;G|0.022	0.022	strong	.	ASB7	32	.	NM_024708	exon5	c.A264G	p.A88A	CTATGCAGCCATG	.	PASS	Atlas-SNP
FSCB	84075	hgsc.bcm.edu	37	14	44974922	44974922	+	Missense_Mutation	SNP	A	A	T	rs3825632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	73	107	0	0.986486	0	A|0.560;T|0.440	0.440	strong	FSCB,NS,carcinoma,0,1	FSCB	173	1	NM_032135	exon1	c.T1269A	p.D423E	CTGAACATCAGCA	.	PASS	Atlas-SNP
PPIE	10450	hgsc.bcm.edu	37	1	40207580	40207580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	81	149	0	0.445055	0	.	.	none	.	PPIE	33	.	NM_006112	exon4	c.C188T	p.A63V	CAGCAGCTATCGA	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34925689	34925689	+	Silent	SNP	G	G	A	rs61739710	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	57	151	0	0.431818	0	G|0.792;A|0.208	0.208	strong	.	SON	343	.	NM_032195	exon3	c.G4152A	p.L1384L	TGTCCTGGAGCCT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9075584	9075584	+	Silent	SNP	T	T	A	rs2547069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	304	159	283	0	0.523026	0	T|0.771;A|0.229	0.229	strong	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon3	c.A11862T	p.T3954T	CCAGCCTGTGGTC	.	PASS	Atlas-SNP
DCDC2	51473	hgsc.bcm.edu	37	6	24205236	24205236	+	Silent	SNP	G	G	A	rs9467075	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	58	125	0	0.456693	0	G|0.867;A|0.133	0.133	strong	.	DCDC2	53	.	NM_001195610	exon9	c.C1017T	p.V339V	CTGATCGACTGGA	.	PASS	Atlas-SNP
PMS2	5395	hgsc.bcm.edu	37	7	6043386	6043386	+	Silent	SNP	G	G	A	rs12532895	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	7	8	0	0.7	0	G|0.942;A|0.058	0.058	strong	.	PMS2	88	.	NM_000535	exon4	c.C288T	p.A96A	TAGGTCGGCAAAC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81219187	81219187	+	Missense_Mutation	SNP	C	C	T	rs13339342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	27	50	0	0.465517	0	C|0.865;T|0.135	0.135	strong	PKD1L2_ENST00000525539,NS,carcinoma,-1,2	PKD1L2	361	2	NM_001076780	exon11	c.G1907A	p.R636H	GCCAGGCGCAGGG	.	PASS	Atlas-SNP
LRIT2	340745	hgsc.bcm.edu	37	10	85984423	85984423	+	Silent	SNP	C	C	T	rs11200926	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	44	79	0	0.536585	0	C|0.806;T|0.194	0.194	strong	.	LRIT2	81	.	NM_001017924	exon2	c.G558A	p.G186G	CTCAGCCCCACAG	.	PASS	Atlas-SNP
NUP54	53371	hgsc.bcm.edu	37	4	77065580	77065580	+	Silent	SNP	T	T	C	rs11558469	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	59	104	1	0.483607	0.00961538	T|0.865;C|0.135	0.135	strong	NUP54,NS,carcinoma,0,1	NUP54	48	1	NM_017426	exon2	c.A114G	p.A38A	GCTGAATGCAGAA	.	scavenged	Atlas-SNP
PCDHB15	56121	hgsc.bcm.edu	37	5	140626790	140626790	+	Silent	SNP	A	A	C	rs3096082	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	39	82	0	0.402062	0	A|0.846;C|0.154	0.154	strong	.	PCDHB15	138	.	NM_018935	exon1	c.A1644C	p.R548R	GGTGCGAGTGCTG	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5485367	5485367	+	Missense_Mutation	SNP	A	A	T	rs12150220	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	25	54	0	0.520833	0	A|0.737;T|0.263	0.263	strong	NLRP1,NS,carcinoma,0,1	NLRP1	358	1	NM_033007	exon3	c.T464A	p.L155H	TAGAGGAGTGAGG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187630590	187630590	+	Missense_Mutation	SNP	G	G	A	rs3733415	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	42	81	0	0.525	0	G|0.762;A|0.238	0.238	strong	.	FAT1	500	.	NM_005245	exon2	c.C392T	p.A131V	GTTCGCGCCTCCA	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36869396	36869396	+	Silent	SNP	G	G	A	rs41282822	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	31	68	0	0.508197	0	G|0.961;A|0.039	0.039	strong	.	KIAA1755	145	.	NM_001029864	exon3	c.C1137T	p.D379D	CAGTGCGTCCTCA	.	PASS	Atlas-SNP
ZNF229	7772	hgsc.bcm.edu	37	19	44932972	44932972	+	Missense_Mutation	SNP	C	C	T	rs1434579	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	117	114	1	0.991525	0.00877193	C|0.728;T|0.272	0.272	strong	ZNF229,NS,carcinoma,+1,1	ZNF229	123	1	NM_014518	exon6	c.G1984A	p.G662R	CCTTTCCGCACTC	.	PASS	Atlas-SNP
SLC5A12	159963	hgsc.bcm.edu	37	11	26705310	26705310	+	Silent	SNP	A	A	G	rs3924551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	29	44	0	0.54717	0	A|0.542;G|0.458	0.458	strong	SLC5A12,NS,carcinoma,0,1	SLC5A12	134	1	NM_178498	exon11	c.T1302C	p.N434N	CTTCCAATTCACA	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177902753	177902753	+	Missense_Mutation	SNP	G	G	C	rs591120	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	29	95	0	0.295918	0	G|0.588;C|0.412	0.412	strong	.	SEC16B	92	.	NM_033127	exon21	c.C2590G	p.P864A	TTCGTGGTCTAGC	.	PASS	Atlas-SNP
SWAP70	23075	hgsc.bcm.edu	37	11	9749645	9749645	+	Silent	SNP	A	A	C	rs397686	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	14	30	0	0.368421	0	C|0.309;A|0.691	0.309	strong	.	SWAP70	40	.	NM_015055	exon5	c.A688C	p.R230R	ACTGAAAGATGGT	.	PASS	Atlas-SNP
SIRT1	23411	hgsc.bcm.edu	37	10	69666598	69666598	+	Silent	SNP	T	T	C	rs2273773	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	39	81	0	0.506494	0	T|0.910;C|0.090	0.090	strong	.	SIRT1	38	.	NM_012238	exon5	c.T994C	p.L332L	ATAGCCTTGTCAG	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59768375	59768375	+	Silent	SNP	A	A	G	rs17714063	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	52	50	0	0.981132	0	A|0.851;G|0.149	0.149	strong	.	PIGN	62	.	NM_176787	exon22	c.T2010C	p.T670T	ACTCTGAGTGCTA	.	PASS	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329652	8329652	+	Missense_Mutation	SNP	A	A	G	rs10743251	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	82	192	0	0.453039	0	A|0.527;G|0.473	0.473	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.A376G	p.T126A	GATTGCACTCACA	.	PASS	Atlas-SNP
PJA2	9867	hgsc.bcm.edu	37	5	108714298	108714298	+	Missense_Mutation	SNP	T	T	C	rs1045706	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	157	158	0	0.993671	0	T|0.639;C|0.361	0.361	strong	.	PJA2	53	.	NM_014819	exon4	c.A890G	p.Q297R	GTATTTTGTTCAC	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140558212	140558212	+	Missense_Mutation	SNP	A	A	C	rs76032682	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	295	80	431	1	0.271186	0.00232019	C|1.000;|0.000	1.000	weak	.	PCDHB8	199	.	NM_019120	exon1	c.A597C	p.K199N	GGACAAAGCGCTG	.	PASS	Atlas-SNP
CDH8	1006	hgsc.bcm.edu	37	16	61687701	61687701	+	Silent	SNP	C	C	T	rs16963768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	72	0	0.506667	0	C|0.868;N|0.000	.	strong	CDH8,rectum,carcinoma,-1,1	CDH8	273	1	NM_001796	exon12	c.G2211A	p.T737T	CGGGGCCGTGGGA	.	PASS	Atlas-SNP
C17orf78	284099	hgsc.bcm.edu	37	17	35743010	35743010	+	Missense_Mutation	SNP	C	C	G	rs1714987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	50	112	0	0.543478	0	C|0.700;G|0.300	0.300	strong	C17orf78,NS,carcinoma,0,1	C17orf78	23	1	NM_173625	exon4	c.C455G	p.T152S	CCACCACTGCCCC	.	PASS	Atlas-SNP
SPATA25	128497	hgsc.bcm.edu	37	20	44515244	44515244	+	Missense_Mutation	SNP	C	C	T	rs146744825	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	41	72	0	0.488095	0	C|0.994;T|0.006	0.006	strong	.	.	.	.	NM_080608	exon2	c.G596A	p.R199Q	TCCCACCGCGCCC	.	PASS	Atlas-SNP
ADAMTSL3	57188	hgsc.bcm.edu	37	15	84581889	84581889	+	Silent	SNP	G	G	A	rs12439867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	87	92	0	0.988636	0	G|0.688;A|0.312	0.312	strong	.	ADAMTSL3	290	.	NM_207517	exon16	c.G1746A	p.P582P	TGGGCCGGGTGTG	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	37	9	35712003	35712003	+	Missense_Mutation	SNP	G	G	A	rs2295795	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	15	31	0	0.75	0	G|0.785;A|0.215	0.215	strong	.	TLN1	185	.	NM_006289	exon28	c.C3680T	p.S1227L	CCTACCGAGTCAC	.	PASS	Atlas-SNP
TMEM161A	54929	hgsc.bcm.edu	37	19	19230816	19230816	+	Missense_Mutation	SNP	T	T	C	rs45467802	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	55	103	0	0.447154	0	T|0.911;C|0.089	0.089	strong	.	TMEM161A	37	.	NM_017814	exon12	c.A1363G	p.I455V	ACCAGATGAGGTA	.	PASS	Atlas-SNP
EFS	10278	hgsc.bcm.edu	37	14	23826822	23826822	+	Silent	SNP	C	C	T	rs2231809	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	38	90	0	0.44186	0	C|0.549;T|0.451	0.451	strong	.	EFS	37	.	NM_005864	exon6	c.G1299A	p.L433L	GAGCTGCAGATCT	.	PASS	Atlas-SNP
CDC16	8881	hgsc.bcm.edu	37	13	115030714	115030714	+	Silent	SNP	T	T	C	rs8809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	49	106	0	0.485149	0	T|0.661;C|0.339	0.339	strong	.	CDC16	50	.	NM_003903	exon17	c.T1602C	p.I534I	TTATATTGGTAAG	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24409165	24409165	+	Silent	SNP	C	C	T	rs4320728	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	35	50	0	0.514706	0	C|0.844;T|0.156	0.156	strong	.	MYOM3	131	.	NM_152372	exon17	c.G2010A	p.E670E	ACAAAACTCGTAC	.	PASS	Atlas-SNP
COL22A1	169044	hgsc.bcm.edu	37	8	139701209	139701209	+	Missense_Mutation	SNP	G	G	T	rs4909444	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	26	58	0	0.490566	0	G|0.699;T|0.301	0.301	strong	.	COL22A1	390	.	NM_152888	exon37	c.C2813A	p.A938D	CCGGGAGCACCCT	.	PASS	Atlas-SNP
FBXO42	54455	hgsc.bcm.edu	37	1	16577908	16577908	+	Missense_Mutation	SNP	G	G	C	rs12069239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	73	143	0	0.486667	0	G|0.654;C|0.346	0.346	strong	.	FBXO42	53	.	NM_018994	exon10	c.C1411G	p.P471A	CTTCAGGAGCAGA	.	PASS	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	37	1	223991119	223991119	+	Missense_Mutation	SNP	G	G	T	rs34683843	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	44	110	0	0.396396	0	G|0.944;T|0.056	0.056	strong	.	TP53BP2	144	.	NM_001031685	exon7	c.C685A	p.Q229K	GTTTTTGCTGGAA	.	PASS	Atlas-SNP
SLC30A4	7782	hgsc.bcm.edu	37	15	45778828	45778828	+	Silent	SNP	G	G	A	rs145466606	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	25	58	0	0.454545	0	G|0.999;A|0.001	0.001	strong	.	SLC30A4	25	.	NM_013309	exon7	c.C1116T	p.A372A	AACTATGGCAGTA	.	PASS	Atlas-SNP
EFCAB13	124989	hgsc.bcm.edu	37	17	45451894	45451894	+	Missense_Mutation	SNP	G	G	A	rs4968318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	44	94	0	0.4	0	G|0.358;A|0.642	0.642	strong	.	.	.	.	NM_152347	exon12	c.G934A	p.V312I	TCAAGTGTAGCAG	.	PASS	Atlas-SNP
FBXO16	157574	hgsc.bcm.edu	37	8	28304767	28304767	+	Missense_Mutation	SNP	G	G	T	rs7016831	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	48	137	0	0.40678	0	C|0.006;G|0.897;T|0.096	0.096	strong	.	FBXO16	29	.	NM_172366	exon7	c.C764A	p.T255N	TCTGGGGTCATTT	.	PASS	Atlas-SNP
MYO9A	4649	hgsc.bcm.edu	37	15	72170400	72170400	+	Missense_Mutation	SNP	G	G	A	rs148435644	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	47	141	0	0.398305	0	G|0.977;A|0.023	0.023	strong	.	MYO9A	203	.	NM_006901	exon31	c.C5912T	p.S1971L	CAATCTGAAGTCT	.	PASS	Atlas-SNP
DDC	1644	hgsc.bcm.edu	37	7	50531015	50531015	+	Missense_Mutation	SNP	G	G	A	rs142110773		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	281	4	147	0	0.0142349	0	G|1.000;A|0.000	0.000	weak	DDC,NS,carcinoma,0,1	DDC	100	1	NM_001082971	exon14	c.C1357T	p.R453C	CCGTGCGAGAACA	.	scavenged	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121038810	121038810	+	Silent	SNP	C	C	T	rs2155369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	210	111	204	0	0.528571	0	T|0.129;G|0.000;C|0.871	0.129	strong	TECTA,colon,carcinoma,+2,1	TECTA	329	1	NM_005422	exon18	c.C5634T	p.S1878S	CGAAAGCGCCAAC	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	37	4	123276961	123276961	+	Silent	SNP	G	G	A	rs62321696	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	58	140	0	0.456693	0	G|0.946;A|0.054	0.054	strong	.	KIAA1109	424	.	NM_015312	exon81	c.G14316A	p.L4772L	AAATCTGCTTCGT	.	PASS	Atlas-SNP
KRR1	11103	hgsc.bcm.edu	37	12	75900588	75900588	+	Silent	SNP	A	A	G	rs2070162	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	42	80	0	0.531646	0	A|0.777;G|0.223	0.223	strong	.	KRR1	37	.	NM_007043	exon3	c.T367C	p.L123L	TTGCTAACAGTTT	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39134455	39134455	+	Silent	SNP	G	G	A	rs2271277	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	31	56	0	0.449275	0	G|0.549;A|0.451	0.451	strong	.	KRT40	27	.	NM_182497	exon9	c.C1290T	p.C430C	TCACAAGCAGCAG	.	PASS	Atlas-SNP
NQO1	1728	hgsc.bcm.edu	37	16	69745145	69745145	+	Missense_Mutation	SNP	G	G	A	rs1800566	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	41	103	0	0.450549	0	G|0.761;A|0.239	0.239	strong	NQO1,NS,carcinoma,0,1	NQO1	21	1	NM_000903	exon6	c.C559T	p.P187S	GTTGAGGTTCTAA	.	PASS	Atlas-SNP
TTLL12	23170	hgsc.bcm.edu	37	22	43572354	43572354	+	Missense_Mutation	SNP	C	C	T	rs11704935	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	32	63	0	0.450704	0	C|0.945;G|0.000;T|0.055	0.055	strong	.	TTLL12	50	.	NM_015140	exon6	c.G889A	p.V297M	GCACCACGGGGTT	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95884323	95884323	+	Missense_Mutation	SNP	G	G	A	rs12434757	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	27	72	1	0.442623	0.0138889	G|0.410;A|0.590	0.590	strong	SYNE3_ENST00000334258,NS,carcinoma,0,6	SYNE3	130	6	NM_152592	exon17	c.C2768T	p.A923V	CAGCACGCCCTCC	.	scavenged	Atlas-SNP
TKT	7086	hgsc.bcm.edu	37	3	53269046	53269046	+	Silent	SNP	T	T	C	rs1051485	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	49	83	0	0.35	0	T|0.837;C|0.163	0.163	strong	.	TKT	38	.	NM_001258028	exon6	c.A606G	p.P202P	CTGCAGTGGGGCC	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197499	39197499	+	Nonsense_Mutation	SNP	G	G	A	rs3213755	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	41	93	0	0.431579	0	G|0.804;A|0.196	0.196	strong	.	KRTAP1-1	23	.	NM_030967	exon1	c.C151T	p.Q51X	TGGTCTGGCAGCA	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39915758	39915758	+	Missense_Mutation	SNP	C	C	G	rs31728	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	30	24	0	1	0	C|0.443;G|0.557	0.557	strong	.	PLEKHG2	329	.	NM_022835	exon19	c.C3985G	p.P1329A	CCTCCCCCAGCCA	.	PASS	Atlas-SNP
AGO2	27161	hgsc.bcm.edu	37	8	141551407	141551407	+	Silent	SNP	G	G	A	rs2293939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	23	36	0	0.71875	0	G|0.783;A|0.217	0.217	strong	.	.	.	.	NM_012154	exon15	c.C1890T	p.R630R	CTGCACGCGCACG	.	PASS	Atlas-SNP
BMP7	655	hgsc.bcm.edu	37	20	55803299	55803299	+	Silent	SNP	C	C	T	rs41274738	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	48	94	0	0.466019	0	C|0.974;T|0.026	0.026	strong	.	BMP7	60	.	NM_001719	exon2	c.G597A	p.Q199Q	GTGCTCCTGGAGC	.	PASS	Atlas-SNP
MROH9	80133	hgsc.bcm.edu	37	1	170959029	170959029	+	Silent	SNP	C	C	T	rs16863922	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	103	137	0	0.595376	0	C|0.806;T|0.194	0.194	strong	.	.	.	.	NM_025063	exon11	c.C913T	p.L305L	AGGCAACTGTGTG	.	PASS	Atlas-SNP
NAALAD2	10003	hgsc.bcm.edu	37	11	89868755	89868755	+	Silent	SNP	G	G	A	rs10734123	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	18	48	0	0.486486	0	G|0.541;A|0.459	0.459	strong	NAALAD2,NS,carcinoma,0,1	NAALAD2	113	1	NM_005467	exon2	c.G111A	p.T37T	AGAAACGACCACT	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8321946	8321946	+	Silent	SNP	T	T	C	rs36247	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	106	102	1	1	0.00980392	T|0.623;C|0.376	0.376	strong	.	.	.	.	NM_024552	exon9	c.T726C	p.S242S	TTCCTCTGACTAC	.	PASS	Atlas-SNP
LTA	4049	hgsc.bcm.edu	37	6	31540556	31540556	+	Missense_Mutation	SNP	T	T	C	rs2229094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	15	50	0	0.428571	0	T|0.737;C|0.263	0.263	strong	.	LTA	18	.	NM_001159740	exon2	c.T37C	p.C13R	AGGGTGTGTGGCA	.	PASS	Atlas-SNP
TEKT1	83659	hgsc.bcm.edu	37	17	6704121	6704121	+	Missense_Mutation	SNP	C	C	T	rs2271233	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	57	122	0	0.448819	0	C|0.951;T|0.049	0.049	strong	TEKT1,rectum,carcinoma,+2,1	TEKT1	49	1	NM_053285	exon7	c.G994A	p.V332I	GTGCGACATCACG	.	PASS	Atlas-SNP
MYO16	23026	hgsc.bcm.edu	37	13	109793177	109793177	+	Silent	SNP	G	G	A	rs150813880	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	22	42	0	0.5	0	G|0.984;A|0.016	0.016	strong	.	MYO16	285	.	NM_001198950	exon32	c.G4617A	p.K1539K	GGTGAAGAAGCTG	.	PASS	Atlas-SNP
SH3GL1	6455	hgsc.bcm.edu	37	19	4362691	4362691	+	Silent	SNP	G	G	C	rs243261	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	18	42	0	0.367347	0	G|0.684;C|0.316	0.316	strong	.	SH3GL1	52	.	NM_003025	exon8	c.C771G	p.P257P	GGGCTTGGGCTTA	.	PASS	Atlas-SNP
EIF3L	51386	hgsc.bcm.edu	37	22	38251629	38251629	+	Silent	SNP	C	C	G	rs11551384	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	82	0	0.511628	0	C|0.938;G|0.062	0.062	strong	.	EIF3L	35	.	NM_001242923	exon4	c.C351G	p.A117A	TGAAGCCATTGCT	.	PASS	Atlas-SNP
RASGEF1C	255426	hgsc.bcm.edu	37	5	179529124	179529124	+	Silent	SNP	G	G	A	rs7725201	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	31	78	0	0.449275	0	G|0.210;A|0.790	0.790	strong	.	RASGEF1C	81	.	NM_175062	exon13	c.C1323T	p.Y441Y	ACTTTCGTAAGAA	.	PASS	Atlas-SNP
PLEKHN1	84069	hgsc.bcm.edu	37	1	909419	909419	+	Silent	SNP	C	C	T	rs28548431	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	13	23	0	0.5	0	C|0.887;T|0.113	0.113	strong	.	PLEKHN1	49	.	NM_032129	exon14	c.C1641T	p.D547D	CCCAGACGCCCCT	.	PASS	Atlas-SNP
JMY	133746	hgsc.bcm.edu	37	5	78596044	78596044	+	Silent	SNP	T	T	C	rs10514159	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	61	78	1	1	0.0128205	T|0.348;C|0.652	0.652	strong	JMY_ENST00000396137,NS,carcinoma,+2,4	JMY	82	4	NM_152405	exon5	c.T1596C	p.D532D	TTATGATCTGCAA	.	scavenged	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5721049	5721049	+	Silent	SNP	A	A	G	rs35870680	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	58	102	0	0.610526	0	A|0.893;G|0.107	0.107	strong	.	EVC	90	.	NM_153717	exon2	c.A249G	p.S83S	CCCATCAAGGAGG	.	PASS	Atlas-SNP
BEND7	222389	hgsc.bcm.edu	37	10	13481466	13481466	+	Silent	SNP	C	C	T	rs76298779	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	30	60	0	0.454545	0	C|0.965;T|0.035	0.035	strong	.	BEND7	85	.	NM_152751	exon9	c.G1113A	p.P371P	CCCACCCGGCAGA	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22846623	22846623	+	Missense_Mutation	SNP	G	G	A	rs71355986	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	11	65	1	0.323529	0.0153846	G|0.827;A|0.173	0.173	strong	ZNF492_ENST00000456783,NS,carcinoma,0,1	ZNF492	129	1	NM_020855	exon4	c.G152A	p.R51Q	TTGCCCGAGACCT	.	scavenged	Atlas-SNP
TEDDM1	127670	hgsc.bcm.edu	37	1	182369233	182369233	+	Missense_Mutation	SNP	A	A	G	rs6674281	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	126	96	0	0.992126	0	A|0.364;G|0.636	0.636	strong	.	TEDDM1	32	.	NM_172000	exon1	c.T388C	p.Y130H	GAGAATAAACGTG	.	PASS	Atlas-SNP
BSN	8927	hgsc.bcm.edu	37	3	49689642	49689642	+	Missense_Mutation	SNP	C	C	T	rs150021639	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	87	105	0	0.564935	0	C|0.987;T|0.013	0.013	strong	.	BSN	272	.	NM_003458	exon5	c.C2653T	p.P885S	CCTGAGCCTAGCC	.	PASS	Atlas-SNP
FOSB	2354	hgsc.bcm.edu	37	19	45971961	45971961	+	Silent	SNP	C	C	G	rs2282695	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	36	39	0	1	0	C|0.632;G|0.368	0.368	strong	.	FOSB	29	.	NM_001114171	exon1	c.C117G	p.A39A	CGCCGCCGCCTCC	.	PASS	Atlas-SNP
LAMC3	10319	hgsc.bcm.edu	37	9	133946915	133946915	+	Silent	SNP	C	C	G	rs10901345	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	29	67	0	0.508772	0	C|0.671;G|0.329	0.329	strong	.	LAMC3	167	.	NM_006059	exon18	c.C3114G	p.L1038L	GTGGCTCCAAGGG	.	PASS	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44072066	44072066	+	Silent	SNP	C	C	T	rs10890266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	24	69	0	0.436364	0	C|0.727;N|0.000	.	strong	.	PTPRF	172	.	NM_002840	exon20	c.C3639T	p.P1213P	CCGGCCCCTGTCT	.	PASS	Atlas-SNP
PRODH2	58510	hgsc.bcm.edu	37	19	36297966	36297966	+	Missense_Mutation	SNP	T	T	A	rs145964090		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	13	65	0	0.183099	0	.	.	weak	.	PRODH2	68	.	NM_021232	exon6	c.A883T	p.S295C	GGCGGCTGAGGGA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093354	1093354	+	Missense_Mutation	SNP	T	T	A	rs56290335	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	12	22	8	0.375	0.363636	T|0.500;A|0.500	0.500	strong	MUC2_ENST00000441003,NS,carcinoma,0,2	MUC2	614	2	NM_002457	exon30	c.T5173A	p.S1725T	CCCATCTCCACCA	.	scavenged	Atlas-SNP
CYP4F3	4051	hgsc.bcm.edu	37	19	15763721	15763721	+	Silent	SNP	G	G	A	rs1805042	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	28	77	0	0.329412	0	G|0.523;A|0.477	0.477	strong	CYP4F3,NS,carcinoma,0,1	CYP4F3	69	1	NM_001199209	exon9	c.G1074A	p.V358V	GGAGGTGCAAGAG	.	PASS	Atlas-SNP
ARHGAP12	94134	hgsc.bcm.edu	37	10	32120678	32120678	+	Silent	SNP	C	C	T	rs2808100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	93	199	0	0.453659	0	C|0.799;T|0.201	0.201	strong	.	ARHGAP12	79	.	NM_018287	exon10	c.G1437A	p.G479G	CTTTTTCCCATTT	.	PASS	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	37	8	27767231	27767231	+	Missense_Mutation	SNP	C	C	G	rs17058207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	29	74	0	0.527273	0	C|0.835;G|0.165	0.165	strong	.	SCARA5	53	.	NM_173833	exon5	c.G946C	p.D316H	CTTCATCCCCCTG	.	PASS	Atlas-SNP
POMC	5443	hgsc.bcm.edu	37	2	25384113	25384113	+	Missense_Mutation	SNP	T	T	C	rs80326661	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	29	25	1	0.5	0.04	T|0.996;C|0.004	0.004	strong	POMC,colon,carcinoma,-1,1	POMC	33	1	NM_001035256	exon4	c.A641G	p.E214G	TTCTTCTCGGCCG	.	scavenged	Atlas-SNP
SH3RF1	57630	hgsc.bcm.edu	37	4	170037572	170037572	+	Missense_Mutation	SNP	G	G	A	rs3811813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	66	93	0	0.532258	0	G|0.906;A|0.094	0.094	strong	SH3RF1,NS,carcinoma,+2,1	SH3RF1	60	1	NM_020870	exon10	c.C1987T	p.P663S	TCAGTGGAGCAGC	.	PASS	Atlas-SNP
C16orf89	146556	hgsc.bcm.edu	37	16	5097947	5097947	+	Missense_Mutation	SNP	A	A	G	rs1127920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	75	76	0	0.974026	0	T|0.086;G|0.260	0.260	strong	.	C16orf89	64	.	NM_001098514	exon7	c.T887C	p.L296S	TTAGATAATTCTT	.	PASS	Atlas-SNP
PAK7	57144	hgsc.bcm.edu	37	20	9547018	9547018	+	Missense_Mutation	SNP	C	C	G	rs11700112	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	15	25	0	0.517241	0	C|0.888;G|0.112;T|0.000	0.112	strong	.	PAK7	194	.	NM_177990	exon5	c.G1004C	p.R335P	TGTGCTCGATCGT	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96139595	96139595	+	Missense_Mutation	SNP	G	G	A	rs72773968	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	21	40	0	0.525	0	G|0.911;A|0.089	0.089	strong	.	ERAP1	59	.	NM_001198541	exon2	c.C35T	p.T12I	GACATGGTTGCAA	.	PASS	Atlas-SNP
FLNA	2316	hgsc.bcm.edu	37	X	153594535	153594535	+	Missense_Mutation	SNP	G	G	A	rs36051194	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	52	52	0	0.928571	0	G|0.995;A|0.005	0.005	strong	.	FLNA	373	.	NM_001456	exon9	c.C1286T	p.T429M	TCTACCGTGCCCT	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371085	240371085	+	Silent	SNP	A	A	T	rs71646826	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	19	50	2	0.253333	0.04	A|0.836;T|0.164	0.164	strong	FMN2,NS,carcinoma,+1,1	FMN2	451	1	NM_020066	exon5	c.A2973T	p.P991P	TCCCCCACTTCCC	.	scavenged	Atlas-SNP
CATSPERG	57828	hgsc.bcm.edu	37	19	38861333	38861333	+	Silent	SNP	G	G	A	rs1052375	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	130	102	0	0.992366	0	G|0.657;A|0.343	0.343	strong	.	CATSPERG	121	.	NM_021185	exon29	c.G3381A	p.P1127P	CATGCCGTCTCTG	.	PASS	Atlas-SNP
MED16	10025	hgsc.bcm.edu	37	19	871135	871135	+	Silent	SNP	A	A	G	rs1683569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	20	44	0	0.338983	0	A|0.743;G|0.257	0.257	strong	MED16,NS,carcinoma,0,1	MED16	61	1	NM_005481	exon13	c.T2217C	p.V739V	GCGGCTAACCAGG	.	PASS	Atlas-SNP
BCAR1	9564	hgsc.bcm.edu	37	16	75269534	75269534	+	Silent	SNP	C	C	T	rs3743613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	42	78	0	0.442105	0	C|0.603;T|0.397	0.397	strong	.	BCAR1	184	.	NM_001170714	exon6	c.G1401A	p.P467P	CTCTGCCGGGGCT	.	PASS	Atlas-SNP
CRHR1	1394	hgsc.bcm.edu	37	17	43906973	43906973	+	Missense_Mutation	SNP	G	G	A	rs75638861	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	70	114	0	0.466667	0	G|0.994;A|0.006	0.006	strong	.	CRHR1	48	.	NM_001145146	exon6	c.G481A	p.V161M	CTGGAGGTGGGGG	.	PASS	Atlas-SNP
PTPLA	9200	hgsc.bcm.edu	37	10	17659149	17659149	+	Missense_Mutation	SNP	C	C	T	rs7895850	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	8	0	0	1	.	C|0.007;G|0.002;T|0.991	0.991	strong	.	PTPLA	34	.	NM_014241	exon1	c.G190A	p.E64K	TCCGCTCGCCGGG	.	PASS	Atlas-SNP
OR2D3	120775	hgsc.bcm.edu	37	11	6942695	6942695	+	Missense_Mutation	SNP	C	C	T	rs12806437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	258	137	210	0	0.531008	0	C|0.859;T|0.141	0.141	strong	OR2D3,NS,carcinoma,0,1	OR2D3	51	1	NM_001004684	exon1	c.C463T	p.R155W	ACACAACGGGTGT	.	PASS	Atlas-SNP
MAPKBP1	23005	hgsc.bcm.edu	37	15	42115747	42115747	+	Missense_Mutation	SNP	G	G	C	rs3959569	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	101	85	0	1	0	G|0.740;C|0.260	0.260	strong	.	MAPKBP1	120	.	NM_001128608	exon30	c.G3719C	p.R1240P	ATGGCCGTCCGTC	.	PASS	Atlas-SNP
TM9SF2	9375	hgsc.bcm.edu	37	13	100181829	100181829	+	Silent	SNP	T	T	C	rs34302265	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	46	101	0	0.511111	0	T|0.995;C|0.005	0.005	strong	.	TM9SF2	52	.	NM_004800	exon4	c.T442C	p.L148L	ATGTTATTGAATT	.	PASS	Atlas-SNP
CLEC18B	497190	hgsc.bcm.edu	37	16	74444863	74444863	+	Missense_Mutation	SNP	G	G	A	rs148861848	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	596	69	626	0	0.115772	0	G|0.958;A|0.042	0.042	strong	CLEC18B,NS,haematopoietic_neoplasm,0,1	CLEC18B	45	1	NM_001011880	exon9	c.C1054T	p.R352C	CCAGGCGGCCCAG	.	scavenged	Atlas-SNP
HBEGF	1839	hgsc.bcm.edu	37	5	139722345	139722345	+	Silent	SNP	G	G	A	rs2074611	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	81	177	1	0.447514	0.00564972	T|0.002;G|0.881;C|0.008;A|0.110	0.110	strong	HBEGF,NS,carcinoma,0,1	HBEGF	12	1	NM_001945	exon3	c.C273T	p.H91H	TTTCCCGTGCTCC	.	scavenged	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134736076	134736076	+	Missense_Mutation	SNP	T	T	G	rs4880288	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	87	74	0	1	0	T|0.485;G|0.515	0.515	strong	.	TTC40	100	.	NM_001200049	exon12	c.A1393C	p.I465L	TCTGGATCCTGTC	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169551682	169551682	+	Silent	SNP	T	T	C	rs6028	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	80	123	0	0.601504	0	C|0.214;N|0.000	0.214	strong	F5,NS,carcinoma,0,1	F5	301	1	NM_000130	exon2	c.A237G	p.Q79Q	GGTAGATTGTGGT	.	PASS	Atlas-SNP
PCDHGB6	56100	hgsc.bcm.edu	37	5	140787850	140787850	+	Silent	SNP	C	C	T	rs62378453	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	2	146	0	0.0135135	0	C|0.906;G|0.094	.	alt	PCDHGB6,NS,carcinoma,0,1	PCDHGB6	120	1	NM_032100	exon1	c.C81T	p.P27P	CTACCCCACCCTG	.	scavenged	Atlas-SNP
PKP3	11187	hgsc.bcm.edu	37	11	396915	396915	+	Silent	SNP	C	C	T	rs12419281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	15	26	0	0.416667	0	C|0.573;T|0.427	0.427	strong	.	PKP3	36	.	NM_007183	exon3	c.C414T	p.N138N	CCACAACGGGGGC	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89205265	89205265	+	Missense_Mutation	SNP	T	T	C	rs17188228	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	44	74	0	0.463158	0	T|0.733;C|0.267	0.267	strong	.	EML5	141	.	NM_183387	exon6	c.A805G	p.I269V	CAGTAATTGGTTT	.	PASS	Atlas-SNP
VWA5B1	127731	hgsc.bcm.edu	37	1	20671961	20671961	+	Missense_Mutation	SNP	G	G	A	rs11582960	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	189	185	1	0.994737	0.00540541	G|0.696;A|0.304	0.304	strong	VWA5B1,colon,carcinoma,0,1	VWA5B1	44	1	NM_001039500	exon17	c.G2639A	p.R880H	ACCGCCGCTACCA	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79025157	79025157	+	Missense_Mutation	SNP	A	A	G	rs10942901	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	66	129	0	0.488889	0	A|0.832;G|0.162	0.162	strong	.	CMYA5	643	.	NM_153610	exon2	c.A569G	p.D190G	TTTATGATAAAGC	.	PASS	Atlas-SNP
P4HB	5034	hgsc.bcm.edu	37	17	79803101	79803101	+	Silent	SNP	A	A	G	rs1130674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	22	43	0	0.4	0	A|0.736;G|0.264	0.264	strong	.	P4HB	43	.	NM_000918	exon10	c.T1365C	p.I455I	GTAATCAATGACC	.	PASS	Atlas-SNP
KY	339855	hgsc.bcm.edu	37	3	134369767	134369767	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	37	107	0	0.194737	0	.	.	none	.	KY	92	.	NM_178554	exon1	c.C36T	p.I12I	CATGTCGATAGAT	.	PASS	Atlas-SNP
MMAB	326625	hgsc.bcm.edu	37	12	110011229	110011229	+	Silent	SNP	G	G	T	rs36013132	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	30	36	0	0.545455	0	.	.	alt	.	MMAB	16	.	NM_052845	exon1	c.C57A	p.R19R	GCACCCGCGCAGG	.	PASS	Atlas-SNP
USP4	7375	hgsc.bcm.edu	37	3	49321424	49321424	+	Missense_Mutation	SNP	T	T	C	rs41290700	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	54	114	0	0.367347	0	T|0.995;C|0.005	0.005	strong	.	USP4	72	.	NM_003363	exon19	c.A2536G	p.I846V	ACCTGATTGGGAA	.	PASS	Atlas-SNP
RASGRF2	5924	hgsc.bcm.edu	37	5	80409729	80409729	+	Silent	SNP	T	T	C	rs10942942	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	8	27	0	0.4	0	T|0.521;C|0.479	0.479	strong	RASGRF2,NS,carcinoma,0,1	RASGRF2	165	1	NM_006909	exon15	c.T2460C	p.S820S	ACGAAGTATTCAA	.	PASS	Atlas-SNP
PRR15	222171	hgsc.bcm.edu	37	7	29606288	29606288	+	Missense_Mutation	SNP	C	C	T	rs10271996	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	61	69	0	0.663043	0	A|0.000;C|0.590;G|0.000;T|0.409	0.409	strong	.	PRR15	6	.	NM_175887	exon2	c.C343T	p.P115S	AGGTCCCCGGAGG	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136287582	136287582	+	Missense_Mutation	SNP	C	C	T	rs34024143	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	36	35	0	0.580645	0	C|0.905;T|0.095	0.095	strong	ADAMTS13,colon,carcinoma,-2,1	ADAMTS13	113	1	NM_139026	exon1	c.C19T	p.R7W	CACCCCCGGGCAA	.	PASS	Atlas-SNP
CDH9	1007	hgsc.bcm.edu	37	5	26885964	26885964	+	Silent	SNP	T	T	G	rs35328154	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	26	72	0	0.433333	0	T|0.992;G|0.008	0.008	strong	.	CDH9	305	.	NM_016279	exon11	c.A1641C	p.A547A	GATTCCTGCTGTA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134624504	134624504	+	Silent	SNP	C	C	T	rs2274429	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	41	94	0	0.532468	0	C|0.701;T|0.299	0.299	strong	.	TTC40	100	.	NM_001200049	exon56	c.G7533A	p.A2511A	GGACCGCGCCAGG	.	PASS	Atlas-SNP
UGT2B17	7367	hgsc.bcm.edu	37	4	69433479	69433479	+	Missense_Mutation	SNP	C	C	G	rs145791375	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	59	0	0	0.464567	.	C|0.999;G|0.001	0.001	strong	.	UGT2B17	34	.	NM_001077	exon1	c.G724C	p.G242R	ACTTACCTAGAAC	.	PASS	Atlas-SNP
USP6NL	9712	hgsc.bcm.edu	37	10	11504752	11504752	+	Silent	SNP	T	T	C	rs12570211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	48	89	0	0.475248	0	T|0.917;C|0.083	0.083	strong	.	USP6NL	57	.	NM_001080491	exon14	c.A2226G	p.P742P	CACTGGTGGAATG	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112176756	112176756	+	Missense_Mutation	SNP	T	T	A	rs459552	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	84	71	0	0.976744	0	T|0.151;A|0.849	0.849	strong	.	APC	4158	.	NM_001127510	exon17	c.T5465A	p.V1822D	CCAAGGTCTTCAA	.	PASS	Atlas-SNP
LRRC42	115353	hgsc.bcm.edu	37	1	54432019	54432019	+	Silent	SNP	G	G	A	rs2294514	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	63	129	0	0.477273	0	G|0.708;A|0.292	0.292	strong	.	LRRC42	29	.	NM_052940	exon7	c.G978A	p.E326E	ACGGGAGACCTCG	.	PASS	Atlas-SNP
WNT7A	7476	hgsc.bcm.edu	37	3	13896284	13896284	+	Silent	SNP	C	C	T	rs12639607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	28	35	0	1	0	C|0.826;T|0.174	0.174	strong	WNT7A,caecum,carcinoma,-1,3	WNT7A	70	3	NM_004625	exon3	c.G315A	p.A105A	GGTGAACGCAGCC	.	PASS	Atlas-SNP
ZNF735	730291	hgsc.bcm.edu	37	7	63679733	63679733	+	Missense_Mutation	SNP	A	A	G	rs10270226	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	158	111	1	0.981366	0.00900901	A|0.311;G|0.689	0.689	strong	.	.	.	.	NM_001159524	exon4	c.A304G	p.S102G	GAGCAGAGCATAA	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324604	31324604	+	Silent	SNP	T	T	C	rs9266179	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	33	132	1	0.942857	0.00757576	T|0.435;C|0.565	0.565	strong	.	HLA-B	54	.	NM_005514	exon2	c.A204G	p.R68R	CTCCTCTCTCGGA	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	215914826	215914826	+	Missense_Mutation	SNP	T	T	C	rs35309576	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	14	58	0	0.269231	0	T|0.785;C|0.215	0.215	strong	USH2A,NS,carcinoma,0,2	USH2A	1168	2	NM_206933	exon60	c.A11602G	p.M3868V	GATCCATTGGGGC	.	PASS	Atlas-SNP
LRRC61	65999	hgsc.bcm.edu	37	7	150034184	150034184	+	Silent	SNP	T	T	C	rs3735170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	14	43	0	0.482759	0	T|0.745;C|0.255	0.255	strong	LRRC61,rectum,carcinoma,0,1	LRRC61	17	1	NM_023942	exon2	c.T234C	p.A78A	GCTAGCTGTGCTC	.	PASS	Atlas-SNP
ZNF718	255403	hgsc.bcm.edu	37	4	155713	155713	+	Missense_Mutation	SNP	A	A	G	rs7440274	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	20	52	0	0.425532	0	A|0.831;G|0.169	0.169	strong	.	.	.	.	NM_001039127	exon4	c.A1238G	p.H413R	ATAATCATAAGAA	.	PASS	Atlas-SNP
POLR1B	84172	hgsc.bcm.edu	37	2	113333238	113333238	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	4	79	0	0.0519481	0	.	.	none	.	POLR1B	95	.	NM_019014	exon15	c.T3340C	p.Y1114H	GTGCCTTATGTTT	.	PASS	Atlas-SNP
CERS5	91012	hgsc.bcm.edu	37	12	50537815	50537815	+	Missense_Mutation	SNP	A	A	G	rs7302981	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	13	37	0	0.276596	0	A|0.260;G|0.740	0.740	strong	LASS5,colon,carcinoma,+1,1	.	.	1	NM_147190	exon2	c.T223C	p.C75R	CAATACAGAGTGC	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136269143	136269143	+	Missense_Mutation	SNP	G	G	A	rs17150554	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	91	1	0.511628	0.010989	G|0.947;A|0.053	0.053	strong	C9orf96_ENST00000371957,NS,carcinoma,0,2	C9orf96	77	2	NM_153710	exon16	c.G1703A	p.R568Q	CCTACCGGGGACT	.	scavenged	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	37	4	84364751	84364751	+	Silent	SNP	A	A	G	rs7665103	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	65	54	0	1	0	A|0.558;G|0.442	0.442	strong	.	HELQ	95	.	NM_133636	exon6	c.T1482C	p.I494I	CATACCAATAATT	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545826	47545826	+	Silent	SNP	C	C	T	rs13046639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	155	157	0	0.974843	0	C|0.584;T|0.416	0.416	strong	.	COL6A2	351	.	NM_058175	exon26	c.C2097T	p.G699G	TGCGGGCGGCACC	.	PASS	Atlas-SNP
TMEM140	55281	hgsc.bcm.edu	37	7	134849209	134849209	+	Missense_Mutation	SNP	C	C	T	rs292500	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	81	109	0	0.613636	0	C|0.975;T|0.025	0.025	strong	.	TMEM140	18	.	NM_018295	exon2	c.C16T	p.P6S	CCAAGGCCTCGGT	.	PASS	Atlas-SNP
XCL1	6375	hgsc.bcm.edu	37	1	168549362	168549362	+	Silent	SNP	G	G	A	rs149760054	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	297	194	294	1	0.653199	0.00340136	G|0.987;A|0.013	0.013	strong	XCL1,colon,carcinoma,+2,1	XCL1	16	1	NM_002995	exon2	c.G123A	p.P41P	ACTGCCGGTTAGC	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177901655	177901655	+	Silent	SNP	G	G	A	rs3748792	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	33	86	0	0.275	0	G|0.786;A|0.214	0.214	strong	.	SEC16B	92	.	NM_033127	exon24	c.C2982T	p.G994G	CCCAGCGCCCGCA	.	PASS	Atlas-SNP
LCP2	3937	hgsc.bcm.edu	37	5	169675739	169675739	+	Missense_Mutation	SNP	A	A	G	rs187889192	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	83	157	0	0.522013	0	A|0.999;G|0.001	0.001	strong	.	LCP2	133	.	NM_005565	exon21	c.T1564C	p.Y522H	ACTGGTATCTGGA	.	PASS	Atlas-SNP
SELP	6403	hgsc.bcm.edu	37	1	169582317	169582317	+	Missense_Mutation	SNP	C	C	T	rs6125	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	41	41	0	0.759259	0	C|0.952;T|0.048	0.048	strong	.	SELP	132	.	NM_003005	exon5	c.G625A	p.V209M	TGAGCACGTGTTG	.	PASS	Atlas-SNP
CNDP1	84735	hgsc.bcm.edu	37	18	72238472	72238472	+	Missense_Mutation	SNP	C	C	A	rs73973908	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	319	114	248	0	0.357367	0	C|0.848;A|0.152	0.152	strong	CNDP1,NS,carcinoma,0,1	CNDP1	98	1	NM_032649	exon7	c.C808A	p.H270N	ATCCTTCATGAAC	.	PASS	Atlas-SNP
OR8S1	341568	hgsc.bcm.edu	37	12	48919660	48919660	+	Silent	SNP	G	G	A	rs35367885	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	59	132	0	0.443609	0	G|0.692;A|0.308	0.308	strong	.	OR8S1	47	.	NM_001005203	exon1	c.G246A	p.L82L	GATGCTGGAGAAC	.	PASS	Atlas-SNP
PODN	127435	hgsc.bcm.edu	37	1	53547800	53547800	+	Silent	SNP	A	A	G	rs6687909	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	20	50	0	0.47619	0	A|0.855;G|0.145	0.145	strong	.	PODN	86	.	NM_153703	exon10	c.A1953G	p.E651E	GGAGGAAGAGGAG	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373170	5373170	+	Missense_Mutation	SNP	C	C	G	rs5006886	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	58	191	4	0.311828	0.0209424	C|0.755;G|0.245	0.245	strong	OR51B6,caecum,carcinoma,-1,1	OR51B6	53	1	NM_001004750	exon1	c.C433G	p.R145G	GGTGTGCGGGTAT	.	scavenged	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7435058	7435058	+	Missense_Mutation	SNP	C	C	T	rs60816800	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	36	74	0	0.433735	0	C|0.893;T|0.107	0.107	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.G1549A	p.A517T	CCCCAGCGTGGAG	.	PASS	Atlas-SNP
GPD1L	23171	hgsc.bcm.edu	37	3	32181723	32181723	+	Missense_Mutation	SNP	A	A	G	rs72552293	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	42	92	0	0.381818	0	A|0.998;G|0.002	0.002	strong	.	GPD1L	25	.	NM_015141	exon4	c.A370G	p.I124V	TAGGGCATAGACG	.	PASS	Atlas-SNP
MEP1A	4224	hgsc.bcm.edu	37	6	46801071	46801071	+	Missense_Mutation	SNP	G	G	T	rs2274658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	73	0	1	0	G|0.604;T|0.396	0.396	strong	.	MEP1A	93	.	NM_005588	exon11	c.G1405T	p.V469L	TTTGGGGTAACTT	.	PASS	Atlas-SNP
TBRG4	9238	hgsc.bcm.edu	37	7	45148667	45148667	+	Missense_Mutation	SNP	G	G	A	rs2304693	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	237	80	162	1	0.337553	0.00617284	G|0.875;A|0.125	0.125	strong	TBRG4,NS,carcinoma,0,1	TBRG4	52	1	NM_001261834	exon2	c.C203T	p.P68L	TCCACCGGCTCCA	.	scavenged	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168041152	168041152	+	Splice_Site	SNP	T	T	C	rs16853169	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	60	143	0	0.512821	0	T|0.904;C|0.096	0.096	strong	.	XIRP2	914	.	NM_001199143	exon4	c.661+2T>C	.	TATTTGTAAGGTT	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69902800	69902800	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	33	58	0	0.515625	0	.	.	none	.	MYPN	189	.	NM_032578	exon3	c.A1006T	p.T336S	GAGGACACAGGAC	.	PASS	Atlas-SNP
CNTNAP3B	728577	hgsc.bcm.edu	37	9	43861081	43861081	+	Missense_Mutation	SNP	T	T	G	rs62536501	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	4	6	1	0.5	0.166667	T|0.555;G|0.445	0.445	strong	CNTNAP3B,NS,carcinoma,0,2	CNTNAP3B	37	2	NM_001201380	exon13	c.T1955G	p.L652R	ACCCGCTCTCGGC	.	scavenged	Atlas-SNP
RNF130	55819	hgsc.bcm.edu	37	5	179498595	179498595	+	Silent	SNP	C	C	T	rs3749821	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	20	17	0	0.37037	0	T|0.569;C|0.431;A|0.000	0.569	strong	.	RNF130	49	.	NM_018434	exon1	c.G108A	p.T36T	GAGCGCCGTGTAG	.	PASS	Atlas-SNP
NUBP2	10101	hgsc.bcm.edu	37	16	1838640	1838640	+	Silent	SNP	T	T	C	rs344359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	58	38	0	0.983051	0	T|0.153;C|0.847	0.847	strong	.	NUBP2	25	.	NM_012225	exon7	c.T741C	p.P247P	GTTCCCTGGGAGC	.	PASS	Atlas-SNP
BCKDHA	593	hgsc.bcm.edu	37	19	41928652	41928652	+	Silent	SNP	C	C	T	rs284652	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	35	48	0	1	0	C|0.348;T|0.652	0.652	strong	.	BCKDHA	36	.	NM_000709	exon7	c.C972T	p.F324F	GCCCTTCCTCATC	.	PASS	Atlas-SNP
KIF1A	547	hgsc.bcm.edu	37	2	241702599	241702599	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	16	37	0	0.307692	0	.	.	none	.	KIF1A	152	.	NM_001244008	exon21	c.C1933T	p.Q645X	TCTCCTGCTTCAT	.	PASS	Atlas-SNP
RASAL1	8437	hgsc.bcm.edu	37	12	113554946	113554946	+	Silent	SNP	G	G	A	rs34456143	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	21	43	0	0.477273	0	G|0.898;A|0.102	0.102	strong	.	RASAL1	89	.	NM_004658	exon9	c.C663T	p.T221T	CTGGAGGGTCTTT	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38768247	38768247	+	Silent	SNP	G	G	A	rs59468016	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	141	131	0	0.979167	0	G|0.796;A|0.204	0.204	strong	.	SCN10A	359	.	NM_006514	exon16	c.C2937T	p.G979G	CCTGGGGCCTCTG	.	PASS	Atlas-SNP
NEURL4	84461	hgsc.bcm.edu	37	17	7224921	7224921	+	Missense_Mutation	SNP	C	C	G	rs3809813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	76	93	0	1	0	C|0.809;G|0.191	0.191	strong	.	NEURL4	192	.	NM_032442	exon18	c.G3057C	p.Q1019H	CTGGAGCTGCCCA	.	PASS	Atlas-SNP
PAK6	56924	hgsc.bcm.edu	37	15	40564441	40564441	+	Missense_Mutation	SNP	G	G	A	rs150100570	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	39	64	0	0.481481	0	G|0.999;A|0.001	0.001	strong	PAK6,NS,adenocarcinoma,+1,1	PAK6	49	1	NM_001128629	exon5	c.G875A	p.R292Q	CTTTCCGACCGCC	.	PASS	Atlas-SNP
D2HGDH	728294	hgsc.bcm.edu	37	2	242690745	242690745	+	Missense_Mutation	SNP	C	C	T	rs1105273	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	61	102	0	0.575472	0	C|0.817;T|0.183	0.183	strong	D2HGDH,NS,carcinoma,-1,1	D2HGDH	39	1	NM_152783	exon8	c.C1082T	p.A361V	AGCACGCGCTGGG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238880	31238880	+	Missense_Mutation	SNP	C	C	T	rs1050357	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	25	150	0	0.25	0	C|0.913;T|0.087	0.087	strong	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon3	c.G589A	p.E197K	CGTTCTCCAGGTA	.	PASS	Atlas-SNP
CNNM1	26507	hgsc.bcm.edu	37	10	101147692	101147692	+	Missense_Mutation	SNP	G	G	A	rs2298316	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	60	126	0	0.483871	0	G|0.935;A|0.065	0.065	strong	.	CNNM1	101	.	NM_020348	exon8	c.G2456A	p.R819Q	CAACCCGGGGCAC	.	PASS	Atlas-SNP
SH2D4A	63898	hgsc.bcm.edu	37	8	19192332	19192332	+	Silent	SNP	G	G	T	rs56005620	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	13	52	1	0.240741	0.0192308	G|0.718;T|0.282	0.282	strong	SH2D4A,NS,carcinoma,+1,3	SH2D4A	49	3	NM_022071	exon4	c.G477T	p.S159S	AGGATCGAGGCCA	.	scavenged	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178555097	178555097	+	Missense_Mutation	SNP	C	C	T	rs35445112	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	14	45	0	0.311111	0	C|0.975;T|0.025	0.025	strong	.	ADAMTS2	190	.	NM_014244	exon17	c.G2480A	p.R827Q	GAGACCCGGGTGT	.	PASS	Atlas-SNP
CETP	1071	hgsc.bcm.edu	37	16	57017319	57017319	+	Missense_Mutation	SNP	G	G	A	rs1800777	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	55	90	0	0.56701	0	G|0.973;A|0.027	0.027	strong	CETP,NS,malignant_melanoma,+1,1	CETP	50	1	NM_000078	exon15	c.G1403A	p.R468Q	TCACTCGAGATGT	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	37	7	107738948	107738948	+	Silent	SNP	G	G	A	rs451252	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	123	98	0	1	0	G|0.674;A|0.326	0.326	strong	.	LAMB4	253	.	NM_007356	exon11	c.C1260T	p.A420A	CTGGCCGGCCACA	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	37	2	37438993	37438993	+	Silent	SNP	G	G	A	rs1137437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	74	161	0	0.468354	0	G|0.635;A|0.365	0.365	strong	.	CEBPZ	68	.	NM_005760	exon12	c.C2793T	p.S931S	TGGAACGCTCTCA	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3076959	3076959	+	Missense_Mutation	SNP	T	T	C	rs28455997	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	10	15	0	0.5	0	T|0.897;C|0.103	0.103	strong	CSMD1_ENST00000537824,colon,carcinoma,-1,2	CSMD1	1469	2	NM_033225	exon29	c.A4490G	p.N1497S	TCCATGTTGAAAC	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536535	1536535	+	Missense_Mutation	SNP	C	C	T	rs2745098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	43	108	0	0.438776	0	C|0.507;T|0.493	0.493	strong	.	PTX4	46	.	NM_001013658	exon3	c.G827A	p.R276K	ACGTTCCTGGTGG	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42363078	42363078	+	Missense_Mutation	SNP	T	T	C	rs77186114	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	18	40	0	0.439024	0	T|0.926;C|0.074	0.074	strong	.	PLA2G4D	72	.	NM_178034	exon18	c.A1880G	p.Y627C	AGCTGGTAGTCTG	.	PASS	Atlas-SNP
SNIP1	79753	hgsc.bcm.edu	37	1	38019747	38019747	+	Silent	SNP	C	C	T	rs2273013	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	18	21	0	0.5	0	C|0.822;T|0.178	0.178	strong	SNIP1,NS,carcinoma,0,1	SNIP1	44	1	NM_024700	exon1	c.G84A	p.V28V	CTTCACCACCACC	.	PASS	Atlas-SNP
DPYSL5	56896	hgsc.bcm.edu	37	2	27169842	27169842	+	Silent	SNP	C	C	A	rs11126784	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	131	136	1	0.977612	0.00735294	C|0.438;A|0.562	0.562	strong	.	DPYSL5	69	.	NM_001253724	exon13	c.C1674A	p.G558G	CGGAGGCAGGTCG	.	PASS	Atlas-SNP
FCGR3A	2214	hgsc.bcm.edu	37	1	161518214	161518214	+	Missense_Mutation	SNP	T	T	C	rs2290834	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	471	160	320	1	0.339703	0.003125	.	.	weak	FCGR3A,NS,carcinoma,+2,2	FCGR3A	38	2	NM_000569	exon3	c.A424G	p.I142V	CACCGATATGGAC	.	PASS	Atlas-SNP
SSH1	54434	hgsc.bcm.edu	37	12	109182049	109182049	+	Silent	SNP	T	T	C	rs3741778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	19	40	0	0.575758	0	T|0.550;C|0.450	0.450	strong	.	SSH1	144	.	NM_018984	exon15	c.A2865G	p.T955T	CTCCTGTGTCCGC	.	PASS	Atlas-SNP
SPATS1	221409	hgsc.bcm.edu	37	6	44310854	44310854	+	Missense_Mutation	SNP	G	G	A	rs10948132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	17	42	0	0.485714	0	G|0.713;A|0.286	0.286	strong	.	SPATS1	61	.	NM_145026	exon2	c.G22A	p.G8R	CTCACTGGAAACA	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117696	117696	+	Missense_Mutation	SNP	G	G	A	rs9406415	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	48	260	0	0.243655	0	G|0.778;A|0.222	0.222	strong	FOXD4_ENST00000382500,brain,glioma,0,1	FOXD4	75	1	NM_207305	exon1	c.C424T	p.R142C	TGCGGCGGTAGTA	.	PASS	Atlas-SNP
HLX	3142	hgsc.bcm.edu	37	1	221057646	221057646	+	Missense_Mutation	SNP	C	C	T	rs2738755	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	67	139	0	0.475177	0	C|0.651;T|0.349	0.349	strong	.	HLX	67	.	NM_021958	exon4	c.C1067T	p.P356L	GAGCCCCGGCTGC	.	PASS	Atlas-SNP
MACROD2	140733	hgsc.bcm.edu	37	20	15967390	15967390	+	Missense_Mutation	SNP	C	C	T	rs41275442	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	65	153	0	0.5	0	C|0.869;T|0.131	0.131	strong	.	MACROD2	34	.	NM_080676	exon14	c.C1004T	p.T335M	ATTCAACGAAGAA	.	PASS	Atlas-SNP
SLC8A2	6543	hgsc.bcm.edu	37	19	47935572	47935572	+	Silent	SNP	G	G	A	rs7259674	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	45	70	0	1	0	G|0.890;A|0.110	0.110	strong	.	SLC8A2	77	.	NM_015063	exon9	c.C2241T	p.H747H	CCAGCCGTGGCAG	.	PASS	Atlas-SNP
PBLD	64081	hgsc.bcm.edu	37	10	70044031	70044031	+	Missense_Mutation	SNP	T	T	C	rs4142048	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	43	84	0	0.52439	0	T|0.753;C|0.247	0.247	strong	.	PBLD	53	.	NM_022129	exon10	c.A770G	p.H257R	CCTCGGTGGGAAC	.	PASS	Atlas-SNP
POP1	10940	hgsc.bcm.edu	37	8	99153088	99153088	+	Missense_Mutation	SNP	A	A	C	rs17184326	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	27	41	0	0.5	0	A|0.859;C|0.141	0.141	strong	.	POP1	85	.	NM_001145860	exon11	c.A1566C	p.K522N	GTCCAAAGCTTTG	.	PASS	Atlas-SNP
TMPRSS11E	28983	hgsc.bcm.edu	37	4	69343287	69343287	+	Missense_Mutation	SNP	A	A	G	rs976002	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	565	278	570	1	0.492035	0.00175439	A|0.789;G|0.211	0.211	strong	.	TMPRSS11E	40	.	NM_014058	exon8	c.A908G	p.Y303C	CATCCTATGAGTT	.	PASS	Atlas-SNP
PRRG2	5639	hgsc.bcm.edu	37	19	50091798	50091798	+	Missense_Mutation	SNP	G	G	T	rs2288920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	41	62	0	0.602941	0	G|0.723;T|0.277	0.277	strong	.	PRRG2	13	.	NM_000951	exon5	c.G346T	p.G116C	CTGACAGGTGGCA	.	PASS	Atlas-SNP
PARD3	56288	hgsc.bcm.edu	37	10	34620220	34620220	+	Silent	SNP	C	C	T	rs3781128	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	38	78	0	0.513514	0	C|0.459;T|0.541	0.541	strong	.	PARD3	131	.	NM_001184787	exon19	c.G2667A	p.S889S	CTCCAACGAGCTT	.	PASS	Atlas-SNP
ANKS1A	23294	hgsc.bcm.edu	37	6	35048829	35048829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	27	80	0	0.27	0	.	.	none	.	ANKS1A	123	.	NM_015245	exon17	c.G2603A	p.G868E	GCACTGGGCGGTC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549531	32549531	+	Missense_Mutation	SNP	T	T	C	rs112796209	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	232	33	194	0	0.142241	0	T|0.921;C|0.079	0.079	strong	.	HLA-DRB1	41	.	NM_002124	exon3	c.A455G	p.Y152C	CCTGGATAGAAAC	.	PASS	Atlas-SNP
CD6	923	hgsc.bcm.edu	37	11	60776103	60776103	+	Silent	SNP	T	T	C	rs61899223	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	118	74	0	1	0	T|0.838;C|0.162	0.162	strong	.	CD6	122	.	NM_006725	exon4	c.T567C	p.T189T	TGACACTTGGGAC	.	PASS	Atlas-SNP
TYK2	7297	hgsc.bcm.edu	37	19	10475652	10475652	+	Missense_Mutation	SNP	C	C	A	rs2304256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	22	47	0	0.360656	0	C|0.745;A|0.247	0.247	strong	.	TYK2	126	.	NM_003331	exon8	c.G1084T	p.V362F	GGCCGACTGCCTT	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72829616	72829616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	198	3	183	0	0.0151515	0	.	.	none	ZFHX3,NS,carcinoma,0,1	ZFHX3	404	1	NM_006885	exon9	c.G6965A	p.R2322Q	CTTGTTCGAATGT	.	scavenged	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51920119	51920119	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	2	124	1	0.0142857	0.00806452	.	.	none	SIGLEC10,NS,carcinoma,-1,1	SIGLEC10	112	1	NM_001171157	exon3	c.C507T	p.A169A	CTCAAAGGCCCAG	.	scavenged	Atlas-SNP
NCOA1	8648	hgsc.bcm.edu	37	2	24929851	24929851	+	Silent	SNP	A	A	T	rs3731628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	53	160	0	0.381295	0	A|0.914;T|0.086	0.086	strong	.	NCOA1	210	.	NM_147223	exon11	c.A1512T	p.P504P	GATGCCAAACAAT	.	PASS	Atlas-SNP
ABCA5	23461	hgsc.bcm.edu	37	17	67287358	67287358	+	Silent	SNP	A	A	G	rs57367176	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	22	52	0	0.468085	0	A|0.971;G|0.029	0.029	strong	.	ABCA5	162	.	NM_018672	exon11	c.T1605C	p.D535D	CTCACCATCAGAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511116	195511116	+	Silent	SNP	A	A	G	rs200940092	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	319	45	157	4	0.141066	0.0254777	A|0.965;G|0.034	0.034	strong	MUC4_ENST00000463781,caecum,carcinoma,-2,1	MUC4	1505	1	NM_018406	exon2	c.T7335C	p.H2445H	GGTGGCATGACCT	.	scavenged	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	37	15	40656724	40656724	+	Silent	SNP	C	C	T	rs72733418	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	43	40	0	0.614286	0	C|0.987;T|0.013	0.013	strong	.	DISP2	86	.	NM_033510	exon4	c.C582T	p.P194P	GCTGCCCGACTTC	.	PASS	Atlas-SNP
SLC7A5	8140	hgsc.bcm.edu	37	16	87885369	87885369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	48	175	0	0.280702	0	.	.	none	.	SLC7A5	28	.	NM_003486	exon2	c.G625A	p.A209T	TCAGGGCCAGGGC	.	PASS	Atlas-SNP
TMTC4	84899	hgsc.bcm.edu	37	13	101287404	101287404	+	Silent	SNP	G	G	A	rs2297943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	36	76	0	0.529412	0	G|0.737;A|0.263	0.263	strong	.	TMTC4	103	.	NM_032813	exon11	c.C1248T	p.P416P	ACTCGCGGGGAGA	.	PASS	Atlas-SNP
OR4C13	283092	hgsc.bcm.edu	37	11	49974670	49974670	+	Silent	SNP	C	C	T	rs16914589	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	99	164	0	0.497487	0	C|0.868;T|0.132	0.132	strong	.	OR4C13	96	.	NM_001001955	exon1	c.C696T	p.H232H	AAGGCACGAAGCC	.	PASS	Atlas-SNP
OSBPL3	26031	hgsc.bcm.edu	37	7	24843979	24843979	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	212	3	119	0	0.0141509	0	.	.	none	OSBPL3,NS,carcinoma,-1,1	OSBPL3	100	1	NM_015550	exon22	c.G2522A	p.R841Q	AAGACCCGCCGCC	.	scavenged	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55526373	55526373	+	Missense_Mutation	SNP	G	G	C	rs2304166	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	13	18	0	0.52	0	G|0.538;C|0.462	0.462	strong	GP6,colon,carcinoma,0,1	GP6	55	1	NM_001083899	exon8	c.C940G	p.P314A	GGGCGGGAGGGGC	.	PASS	Atlas-SNP
PRKCB	5579	hgsc.bcm.edu	37	16	23847575	23847575	+	Silent	SNP	C	C	A	rs75964872	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	34	64	0	0.409639	0	C|0.761;A|0.239	0.239	strong	PRKCB_ENST00000321728,NS,carcinoma,0,3	PRKCB	383	3	NM_212535	exon1	c.C79A	p.R27R	GCCCTCCGGCAGA	.	PASS	Atlas-SNP
VPS8	23355	hgsc.bcm.edu	37	3	184573555	184573555	+	Silent	SNP	C	C	T	rs6443999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	71	98	0	0.537879	0	C|0.471;T|0.529	0.529	strong	.	VPS8	109	.	NM_001009921	exon13	c.C1092T	p.Y364Y	AAATTACGTGAAT	.	PASS	Atlas-SNP
DCPS	28960	hgsc.bcm.edu	37	11	126215507	126215507	+	Silent	SNP	G	G	A	rs139354381	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	10	23	0	0.47619	0	G|0.995;A|0.005	0.005	strong	.	DCPS	33	.	NM_014026	exon6	c.G1013A	p.X338X	AAAGCTGAATTAA	.	PASS	Atlas-SNP
WWC3	55841	hgsc.bcm.edu	37	X	10085227	10085227	+	Silent	SNP	T	T	C	rs7058143	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	39	49	0	1	0	0|0.004;C|0.221	0.221	strong	.	WWC3	142	.	NM_015691	exon11	c.T1128C	p.R376R	CAGCCGTGGGTCT	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43801712	43801712	+	Silent	SNP	A	A	G	rs11899823	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	105	105	0	1	0	A|0.666;G|0.334	0.334	strong	.	THADA	131	.	NM_001083953	exon11	c.T1492C	p.L498L	TTTCCAAGAGGTC	.	PASS	Atlas-SNP
SGSH	6448	hgsc.bcm.edu	37	17	78184393	78184393	+	Missense_Mutation	SNP	C	C	T	rs7503034	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	21	51	0	0.355932	0	C|0.701;N|0.000	.	strong	.	SGSH	27	.	NM_000199	exon8	c.G1367A	p.R456H	GCAAAGCGCGGGT	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	37	19	23543095	23543095	+	Missense_Mutation	SNP	T	T	C	rs296093	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	20	38	0	0.555556	0	T|0.862;C|0.138	0.138	strong	.	ZNF91	349	.	NM_003430	exon4	c.A2686G	p.T896A	TAAGGGTTGAGGA	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72827758	72827758	+	Silent	SNP	T	T	C	rs699444	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	96	121	0	0.979592	0	A|0.000;C|0.883	0.883	strong	ZFHX3,colon,carcinoma,-2,1	ZFHX3	404	1	NM_006885	exon9	c.A8823G	p.G2941G	CCGATCTCCGCTG	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136546110	136546110	+	Silent	SNP	A	A	G	rs2278544	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	41	75	0	0.539474	0	A|0.458;G|0.542	0.542	strong	.	LCT	309	.	NM_002299	exon17	c.T5568C	p.A1856A	GGGTCCAGCATCT	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76922868	76922868	+	Silent	SNP	C	C	T	rs41298757	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	18	40	0	0.486486	0	C|0.975;T|0.025	0.025	strong	.	MYO7A	164	.	NM_000260	exon46	c.C6240T	p.S2080S	ATAGTCCATCGTC	.	PASS	Atlas-SNP
SLK	9748	hgsc.bcm.edu	37	10	105763026	105763026	+	Missense_Mutation	SNP	C	C	T	rs3740469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	40	82	0	0.526316	0	C|0.822;T|0.178	0.178	strong	.	SLK	107	.	NM_014720	exon9	c.C2090T	p.T697I	AAGTTACTGTAGT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576620	4576620	+	Silent	SNP	C	C	T	rs55677157	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	61	97	0	0.495935	0	C|0.892;T|0.108	0.108	strong	.	PELP1	102	.	NM_014389	exon15	c.G1770A	p.P590P	AGGAGACGGGGCC	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1426844	1426844	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	37	75	0	0.637931	0	.	.	none	.	TPO	224	.	NM_175719	exon3	c.G122T	p.S41I	TCTCTAGCGTCTT	.	PASS	Atlas-SNP
ZPBP2	124626	hgsc.bcm.edu	37	17	38024626	38024626	+	Silent	SNP	C	C	T	rs11557466	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	31	34	0	0.596154	0	C|0.658;T|0.342	0.342	strong	.	ZPBP2	33	.	NM_199321	exon1	c.C19T	p.L7L	TGCGTCCTACTCT	.	PASS	Atlas-SNP
HLA-G	3135	hgsc.bcm.edu	37	6	29797406	29797406	+	Silent	SNP	G	G	A	rs79264452		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	15	93	0	0.16129	0	.	.	weak	HLA-G,NS,carcinoma,0,1	HLA-G	90	1	NM_002127	exon5	c.G831A	p.E277E	TGGAGAGGAGCAG	.	scavenged	Atlas-SNP
KIF5C	3800	hgsc.bcm.edu	37	2	149799216	149799216	+	Silent	SNP	T	T	C	rs61734995	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	70	106	0	0.546875	0	T|0.860;C|0.140	0.140	strong	.	KIF5C	166	.	NM_004522	exon7	c.T531C	p.P177P	GAGCCCTGAGGAA	.	PASS	Atlas-SNP
GNB1L	54584	hgsc.bcm.edu	37	22	19808874	19808874	+	Missense_Mutation	SNP	G	G	A	rs36070348	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	25	58	0	0.446429	0	G|0.983;A|0.017	0.017	strong	.	GNB1L	34	.	NM_053004	exon3	c.C5T	p.T2M	GGGGCCGTCATGC	.	PASS	Atlas-SNP
ZHX2	22882	hgsc.bcm.edu	37	8	123964819	123964819	+	Missense_Mutation	SNP	G	G	A	rs9649951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	36	69	0	0.433735	0	G|0.974;A|0.026	0.026	strong	.	ZHX2	106	.	NM_014943	exon3	c.G1069A	p.V357M	ACAAAGGTGACGC	.	PASS	Atlas-SNP
ORC2	4999	hgsc.bcm.edu	37	2	201785837	201785837	+	Silent	SNP	G	G	A	rs2307362	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	16	33	0	0.457143	0	G|0.783;A|0.217	0.217	strong	.	ORC2	48	.	NM_006190	exon14	c.C1173T	p.L391L	GTGGATGAGAAGG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280170	152280170	+	Missense_Mutation	SNP	C	C	G	rs76133835	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	246	106	211	0	0.430894	0	C|0.500;G|0.500	0.500	weak	.	FLG	900	.	NM_002016	exon3	c.G7192C	p.E2398Q	TGGACTCTTGGTG	.	PASS	Atlas-SNP
SLC26A10	65012	hgsc.bcm.edu	37	12	58019495	58019495	+	Silent	SNP	C	C	T	rs774894	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	18	46	0	0.439024	0	C|0.965;T|0.035	0.035	strong	.	SLC26A10	89	.	NM_133489	exon14	c.C1659T	p.S553S	CAGGAGCGGGAGC	.	PASS	Atlas-SNP
SCUBE2	57758	hgsc.bcm.edu	37	11	9069046	9069046	+	Missense_Mutation	SNP	G	G	A	rs3751055	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	86	131	0	0.558442	0	G|0.865;A|0.135	0.135	strong	SCUBE2,NS,carcinoma,0,1	SCUBE2	102	1	NM_020974	exon16	c.C1859T	p.T620M	CTGAGCGTGCGGA	.	PASS	Atlas-SNP
CEP70	80321	hgsc.bcm.edu	37	3	138289221	138289221	+	Missense_Mutation	SNP	C	C	T	rs1673607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	305	180	271	0	0.590164	0	C|0.378;T|0.622	0.622	strong	.	CEP70	51	.	NM_024491	exon6	c.G404A	p.S135N	GCCCTACTTAGTG	.	PASS	Atlas-SNP
POLE	5426	hgsc.bcm.edu	37	12	133212582	133212582	+	Silent	SNP	G	G	A	rs5744990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	24	67	0	0.48	0	G|0.862;A|0.138	0.138	strong	.	POLE	416	.	NM_006231	exon42	c.C5707T	p.L1903L	TTGTCAGAGAATG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9058907	9058907	+	Missense_Mutation	SNP	G	G	C	rs1833777	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	91	119	0	0.98913	0	G|0.589;C|0.411	0.411	strong	MUC16_ENST00000397910,caecum,carcinoma,-2,2	MUC16	4315	2	NM_024690	exon3	c.C28539G	p.H9513Q	AAAAACGTGAATT	.	PASS	Atlas-SNP
NEK10	152110	hgsc.bcm.edu	37	3	27297816	27297816	+	Silent	SNP	G	G	C	rs3213930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	26	62	0	0.361111	0	G|0.368;C|0.632	0.632	strong	NEK10_ENST00000429845,NS,adenoma,0,3	NEK10	271	3	NM_199347	exon24	c.C2061G	p.T687T	CACAGAGGTGAGT	.	PASS	Atlas-SNP
PSMD7	5713	hgsc.bcm.edu	37	16	74334016	74334016	+	Silent	SNP	C	C	T	rs140080000	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	37	84	0	0.45679	0	C|0.999;T|0.001	0.001	strong	.	PSMD7	29	.	NM_002811	exon2	c.C78T	p.I26I	CAGAATCGGCAAG	.	PASS	Atlas-SNP
ALKBH5	54890	hgsc.bcm.edu	37	17	18088094	18088094	+	Silent	SNP	C	C	T	rs11078411	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	128	78	0	1	0	C|0.787;T|0.213	0.213	strong	.	ALKBH5	24	.	NM_017758	exon1	c.C537T	p.H179H	GGAGCACCGCGTC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557497	32557497	+	Missense_Mutation	SNP	C	C	T	rs111934004	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	23	180	0	0.146497	0	C|0.500;T|0.500	0.500	weak	.	HLA-DRB1	41	.	NM_002124	exon1	c.G23A	p.G8E	GAGCCTCCAGGGA	.	PASS	Atlas-SNP
SMCO2	0	hgsc.bcm.edu	37	12	27654898	27654898	+	Silent	SNP	C	C	T	rs61731840	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	42	104	0	0.411765	0	C|0.842;T|0.158	0.158	strong	.	.	.	.	NM_001145010	exon9	c.C876T	p.T292T	CCTCACCGTCACT	.	PASS	Atlas-SNP
CCDC17	149483	hgsc.bcm.edu	37	1	46087577	46087577	+	Missense_Mutation	SNP	G	G	A	rs3014242	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	57	49	0	0.982759	0	G|0.318;A|0.682	0.682	strong	.	CCDC17	54	.	NM_001114938	exon8	c.C1058T	p.P353L	GGCAGCGGTGGTG	.	PASS	Atlas-SNP
SP110	3431	hgsc.bcm.edu	37	2	231072709	231072709	+	Missense_Mutation	SNP	C	C	T	rs1365776	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	52	139	0	0.433333	0	T|0.642;G|0.024	0.642	strong	.	SP110	105	.	NM_001185015	exon9	c.G913A	p.G305R	TACCTCCTGGGAG	.	PASS	Atlas-SNP
CDON	50937	hgsc.bcm.edu	37	11	125889526	125889526	+	Missense_Mutation	SNP	C	C	T	rs3740909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	43	66	0	0.511905	0	C|0.896;N|0.000	.	strong	CDON,NS,carcinoma,0,1	CDON	137	1	NM_016952	exon4	c.G484A	p.E162K	AATGTTCCAGCCA	.	PASS	Atlas-SNP
OR2J3	442186	hgsc.bcm.edu	37	6	29080344	29080344	+	Missense_Mutation	SNP	G	G	A	rs3749977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	244	120	266	0	0.491803	0	G|0.651;A|0.349	0.349	strong	.	OR2J3	53	.	NM_001005216	exon1	c.G677A	p.R226Q	TCGTCCGAGCTAT	.	PASS	Atlas-SNP
ARHGEF19	128272	hgsc.bcm.edu	37	1	16532498	16532498	+	Missense_Mutation	SNP	G	G	A	rs41269185	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	65	142	0	0.401235	0	G|0.923;A|0.077	0.077	strong	.	ARHGEF19	49	.	NM_153213	exon8	c.C1379T	p.P460L	AAGGCCGGGCAGT	.	PASS	Atlas-SNP
LDLRAD2	401944	hgsc.bcm.edu	37	1	22141030	22141030	+	Silent	SNP	C	C	T	rs75506362	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	33	38	0	0.478261	0	C|0.901;T|0.099	0.099	strong	LDLRAD2,NS,carcinoma,0,1	LDLRAD2	17	1	NM_001013693	exon2	c.C225T	p.D75D	CGGCGACCGGATC	.	PASS	Atlas-SNP
CYP3A43	64816	hgsc.bcm.edu	37	7	99459256	99459256	+	Silent	SNP	C	C	T	rs17342647	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	93	144	0	0.494681	0	C|0.936;T|0.064	0.064	strong	.	CYP3A43	52	.	NM_057096	exon11	c.C1047T	p.A349A	CGATGCCCTGGTA	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32188642	32188642	+	Silent	SNP	T	T	C	rs520688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	46	101	0	0.455446	0	T|0.705;C|0.295	0.295	strong	.	NOTCH4	201	.	NM_004557	exon5	c.A813G	p.P271P	ACAGTCTGGGCCT	.	PASS	Atlas-SNP
OR4K1	79544	hgsc.bcm.edu	37	14	20403909	20403909	+	Silent	SNP	T	T	C	rs2792148	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	315	164	221	0	0.520635	0	T|0.729;C|0.271	0.271	strong	.	OR4K1	108	.	NM_001004063	exon1	c.T84C	p.F28F	CTTTTTTGCCATC	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388553	1388553	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	4	101	8	0.039604	0.0792079	.	.	none	CRIPAK,NS,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.A254G	p.H85R	GTGCCCACCTGCT	.	scavenged	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	116800	116800	+	Missense_Mutation	SNP	C	C	G	rs79220013	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	44	155	1	0.453608	0.00645161	C|0.766;G|0.234	0.234	strong	FOXD4_ENST00000382500,NS,carcinoma,0,1	FOXD4	75	1	NM_207305	exon1	c.G1320C	p.X440Y	CTGGCTCTAGGAG	.	scavenged	Atlas-SNP
ADCYAP1	116	hgsc.bcm.edu	37	18	909561	909561	+	Missense_Mutation	SNP	A	A	G	rs2231187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	104	109	0	0.619048	0	A|0.757;C|0.001	.	strong	ADCYAP1,NS,carcinoma,0,1	ADCYAP1	24	1	NM_001117	exon4	c.T456G	p.C152W	CAAGAAATACTTG	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11942771	11942771	+	Silent	SNP	G	G	A	rs436411	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	19	33	0	0.513514	0	G|0.655;A|0.345	0.345	strong	.	ZNF440	56	.	NM_152357	exon4	c.G780A	p.E260E	TCAGGAGTGTGGG	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84778690	84778690	+	Silent	SNP	C	C	T	rs1812062	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	48	97	0	0.48	0	C|0.773;T|0.227	0.227	strong	.	USP10	51	.	NM_001272075	exon5	c.C615T	p.P205P	CATGCCCCCGTCA	.	PASS	Atlas-SNP
PQLC2	54896	hgsc.bcm.edu	37	1	19652063	19652063	+	Silent	SNP	G	G	A	rs11558390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	40	56	0	0.540541	0	G|0.771;A|0.229	0.229	strong	.	PQLC2	34	.	NM_001040125	exon4	c.G369A	p.T123T	CAGGACGCGCCCC	.	PASS	Atlas-SNP
GSDMA	284110	hgsc.bcm.edu	37	17	38122680	38122680	+	Missense_Mutation	SNP	G	G	T	rs7212938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	86	108	0	0.977273	0	G|0.378;T|0.622	0.622	strong	.	GSDMA	26	.	NM_178171	exon3	c.G382T	p.V128L	GAGACCGTGCAGG	.	PASS	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38051355	38051355	+	Silent	SNP	G	G	A	rs762989	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	7	5	2	0	0.714286	0	G|0.825;A|0.175	0.175	strong	.	SH3BP1	41	.	NM_018957	exon18	c.G1770A	p.P590P	AGCCCCGCCCTTG	.	PASS	Atlas-SNP
KCNA7	3743	hgsc.bcm.edu	37	19	49574125	49574125	+	Missense_Mutation	SNP	G	G	C	rs1611775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	19	37	0	0.452381	0	G|0.625;C|0.375	0.375	strong	.	KCNA7	30	.	NM_031886	exon2	c.C566G	p.P189R	TTCAGCGGAGCGG	.	PASS	Atlas-SNP
SLC6A11	6538	hgsc.bcm.edu	37	3	10885920	10885920	+	Silent	SNP	T	T	C	rs2304725	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	143	124	0	1	0	T|0.655;C|0.345	0.345	strong	SLC6A11,NS,adenoma,0,1	SLC6A11	87	1	NM_014229	exon5	c.T645C	p.S215S	CATCTCTGACGGG	.	PASS	Atlas-SNP
TCF20	6942	hgsc.bcm.edu	37	22	42609148	42609148	+	Missense_Mutation	SNP	T	T	C	rs5758651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	29	68	0	0.467742	0	T|0.812;C|0.188	0.188	strong	.	TCF20	164	.	NM_181492	exon1	c.A2164G	p.S722G	AGCCACTGACATT	.	PASS	Atlas-SNP
C6orf195	154386	hgsc.bcm.edu	37	6	2623930	2623930	+	Missense_Mutation	SNP	G	G	A	rs9503233	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	27	56	0	0.490909	0	G|0.875;A|0.125	0.125	strong	.	C6orf195	10	.	NM_152554	exon3	c.C127T	p.P43S	GAGCGGGCCTGGC	.	PASS	Atlas-SNP
PPP1R9A	55607	hgsc.bcm.edu	37	7	94539536	94539536	+	Silent	SNP	C	C	T	rs12536183	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	55	121	0	0.462185	0	C|0.915;T|0.085	0.085	strong	.	PPP1R9A	264	.	NM_017650	exon2	c.C111T	p.P37P	CAAACCCAAGTCA	.	PASS	Atlas-SNP
EIF2AK1	27102	hgsc.bcm.edu	37	7	6098685	6098685	+	Silent	SNP	C	C	T	rs112759781	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	31	11	0	0.794872	0	C|0.500;T|0.500	0.500	weak	.	EIF2AK1	76	.	NM_001134335	exon1	c.G30A	p.K10K	TTCGCGCTTGCGG	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85402610	85402610	+	Silent	SNP	G	G	A	rs34122391	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	30	59	0	0.461538	0	G|0.941;A|0.059	0.059	strong	.	ALPK3	289	.	NM_020778	exon7	c.G4560A	p.E1520E	GGGCGAGGTGGGC	.	PASS	Atlas-SNP
CBLN1	869	hgsc.bcm.edu	37	16	49314837	49314837	+	Silent	SNP	T	T	G	rs61735589	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	45	106	0	0.424528	0	T|0.937;G|0.063	0.063	strong	.	CBLN1	26	.	NM_004352	exon2	c.A381C	p.I127I	GACCTGTATGGTT	.	PASS	Atlas-SNP
TRIM55	84675	hgsc.bcm.edu	37	8	67064654	67064654	+	Missense_Mutation	SNP	A	A	G	rs7843605	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	11	22	0	0.5	0	A|0.741;G|0.259	0.259	strong	TRIM55,NS,carcinoma,0,1	TRIM55	91	1	NM_184086	exon8	c.A1028G	p.K343R	GAGAAAAAGAAGG	.	PASS	Atlas-SNP
VWA5B1	127731	hgsc.bcm.edu	37	1	20678551	20678551	+	Silent	SNP	A	A	G	rs230182	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	54	107	0	0.482143	0	A|0.952;G|0.048	0.048	strong	.	VWA5B1	44	.	NM_001039500	exon21	c.A3027G	p.L1009L	CAGGCTAAATCTC	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149523195	149523195	+	Missense_Mutation	SNP	C	C	G	rs78492471	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	12	31	0	0.413793	0	C|0.919;G|0.081	0.081	strong	NM_198455_2,NS,haematopoietic_neoplasm,0,1	.	.	1	NM_198455	exon101	c.C14278G	p.H4760D	TGCCCACACCAGG	.	PASS	Atlas-SNP
USP32	84669	hgsc.bcm.edu	37	17	58285542	58285542	+	Missense_Mutation	SNP	G	G	A	rs76478630		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	454	125	324	0	0.27533	0	.	.	weak	USP32,NS,malignant_melanoma,0,2	USP32	128	2	NM_032582	exon24	c.C2803T	p.R935W	CATACCGTACAGG	.	scavenged	Atlas-SNP
WIPI1	55062	hgsc.bcm.edu	37	17	66449122	66449122	+	Missense_Mutation	SNP	G	G	A	rs883541	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	63	81	0	1	0	G|0.243;A|0.757	0.757	strong	WIPI1,NS,carcinoma,-1,1	WIPI1	46	1	NM_017983	exon2	c.C92T	p.T31I	GTTCCAGTTGCTA	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158582646	158582646	+	Silent	SNP	T	T	C	rs2251969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	34	96	1	0.314815	0.0104167	T|0.458;C|0.542	0.542	strong	SPTA1,NS,carcinoma,-2,2	SPTA1	720	2	NM_003126	exon51	c.A7095G	p.A2365A	GCCCTCTGCCAGG	.	scavenged	Atlas-SNP
DUSP13	51207	hgsc.bcm.edu	37	10	76855421	76855421	+	Silent	SNP	G	G	A	rs3740316	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	48	89	0	0.475248	0	G|0.795;A|0.205	0.205	strong	.	DUSP13	82	.	NM_001007273	exon5	c.C585T	p.I195I	CGCCTCGATGCCA	.	PASS	Atlas-SNP
PLA2G4F	255189	hgsc.bcm.edu	37	15	42439376	42439376	+	Silent	SNP	G	G	A	rs4923929	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	7	10	0	0.368421	0	G|0.534;A|0.466	0.466	strong	PLA2G4F,NS,carcinoma,0,1	PLA2G4F	75	1	NM_213600	exon13	c.C1365T	p.S455S	GGACACGCTGTGG	.	PASS	Atlas-SNP
ANKRD50	57182	hgsc.bcm.edu	37	4	125590478	125590478	+	Silent	SNP	T	T	C	rs1874748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	215	110	264	1	0.511628	0.00378788	T|0.820;C|0.180	0.180	strong	.	ANKRD50	136	.	NM_020337	exon4	c.A3954G	p.P1318P	TTTAGGTGGTGCA	.	PASS	Atlas-SNP
CPVL	54504	hgsc.bcm.edu	37	7	29152371	29152371	+	Silent	SNP	G	G	A	rs323182	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	40	117	0	0.224719	0	G|0.887;A|0.113	0.113	strong	.	CPVL	60	.	NM_019029	exon3	c.C237T	p.T79T	ATTCACGGTGAGG	.	PASS	Atlas-SNP
RAPGEF1	2889	hgsc.bcm.edu	37	9	134501410	134501410	+	Missense_Mutation	SNP	C	C	T	rs200547421	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	48	118	0	0.432432	0	C|0.993;T|0.007	0.007	strong	.	RAPGEF1	126	.	NM_198679	exon10	c.G1604A	p.G535D	GAGGAACCTCCAT	.	PASS	Atlas-SNP
KIRREL	55243	hgsc.bcm.edu	37	1	158057633	158057633	+	Silent	SNP	C	C	G	rs36008419	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	44	70	0	0.431373	0	C|0.762;G|0.238	0.238	strong	KIRREL_ENST00000368173,NS,carcinoma,0,2	KIRREL	346	2	NM_018240	exon6	c.C750G	p.P250P	CAACCCCGAGATC	.	PASS	Atlas-SNP
CCND1	595	hgsc.bcm.edu	37	11	69462856	69462856	+	Silent	SNP	C	C	T	rs3862792	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	33	60	0	0.478261	0	C|0.931;T|0.069	0.069	strong	.	CCND1	107	.	NM_053056	exon4	c.C669T	p.F223F	CAACTTCCTGTCC	.	PASS	Atlas-SNP
BFSP1	631	hgsc.bcm.edu	37	20	17475311	17475311	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	5	168	1	0.0251256	0.00595238	.	.	none	BFSP1,colon,carcinoma,0,1	BFSP1	55	1	NM_001195	exon8	c.G1406A	p.R469Q	ACGTGCCGCTCTT	.	scavenged	Atlas-SNP
INTS8	55656	hgsc.bcm.edu	37	8	95888307	95888307	+	Silent	SNP	C	C	T	rs1129152	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	59	143	0	0.443609	0	C|0.581;T|0.419	0.419	strong	.	INTS8	92	.	NM_017864	exon24	c.C2694T	p.A898A	GGTGGCCATTTTA	.	PASS	Atlas-SNP
FARP2	9855	hgsc.bcm.edu	37	2	242371101	242371101	+	Missense_Mutation	SNP	C	C	T	rs757978	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	24	77	0	0.48	0	C|0.901;T|0.099	0.099	strong	.	FARP2	92	.	NM_014808	exon9	c.C779T	p.T260I	GCACCACCAAAAT	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74497009	74497009	+	Missense_Mutation	SNP	A	A	G	rs2351528	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	34	48	0	0.548387	0	A|0.597;G|0.403	0.403	strong	CD109,caecum,carcinoma,0,1	CD109	170	1	NM_133493	exon21	c.A2390G	p.N797S	CTTCAAATGAAAT	.	PASS	Atlas-SNP
FHOD3	80206	hgsc.bcm.edu	37	18	34324091	34324091	+	Missense_Mutation	SNP	G	G	A	rs2303510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	92	55	0	1	0	G|0.653;A|0.347	0.347	strong	.	FHOD3	210	.	NM_025135	exon20	c.G3451A	p.V1151I	ATGGTGGTAGAAA	.	PASS	Atlas-SNP
CD6	923	hgsc.bcm.edu	37	11	60776307	60776307	+	Silent	SNP	G	G	C	rs79848107	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	80	59	0	1	0	G|0.870;C|0.130	0.130	strong	CD6_ENST00000313421,NS,carcinoma,0,2	CD6	122	2	NM_006725	exon4	c.G771C	p.A257A	GGGCGCGGTGTGC	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55179377	55179377	+	Missense_Mutation	SNP	T	T	G	rs149600113		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	7	191	2	0.0351759	0.0104712	.	.	weak	LILRB4,NS,carcinoma,0,1	LILRB4	86	1	NM_006847	exon12	c.T1254G	p.F418L	CAGCTTTACCCTC	.	scavenged	Atlas-SNP
RRBP1	6238	hgsc.bcm.edu	37	20	17610535	17610535	+	Silent	SNP	C	C	T	rs11551701	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	24	50	0	0.369231	0	C|0.925;T|0.075	0.075	strong	.	RRBP1	157	.	NM_004587	exon9	c.G1383A	p.T461T	GCTCTGCGTGTGG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324586	31324586	+	Silent	SNP	C	C	T	rs1050556	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	42	119	1	1	0.00840336	T|0.533;C|0.467	0.533	strong	.	HLA-B	54	.	NM_005514	exon2	c.G222A	p.P74P	TATCCACGGCGCC	.	PASS	Atlas-SNP
OR11H1	81061	hgsc.bcm.edu	37	22	16449539	16449539	+	Missense_Mutation	SNP	A	A	G	rs61969156		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	515	72	340	2	0.139806	0.00588235	.	.	weak	OR11H1,NS,carcinoma,0,5	OR11H1	44	5	NM_001005239	exon1	c.T266C	p.V89A	GAAGAGACATACC	.	scavenged	Atlas-SNP
TKT	7086	hgsc.bcm.edu	37	3	53259850	53259850	+	Silent	SNP	C	C	T	rs3163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	37	89	0	0.345794	0	C|0.860;T|0.140	0.140	strong	.	TKT	38	.	NM_001258028	exon15	c.G1818A	p.P606P	CTCAGCCGGCTTC	.	PASS	Atlas-SNP
SCAI	286205	hgsc.bcm.edu	37	9	127764305	127764305	+	Silent	SNP	G	G	A	rs764304	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	20	48	0	0.512821	0	G|0.838;A|0.162	0.162	strong	SCAI,NS,carcinoma,0,1	SCAI	84	1	NM_173690	exon13	c.C1152T	p.S384S	AAGCACGCTATTG	.	PASS	Atlas-SNP
TMEM176B	28959	hgsc.bcm.edu	37	7	150490238	150490238	+	Missense_Mutation	SNP	G	G	A	rs17256042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	73	167	2	0.405556	0.011976	G|0.964;A|0.036	0.036	strong	TMEM176B,NS,carcinoma,+1,2	TMEM176B	36	2	NM_014020	exon5	c.C538T	p.R180W	TTCGCCGCATCCA	.	scavenged	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167262353	167262353	+	Missense_Mutation	SNP	C	C	G	rs3791251	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	114	151	0	1	0	C|0.920;G|0.080	0.080	strong	.	SCN7A	410	.	NM_002976	exon25	c.G4786C	p.V1596L	CTGAAACAACTTT	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169511555	169511555	+	Missense_Mutation	SNP	T	T	C	rs6032	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	203	125	162	0	0.615764	0	T|0.758;C|0.242	0.242	strong	F5,colon,carcinoma,+2,1	F5	301	1	NM_000130	exon13	c.A2773G	p.K925E	GGTCCTTCCAGGG	.	PASS	Atlas-SNP
ACTR8	93973	hgsc.bcm.edu	37	3	53905308	53905308	+	Silent	SNP	T	T	C	rs1046677	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	279	107	216	0	0.383513	0	T|0.410;C|0.590	0.590	strong	ACTR8_ENST00000231909,NS,carcinoma,-2,2	ACTR8	56	2	NM_022899	exon11	c.A1518G	p.G506G	GGCTTTTCCTTCA	.	PASS	Atlas-SNP
GLI2	2736	hgsc.bcm.edu	37	2	121747406	121747406	+	Missense_Mutation	SNP	G	G	A	rs12711538	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	68	163	0	0.475524	0	G|0.360;A|0.640	0.640	strong	.	GLI2	187	.	NM_005270	exon13	c.G3916A	p.D1306N	GTCCCCGATTCAG	.	PASS	Atlas-SNP
OR2B6	26212	hgsc.bcm.edu	37	6	27925456	27925456	+	Silent	SNP	T	T	C	rs904142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	67	126	0	0.51938	0	T|0.963;C|0.037	0.037	strong	.	OR2B6	48	.	NM_012367	exon1	c.T438C	p.A146A	GGCAGCTGCATCC	.	PASS	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	37	2	227954599	227954599	+	Missense_Mutation	SNP	G	G	A	rs2229814	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	83	170	0	0.474286	0	G|0.449;T|0.045	.	strong	.	COL4A4	215	.	NM_000092	exon21	c.C1444T	p.P482S	CTTTTGGGCCTCT	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179300871	179300871	+	Splice_Site	SNP	C	C	T	rs200649428		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	11	31	0	0.305556	0	.	.	weak	PRKRA,caecum,carcinoma,0,1	PRKRA	56	1	NM_001139518	exon8	c.709+1G>A	.	ATCATACCTATAT	.	PASS	Atlas-SNP
NPAS2	4862	hgsc.bcm.edu	37	2	101594191	101594191	+	Missense_Mutation	SNP	C	C	T	rs11541353	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	11	34	0	0.44	0	C|0.870;T|0.130	0.130	strong	.	NPAS2	88	.	NM_002518	exon15	c.C1412T	p.S471L	CCCCATCGTCCTG	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115374670	115374670	+	Silent	SNP	A	A	G	rs3121453	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	55	108	0	0.482456	0	A|0.825;G|0.175	0.175	strong	.	NRAP	208	.	NM_001261463	exon28	c.T3114C	p.D1038D	GCCACCATCTCGA	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143747389	143747389	+	Missense_Mutation	SNP	G	G	A	rs34288113	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	41	73	0	0.5125	0	G|0.972;A|0.028	0.028	strong	.	.	.	.	NM_003724	exon2	c.C89T	p.T30M	AGGCGCGTGCAGA	.	PASS	Atlas-SNP
MPDZ	8777	hgsc.bcm.edu	37	9	13150531	13150531	+	Silent	SNP	T	T	C	rs10756457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	38	85	0	0.426966	0	T|0.540;C|0.460	0.460	strong	.	MPDZ	324	.	NM_003829	exon25	c.A3609G	p.K1203K	TCCAGGTTTCAAG	.	PASS	Atlas-SNP
PLEKHG3	26030	hgsc.bcm.edu	37	14	65197767	65197767	+	Silent	SNP	G	G	A	rs229624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	65	76	0	0.984848	0	G|0.853;A|0.147	0.147	strong	.	PLEKHG3	89	.	NM_015549	exon5	c.G561A	p.K187K	TGCCAAGCATTTT	.	PASS	Atlas-SNP
ADAM12	8038	hgsc.bcm.edu	37	10	127737930	127737930	+	Silent	SNP	G	G	A	rs2292692	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	56	96	0	0.56	0	G|0.869;A|0.131	0.131	strong	.	ADAM12	388	.	NM_021641	exon16	c.C1818T	p.P606P	CTGCAGGGGGATG	.	PASS	Atlas-SNP
DCP1A	55802	hgsc.bcm.edu	37	3	53321631	53321631	+	Silent	SNP	A	A	C	rs9628	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	196	196	135	1	1	0.00740741	A|0.644;C|0.356	0.356	strong	.	DCP1A	30	.	NM_018403	exon10	c.T1716G	p.V572V	GGTCAGAACCTGC	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	7170006	7170006	+	Missense_Mutation	SNP	G	G	A	rs7022348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	89	109	0	0.988889	0	G|0.846;A|0.154	0.154	strong	.	KDM4C	186	.	NM_001146694	exon21	c.G3110A	p.S1037N	AAAAAAGCCAATG	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248458760	248458760	+	Missense_Mutation	SNP	C	C	A	rs12135684	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	320	153	343	3	0.478125	0.00874636	C|0.817;A|0.183	0.183	strong	OR2T12,caecum,carcinoma,0,1	OR2T12	113	1	NM_001004692	exon1	c.G121T	p.A41S	TGAGGGCATTGCT	.	scavenged	Atlas-SNP
C21orf91	54149	hgsc.bcm.edu	37	21	19169155	19169155	+	Missense_Mutation	SNP	G	G	C	rs1047978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	32	69	0	0.484848	0	G|0.690;C|0.310	0.310	strong	.	C21orf91	21	.	NM_017447	exon3	c.C408G	p.D136E	TTGGGAGTCAAAC	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207646462	207646462	+	Missense_Mutation	SNP	G	G	A	rs17615	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	47	117	0	0.423423	0	G|0.702;A|0.298	0.298	strong	.	CR2	164	.	NM_001006658	exon10	c.G1916A	p.S639N	AGGGCAGTAGTCA	.	PASS	Atlas-SNP
C3orf22	152065	hgsc.bcm.edu	37	3	126268918	126268918	+	Silent	SNP	G	G	A	rs869463	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	81	79	0	0.637795	0	G|0.805;A|0.195	0.195	strong	.	C3orf22	17	.	NM_152533	exon4	c.C219T	p.L73L	AGCCCCGAGCCTA	.	PASS	Atlas-SNP
RNF122	79845	hgsc.bcm.edu	37	8	33416222	33416222	+	Silent	SNP	C	C	T	rs3735951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	26	60	0	0.481481	0	C|0.357;T|0.643	0.643	strong	.	RNF122	17	.	NM_024787	exon2	c.G93A	p.Q31Q	AAGGTCCTGGAAA	.	PASS	Atlas-SNP
TIMM21	29090	hgsc.bcm.edu	37	18	71816278	71816278	+	Missense_Mutation	SNP	G	G	A	rs3737512	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	51	90	0	0.525773	0	G|0.891;A|0.109	0.109	strong	C18orf55,NS,carcinoma,0,1	.	.	1	NM_014177	exon1	c.G235A	p.G79S	GAGGATGGCAGCA	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890736	55890736	+	Silent	SNP	A	A	G	rs11604579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	46	144	0	0.386555	0	A|0.924;G|0.076	0.076	strong	OR8H3,NS,carcinoma,+2,1	OR8H3	92	1	NM_001005201	exon1	c.A888G	p.E296E	CAGAGAAGTGAAA	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101767315	101767315	+	Missense_Mutation	SNP	G	G	A	rs35934703	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	35	77	0	0.514706	0	G|0.887;A|0.113	0.113	strong	.	COL15A1	211	.	NM_001855	exon9	c.G1336A	p.G446R	AGCCTCGGGGAAG	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38768300	38768300	+	Missense_Mutation	SNP	T	T	C	rs57326399	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	126	122	0	1	0	T|0.779;C|0.221	0.221	strong	SCN10A,NS,carcinoma,0,1	SCN10A	359	1	NM_006514	exon16	c.A2884G	p.I962V	CAGCAATGTGGTT	.	PASS	Atlas-SNP
PLOD1	5351	hgsc.bcm.edu	37	1	12024235	12024235	+	Silent	SNP	C	C	T	rs1130529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	26	37	0	0.565217	0	C|0.687;N|0.001	.	strong	.	PLOD1	75	.	NM_000302	exon12	c.C1206T	p.N402N	CAGGAACGTCATT	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9324571	9324571	+	Silent	SNP	T	T	C	rs9434742	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	77	164	0	0.52027	0	T|0.603;C|0.397	0.397	strong	H6PD,NS,carcinoma,0,1	H6PD	71	1	NM_004285	exon5	c.T2019C	p.Y673Y	GATCTATGCCAGG	.	PASS	Atlas-SNP
HIST1H2AA	221613	hgsc.bcm.edu	37	6	25726675	25726675	+	Silent	SNP	G	G	A	rs9358871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	40	72	0	0.5	0	G|0.717;A|0.283	0.283	strong	.	HIST1H2AA	34	.	NM_170745	exon1	c.C81T	p.P27P	GCCTACGGGAAAC	.	PASS	Atlas-SNP
FOXP1	27086	hgsc.bcm.edu	37	3	71096114	71096114	+	Missense_Mutation	SNP	G	G	C	rs146606219	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	90	124	0	0.559006	0	G|0.998;C|0.002	0.002	strong	FOXP1,NS,carcinoma,0,1	FOXP1	104	1	NM_001244815	exon5	c.C649G	p.P217A	GAAGGGGAAGGGC	.	PASS	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	37	11	6643976	6643976	+	Silent	SNP	C	C	T	rs7122587	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	17	34	0	0.5	0	C|0.764;T|0.236	0.236	strong	.	DCHS1	277	.	NM_003737	exon21	c.G8931A	p.Q2977Q	TGCTGCCTGTGAC	.	PASS	Atlas-SNP
LRP3	4037	hgsc.bcm.edu	37	19	33696897	33696897	+	Silent	SNP	C	C	T	rs11084712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	21	41	0	0.411765	0	C|0.769;T|0.231	0.231	strong	LRP3,rectum,carcinoma,0,2	LRP3	46	2	NM_002333	exon5	c.C1221T	p.G407G	CAGCGGCCGAGAC	.	PASS	Atlas-SNP
SEMA4G	57715	hgsc.bcm.edu	37	10	102738766	102738766	+	Silent	SNP	T	T	C	rs118166648	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	44	88	3	0.564103	0.0340909	T|0.944;C|0.056	0.056	strong	SEMA4G,colon,carcinoma,+1,2	SEMA4G	55	2	NM_001203244	exon7	c.T804C	p.R268R	GGCTCGTGTCTGC	.	scavenged	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82581859	82581859	+	Missense_Mutation	SNP	C	C	T	rs976714	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	359	355	351	1	0.988858	0.002849	C|0.673;T|0.327	0.327	strong	Q9Y6V0-3,NS,carcinoma,+1,2	PCLO	1506	2	NM_014510	exon5	c.G8410A	p.A2804T	AACTTGCACTAGC	.	PASS	Atlas-SNP
TTLL5	23093	hgsc.bcm.edu	37	14	76232469	76232469	+	Silent	SNP	C	C	T	rs61741261	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	22	61	0	0.468085	0	C|0.998;T|0.002	0.002	strong	.	TTLL5	102	.	NM_015072	exon20	c.C1773T	p.V591V	AGAAGTCGCATTA	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10466482	10466482	+	Missense_Mutation	SNP	G	G	A	rs13267180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	38	91	0	0.469136	0	G|0.614;A|0.386	0.386	strong	RP1L1,colon,carcinoma,-1,1	RP1L1	453	1	NM_178857	exon4	c.C5126T	p.A1709V	CCAGGGGCCACCT	.	PASS	Atlas-SNP
ZNF615	284370	hgsc.bcm.edu	37	19	52496149	52496149	+	Missense_Mutation	SNP	C	C	T	rs16983353	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	58	136	0	0.453125	0	C|0.595;T|0.405	0.405	strong	ZNF615,NS,carcinoma,0,2	ZNF615	111	2	NM_001199324	exon7	c.G2213A	p.R738K	ATTCTCCTGTGTT	.	PASS	Atlas-SNP
KIF4B	285643	hgsc.bcm.edu	37	5	154396505	154396505	+	Missense_Mutation	SNP	G	G	A	rs60928118	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	300	136	328	0	0.453333	0	G|0.858;A|0.142	0.142	strong	.	KIF4B	307	.	NM_001099293	exon1	c.G3086A	p.R1029H	CTTCTCGTGTTAA	.	PASS	Atlas-SNP
OR6C74	254783	hgsc.bcm.edu	37	12	55641295	55641295	+	Missense_Mutation	SNP	A	A	G	rs4388990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	79	164	0	0.429348	0	A|0.750;G|0.250	0.250	strong	.	OR6C74	52	.	NM_001005490	exon1	c.A224G	p.Y75C	CTGTCTACATTCC	.	PASS	Atlas-SNP
COL4A1	1282	hgsc.bcm.edu	37	13	110813709	110813709	+	Silent	SNP	G	G	A	rs1133219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	24	35	0	0.489796	0	G|0.664;A|0.336	0.336	strong	.	COL4A1	372	.	NM_001845	exon49	c.C4470T	p.A1490A	GCTGCCGGCCGTG	.	PASS	Atlas-SNP
MYO18A	399687	hgsc.bcm.edu	37	17	27425132	27425132	+	Silent	SNP	C	C	T	rs71369700	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	23	49	0	0.403509	0	C|0.991;T|0.009	0.009	strong	.	MYO18A	217	.	NM_078471	exon25	c.G3981A	p.K1327K	CAGTTCCTTCATC	.	PASS	Atlas-SNP
TRMU	55687	hgsc.bcm.edu	37	22	46731689	46731689	+	Missense_Mutation	SNP	G	G	T	rs11090865	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	28	6	0	0.777778	0	G|0.890;T|0.110	0.110	strong	.	TRMU	23	.	NM_018006	exon1	c.G28T	p.A10S	GTGTGCGCCCTGT	.	PASS	Atlas-SNP
PRR14	78994	hgsc.bcm.edu	37	16	30666367	30666367	+	Missense_Mutation	SNP	C	C	T	rs3747481	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	12	19	0	0.48	0	C|0.701;T|0.299	0.299	strong	.	PRR14	45	.	NM_024031	exon8	c.C1076T	p.P359L	CACGGCCGCGGCG	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204403659	204403659	+	Silent	SNP	A	A	G	rs3747636	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	54	144	0	0.350649	0	A|0.650;G|0.350	0.350	strong	.	PIK3C2B	142	.	NM_002646	exon25	c.T3594C	p.N1198N	GTTGTCATTATGT	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152192555	152192555	+	Missense_Mutation	SNP	T	T	C	rs41266134	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	58	82	0	0.690476	0	T|0.836;C|0.164	0.164	strong	.	HRNR	403	.	NM_001009931	exon3	c.A1550G	p.Y517C	TGACCATAGCTGG	.	PASS	Atlas-SNP
LZIC	84328	hgsc.bcm.edu	37	1	9995633	9995633	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	5	100	0	0.0510204	0	.	.	none	.	LZIC	11	.	NM_032368	exon3	c.C154T	p.Q52X	TTAGTTGCTCCAG	.	PASS	Atlas-SNP
HIF3A	64344	hgsc.bcm.edu	37	19	46823702	46823702	+	Missense_Mutation	SNP	A	A	G	rs3764609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	23	34	0	0.547619	0	A|0.820;G|0.180	0.180	strong	HIF3A_ENST00000377670,brain,glioma,0,2	HIF3A	154	2	NM_152795	exon9	c.A1028G	p.Q343R	CCAGCCAGGTGGA	.	PASS	Atlas-SNP
TAF6	6878	hgsc.bcm.edu	37	7	99711386	99711386	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	8	52	0	0.153846	0	.	.	none	.	TAF6	55	.	NM_001190415	exon4	c.T361G	p.Y121D	AGCCATAGAGTGG	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6561270	6561270	+	Silent	SNP	A	A	G	rs10839577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	35	69	0	0.514706	0	A|0.739;G|0.261	0.261	strong	.	DNHD1	198	.	NM_144666	exon18	c.A3585G	p.Q1195Q	CCCCCAATGGGAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284549	152284549	+	Missense_Mutation	SNP	G	G	C	rs141646551	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	334	22	222	0	0.0658683	0	G|0.989;C|0.011	0.011	strong	FLG,rectum,NS,0,1	FLG	900	1	NM_002016	exon3	c.C2813G	p.T938R	CTGCTTGTCCTGG	.	scavenged	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2983886	2983886	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	251	36	178	0	0.143426	0	.	.	none	CARD11,colon,carcinoma,-1,6	CARD11	339	6	NM_032415	exon5	c.A644C	p.K215T	ATGTTCTTCTCCT	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1983782	1983782	+	Silent	SNP	C	C	T	rs758160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	278	117	325	0	0.420863	0	C|0.904;T|0.096	0.096	strong	CACNA2D4_ENST00000382722,NS,carcinoma,0,1	CACNA2D4	220	1	NM_172364	exon18	c.G1866A	p.P622P	ATCCATCGGAACC	.	PASS	Atlas-SNP
SLC25A37	51312	hgsc.bcm.edu	37	8	23423669	23423669	+	Missense_Mutation	SNP	A	A	G	rs2942194	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	25	52	0	0.409836	0	A|0.818;G|0.182	0.182	strong	.	SLC25A37	27	.	NM_016612	exon2	c.A259G	p.I87V	ACAAGTATCTACG	.	PASS	Atlas-SNP
THOC1	9984	hgsc.bcm.edu	37	18	264039	264039	+	Silent	SNP	C	C	A	rs376944925		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	62	162	0	0.346369	0	.	.	weak	.	THOC1	43	.	NM_005131	exon4	c.G243T	p.G81G	TACTCCCCCAATA	.	PASS	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	37	19	31039256	31039256	+	Silent	SNP	C	C	T	rs111707808	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	28	43	1	0.636364	0.0232558	C|0.970;T|0.030	0.030	strong	ZNF536,colon,carcinoma,+1,1	ZNF536	424	1	NM_014717	exon4	c.C2730T	p.N910N	GAGCAACGGTGTG	.	scavenged	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22214040	22214040	+	Silent	SNP	G	G	A	rs41310388	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	58	145	0	0.449612	0	G|0.989;A|0.011	0.011	strong	HSPG2,NS,carcinoma,0,1	HSPG2	311	1	NM_005529	exon8	c.C831T	p.P277P	GGAACCGGGAAGC	.	PASS	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861056	231861056	+	Silent	SNP	A	A	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	10	67	4	0.208333	0.0597015	.	.	none	SPATA3,rectum,carcinoma,0,1	SPATA3	52	1	NM_139073	exon1	c.A108C	p.T36T	ATCCACACCACAG	.	scavenged	Atlas-SNP
RECQL5	9400	hgsc.bcm.edu	37	17	73627539	73627539	+	Missense_Mutation	SNP	T	T	C	rs820196	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	82	129	0	0.468571	0	T|0.746;C|0.254	0.254	strong	.	RECQL5	77	.	NM_004259	exon9	c.A1439G	p.D480G	CTGAAGTCCCCGT	.	PASS	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	37	2	215851303	215851303	+	Silent	SNP	A	A	G	rs34351934	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	36	55	0	0.514286	0	A|0.807;G|0.193	0.193	strong	ABCA12,NS,carcinoma,+2,1	ABCA12	368	1	NM_173076	exon28	c.T4126C	p.L1376L	CCAGCAATGAAGT	.	PASS	Atlas-SNP
OR51F1	256892	hgsc.bcm.edu	37	11	4791111	4791111	+	Missense_Mutation	SNP	T	T	C	rs17324812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	82	144	0	0.585714	0	T|0.834;C|0.166	0.166	strong	.	OR51F1	60	.	NM_001004752	exon1	c.A37G	p.T13A	AGAAGGTTGGAAA	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21496533	21496533	+	Silent	SNP	C	C	T	rs61751706	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	59	63	0	0.572816	0	C|0.995;T|0.005	0.005	strong	.	LAMA3	397	.	NM_198129	exon60	c.C7797T	p.D2599D	GTCAGACAAAAAT	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62676612	62676612	+	Silent	SNP	A	A	G	rs66958136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	215	191	0	0.977273	0	A|0.804;G|0.196	0.196	strong	L1TD1,NS,carcinoma,0,2	L1TD1	114	2	NM_001164835	exon5	c.A2166G	p.K722K	AATTAAAGAAATA	.	PASS	Atlas-SNP
GSG2	83903	hgsc.bcm.edu	37	17	3628759	3628759	+	Missense_Mutation	SNP	A	A	G	rs146480185		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	65	90	0	0.474453	0	A|1.000;G|0.000	0.000	weak	.	GSG2	48	.	NM_031965	exon1	c.A1530G	p.I510M	AGCCATAAAAATC	.	PASS	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12854479	12854479	+	Missense_Mutation	SNP	C	C	G	rs1063775	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	311	63	289	18	0.202572	0.0622837	C|0.811;G|0.187;T|0.002	0.187	strong	PRAMEF1,NS,carcinoma,-1,2	PRAMEF1	78	2	NM_023013	exon3	c.C703G	p.R235G	AATCTTCGCAAAC	.	scavenged	Atlas-SNP
IL15RA	3601	hgsc.bcm.edu	37	10	6002368	6002368	+	Missense_Mutation	SNP	T	T	G	rs2228059	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	150	145	1	1	0.00689655	T|0.460;G|0.540	0.540	strong	.	IL15RA	17	.	NM_001256765	exon5	c.A803C	p.N268T	TCCCAGTTCTTGG	.	PASS	Atlas-SNP
RPL7A	6130	hgsc.bcm.edu	37	9	136216882	136216882	+	Silent	SNP	G	G	A	rs7700	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	22	52	0	0.488889	0	G|0.942;A|0.058	0.058	strong	.	RPL7A	9	.	NM_000972	exon4	c.G390A	p.T130T	CCCAACGAAGAGA	.	PASS	Atlas-SNP
HLX	3142	hgsc.bcm.edu	37	1	221057739	221057739	+	Missense_Mutation	SNP	C	C	G	rs11578466	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	86	133	0	0.573333	0	C|0.877;G|0.123	0.123	strong	.	HLX	67	.	NM_021958	exon4	c.C1160G	p.A387G	ACATGGCCCCCAG	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29912147	29912147	+	Silent	SNP	C	C	T	rs1059686	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	43	90	0	0.380531	0	C|0.711;T|0.289	0.289	strong	.	HLA-A	89	.	NM_001242758	exon4	c.C868T	p.L290L	GAGGGTCTGCCCA	.	PASS	Atlas-SNP
PLK2	10769	hgsc.bcm.edu	37	5	57755703	57755703	+	Silent	SNP	C	C	T	rs3211270	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	39	96	0	0.458824	0	C|0.661;T|0.339	0.339	strong	.	PLK2	71	.	NM_006622	exon1	c.G84A	p.A28A	CGAGTCCGCTCCG	.	PASS	Atlas-SNP
TMEM91	641649	hgsc.bcm.edu	37	19	41889748	41889748	+	Silent	SNP	T	T	C	rs12602	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	65	0	1	0	T|0.374;C|0.626	0.626	strong	.	TMEM91	22	.	NM_001098821	exon4	c.T489C	p.A163A	CCTGGCTGCCTAC	.	PASS	Atlas-SNP
FDFT1	2222	hgsc.bcm.edu	37	8	11667253	11667253	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	55	99	0	0.447154	0	.	.	none	.	FDFT1	25	.	NM_004462	exon3	c.A275G	p.K92R	TGGAAAAGAAGGT	.	PASS	Atlas-SNP
PSMB1	5689	hgsc.bcm.edu	37	6	170862300	170862300	+	Missense_Mutation	SNP	G	G	C	rs12717	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	13	35	0	0.371429	0	G|0.580;C|0.420	0.420	strong	.	PSMB1	12	.	NM_002793	exon1	c.C31G	p.P11A	TGCCAGGAGCCGA	.	PASS	Atlas-SNP
KMO	8564	hgsc.bcm.edu	37	1	241755348	241755348	+	Missense_Mutation	SNP	C	C	T	rs1053230	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	56	79	0	1	0	C|0.853;T|0.147	0.147	strong	KMO,NS,adenoma,0,1	KMO	69	1	NM_003679	exon15	c.C1354T	p.R452C	TTCCTCCGCTTGA	.	PASS	Atlas-SNP
TRMT1	55621	hgsc.bcm.edu	37	19	13218417	13218417	+	Silent	SNP	T	T	C	rs148858467	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	21	75	0	0.328125	0	T|0.995;C|0.005	0.005	strong	.	TRMT1	31	.	NM_001136035	exon14	c.A1554G	p.P518P	GAACGCTGGGCTA	.	PASS	Atlas-SNP
NKAPL	222698	hgsc.bcm.edu	37	6	28227633	28227633	+	Missense_Mutation	SNP	C	C	T	rs9461446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	22	42	0	0.458333	0	C|0.941;T|0.059	0.059	strong	.	NKAPL	72	.	NM_001007531	exon1	c.C484T	p.H162Y	GTAACGCATCAGA	.	PASS	Atlas-SNP
PAK2	5062	hgsc.bcm.edu	37	3	196529902	196529902	+	Missense_Mutation	SNP	G	G	C	rs201465227	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	12	109	1	0.0722892	0.00917431	G|0.914;C|0.086	0.086	strong	PAK2_ENST00000327134,colon,carcinoma,0,4	PAK2	113	4	NM_002577	exon4	c.G303C	p.Q101H	AGAACAGTGGGCT	.	scavenged	Atlas-SNP
PPP1R12B	4660	hgsc.bcm.edu	37	1	202411697	202411697	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	3	75	0	0.0309278	0	.	.	none	PPP1R12B,caecum,carcinoma,0,1	PPP1R12B	100	1	NM_002481	exon12	c.A1664G	p.K555R	ACTTGAAAAGGTA	.	scavenged	Atlas-SNP
DEFA4	1669	hgsc.bcm.edu	37	8	6793581	6793581	+	Silent	SNP	A	A	G	rs2738100	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	20	49	0	0.416667	0	G|0.438;A|0.562	0.438	strong	.	DEFA4	19	.	NM_001925	exon3	c.T255C	p.G85G	CACACCACCAATG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179455352	179455352	+	Missense_Mutation	SNP	C	C	T	rs141973925	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	344	179	330	0	0.520349	0	C|0.999;T|0.001	0.001	strong	TTN_ENST00000359218,NS,carcinoma,+1,5	TTN	18412	5	NM_001267550	exon304	c.G61100A	p.R20367Q	ATGGGCCGGCAAG	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2740714	2740714	+	Silent	SNP	A	A	G	rs12327477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	36	68	0	0.382979	0	A|0.701;G|0.299	0.299	strong	.	SMCHD1	88	.	NM_015295	exon28	c.A3528G	p.T1176T	AATTACAGATCAG	.	PASS	Atlas-SNP
ZNF268	10795	hgsc.bcm.edu	37	12	133778887	133778887	+	Missense_Mutation	SNP	G	G	A	rs75772856	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	18	86	0	0.333333	0	G|0.988;A|0.012	0.012	strong	.	ZNF268	71	.	NM_001165885	exon5	c.G488A	p.R163H	TGGCACGCATGGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195516730	195516730	+	Missense_Mutation	SNP	G	G	A	rs74547899	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	277	165	224	0	0.595668	0	G|0.983;A|0.017	0.017	strong	.	MUC4	1505	.	NM_018406	exon2	c.C1721T	p.T574I	TCTCCAGTGGTCC	.	PASS	Atlas-SNP
ARHGAP22	58504	hgsc.bcm.edu	37	10	49687800	49687800	+	Silent	SNP	G	G	A	rs4080665	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	58	56	0	0.983051	0	G|0.233;A|0.767	0.767	strong	.	ARHGAP22	94	.	NM_001256025	exon4	c.C348T	p.A116A	CTCCCCGGCACCA	.	PASS	Atlas-SNP
RPS6KA2	6196	hgsc.bcm.edu	37	6	166862233	166862233	+	Silent	SNP	T	T	C	rs2230730	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	68	131	1	0.5	0.00763359	T|0.764;C|0.236;A|0.000	0.236	strong	RPS6KA2_ENST00000503859,NS,carcinoma,-1,2	RPS6KA2	212	2	NM_001006932	exon15	c.A1335G	p.T445T	GGTGTCTGTGGCT	.	scavenged	Atlas-SNP
IL6ST	3572	hgsc.bcm.edu	37	5	55251889	55251889	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	61	119	0	0.432624	0	.	.	none	.	IL6ST	75	.	NM_002184	exon10	c.G1231A	p.A411T	CAGCTGCATCTGA	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9991101	9991101	+	Missense_Mutation	SNP	C	C	G	rs55847233	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	17	40	0	0.377778	0	C|0.673;G|0.327	0.327	strong	.	PRRT3	35	.	NM_207351	exon2	c.G699C	p.L233F	CTCCTGCAAGTGT	.	PASS	Atlas-SNP
SRFBP1	153443	hgsc.bcm.edu	37	5	121355961	121355961	+	Silent	SNP	G	G	A	rs55708726	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	30	67	0	0.379747	0	G|0.890;A|0.110	0.110	strong	.	SRFBP1	47	.	NM_152546	exon6	c.G531A	p.A177A	ATTGGCGAAGAAA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284854	152284854	+	Silent	SNP	A	A	G	rs3120653	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	253	145	233	1	0.573123	0.00429185	A|0.687;G|0.313	0.313	strong	FLG,right_upper_lobe,carcinoma,-2,1	FLG	900	1	NM_002016	exon3	c.T2508C	p.D836D	CTGACCATCTTGG	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108163487	108163487	+	Silent	SNP	C	C	T	rs1800889	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	69	122	0	0.496403	0	C|0.972;T|0.028	0.028	strong	.	ATM	1657	.	NM_000051	exon30	c.C4578T	p.P1526P	TATACCCCTTGTG	.	PASS	Atlas-SNP
LRRCC1	85444	hgsc.bcm.edu	37	8	86021994	86021994	+	Missense_Mutation	SNP	G	G	A	rs62525422	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	56	114	0	0.4	0	G|0.925;A|0.075	0.075	strong	.	LRRCC1	212	.	NM_033402	exon2	c.G269A	p.C90Y	AACTGTGCACATT	.	PASS	Atlas-SNP
TTC39C	125488	hgsc.bcm.edu	37	18	21662974	21662974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	34	135	0	0.208589	0	.	.	none	.	TTC39C	83	.	NM_001135993	exon6	c.C913T	p.L305F	ATTCTCCTTAAAA	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57579390	57579390	+	Silent	SNP	C	C	T	rs149556819	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	30	24	0	0.6	0	C|0.999;T|0.001	0.001	strong	.	LRP1	428	.	NM_002332	exon41	c.C6540T	p.C2180C	GGCCTGCGCCTGT	.	PASS	Atlas-SNP
ZNF516	9658	hgsc.bcm.edu	37	18	74091718	74091718	+	Silent	SNP	G	G	A	rs17059302	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	73	83	0	0.722772	0	G|0.852;A|0.148	0.148	strong	.	ZNF516	102	.	NM_014643	exon4	c.C2352T	p.R784R	GCTGACGCGGTGC	.	PASS	Atlas-SNP
HK3	3101	hgsc.bcm.edu	37	5	176314639	176314639	+	Silent	SNP	G	G	A	rs6875296	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	58	90	1	0.508772	0.0111111	G|0.724;A|0.276	0.276	strong	HK3_ENST00000292432,NS,carcinoma,0,2	HK3	210	2	NM_002115	exon11	c.C1413T	p.A471A	AGCCACGGCAGTC	.	scavenged	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133918420	133918420	+	Silent	SNP	G	G	A	rs11146177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	61	127	0	0.504132	0	G|0.837;A|0.163	0.163	strong	.	JAKMIP3	69	.	NM_001105521	exon1	c.G108A	p.Q36Q	CATCCAGATCGAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280471	152280471	+	Missense_Mutation	SNP	C	C	G	rs78179835	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	608	224	354	0	0.368421	0	.	.	weak	.	FLG	900	.	NM_002016	exon3	c.G6891C	p.E2297D	GGAGCTCTCTGCA	.	PASS	Atlas-SNP
OR7A17	26333	hgsc.bcm.edu	37	19	14991643	14991643	+	Silent	SNP	G	G	A	rs10401818	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	45	88	0	0.483871	0	G|0.709;A|0.291	0.291	strong	.	OR7A17	37	.	NM_030901	exon1	c.C525T	p.P175P	AAAGTGGGGGATT	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	37	12	78598891	78598891	+	Silent	SNP	G	G	A	rs9971904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	45	64	0	0.957447	0	G|0.427;A|0.573	0.573	strong	.	NAV3	506	.	NM_014903	exon38	c.G6945A	p.P2315P	CATTCCGCAAACT	.	PASS	Atlas-SNP
C15orf55	256646	hgsc.bcm.edu	37	15	34648935	34648935	+	Missense_Mutation	SNP	G	G	T	rs57115249	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	40	65	0	0.430108	0	G|0.923;T|0.077	0.077	strong	.	C15orf55	110	.	NM_175741	exon7	c.G2642T	p.S881I	AAGCCAGTCAAGA	.	PASS	Atlas-SNP
CNP	1267	hgsc.bcm.edu	37	17	40125864	40125864	+	Silent	SNP	G	G	A	rs2070106	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	20	41	0	0.444444	0	G|0.731;A|0.269	0.269	strong	.	CNP	58	.	NM_033133	exon4	c.G1188A	p.G396G	CACGGGGTACTAC	.	PASS	Atlas-SNP
LRRFIP1	9208	hgsc.bcm.edu	37	2	238662005	238662005	+	Silent	SNP	T	T	C	rs200278632	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	12	50	0	0.266667	0	T|1.000;C|0.000	0.000	strong	.	LRRFIP1	171	.	NM_001137550	exon15	c.T921C	p.A307A	CAATGCTCAGCTA	.	PASS	Atlas-SNP
GSTM2	2946	hgsc.bcm.edu	37	1	110211956	110211956	+	Silent	SNP	C	C	T	rs592792	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	70	102	0	0.503597	0	T|0.128;G|0.006	0.128	strong	.	GSTM2	45	.	NM_001142368	exon4	c.C222T	p.N74N	GAGCAACGCCATC	.	PASS	Atlas-SNP
PHYHIPL	84457	hgsc.bcm.edu	37	10	61005204	61005204	+	Silent	SNP	C	C	T	rs138490289	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	44	99	0	0.40367	0	C|0.998;T|0.002	0.002	strong	.	PHYHIPL	44	.	NM_032439	exon5	c.C984T	p.V328V	GGATGTCATTTTA	.	PASS	Atlas-SNP
SORD	6652	hgsc.bcm.edu	37	15	45361180	45361180	+	Missense_Mutation	SNP	A	A	T	rs55739437	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	72	173	0	0.391304	0	A|0.734;T|0.266	0.266	strong	.	SORD	24	.	NM_003104	exon7	c.A716T	p.Q239L	AAGGTCAGCTGGG	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112888882	112888882	+	Missense_Mutation	SNP	A	A	T	rs72805422	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	17	34	0	0.472222	0	A|0.671;T|0.329	0.329	strong	.	YTHDC2	118	.	NM_022828	exon13	c.A1693T	p.T565S	AGTGCTACACTGG	.	PASS	Atlas-SNP
SPDYE1	285955	hgsc.bcm.edu	37	7	44046900	44046900	+	Silent	SNP	G	G	A	rs147853765	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	235	55	144	0	0.234043	0	G|0.984;A|0.016	0.016	strong	.	SPDYE1	29	.	NM_175064	exon5	c.G666A	p.E222E	CGACGAGGACTCC	.	PASS	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	37	19	11508177	11508177	+	Missense_Mutation	SNP	G	G	A	rs2291516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	39	77	0	0.4875	0	G|0.856;A|0.144	0.144	strong	.	RGL3	100	.	NM_001161616	exon17	c.C1861T	p.R621C	TGACACGGGCCTC	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114282496	114282496	+	Missense_Mutation	SNP	C	C	T	rs2075387	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	13	29	0	0.433333	0	C|0.781;T|0.219	0.219	strong	.	RBM19	117	.	NM_001146699	exon23	c.G2762A	p.R921Q	GTCTTCCGCCGCA	.	PASS	Atlas-SNP
PTPRD	5789	hgsc.bcm.edu	37	9	8518143	8518143	+	Silent	SNP	T	T	C	rs7026388	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	91	199	0	0.514124	0	C|0.268;N|0.000	0.268	strong	.	PTPRD	1348	.	NM_130392	exon10	c.A1248G	p.A416A	GGATGGTGCTTGC	.	PASS	Atlas-SNP
PPFIA2	8499	hgsc.bcm.edu	37	12	81769581	81769581	+	Silent	SNP	C	C	T	rs10862301	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	69	136	0	0.534884	0	C|0.573;N|0.000	.	strong	.	PPFIA2	207	.	NM_001220476	exon9	c.G1125A	p.L375L	CTGCCGCAGGATA	.	PASS	Atlas-SNP
FAM219A	203259	hgsc.bcm.edu	37	9	34401049	34401049	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	4	37	0	0.0833333	0	.	.	none	.	FAM219A	3	.	NM_001184940	exon6	c.G471A	p.E157E	TAGGTCCTCGTCG	.	PASS	Atlas-SNP
COG5	10466	hgsc.bcm.edu	37	7	107002504	107002504	+	Missense_Mutation	SNP	T	T	C	rs34087251	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	57	106	0	0.487179	0	T|0.947;C|0.053	0.053	strong	.	COG5	78	.	NM_006348	exon10	c.A1093G	p.I365V	AACAAATGTGAGA	.	PASS	Atlas-SNP
B4GALNT3	283358	hgsc.bcm.edu	37	12	662448	662448	+	Silent	SNP	T	T	C	rs758790	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	29	60	0	0.460317	0	T|0.225;C|0.775	0.775	strong	.	B4GALNT3	64	.	NM_173593	exon14	c.T1359C	p.L453L	GATGCTTGAGGGA	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29821523	29821523	+	Silent	SNP	T	T	C	rs1328323	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	56	128	0	0.4375	0	C|0.381;G|0.000;T|0.619	0.381	strong	.	SVIL	226	.	NM_021738	exon8	c.A1773G	p.K591K	AGAGACTTTTGTG	.	PASS	Atlas-SNP
KIAA1024	23251	hgsc.bcm.edu	37	15	79748603	79748603	+	Silent	SNP	C	C	T	rs7183867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	59	109	0	0.464567	0	C|0.813;T|0.187	0.187	strong	.	KIAA1024	146	.	NM_015206	exon2	c.C114T	p.F38F	CCGGTTCGACCTG	.	PASS	Atlas-SNP
PRUNE	58497	hgsc.bcm.edu	37	1	150999737	150999737	+	Silent	SNP	A	A	G	rs11204762	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	148	87	0	1	0	A|0.743;G|0.257	0.257	strong	.	PRUNE	40	.	NM_021222	exon6	c.A708G	p.K236K	GAGAAAAGACCAG	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56667682	56667682	+	Missense_Mutation	SNP	G	G	C	rs9835332	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	68	52	0	0.985507	0	G|0.365;C|0.635	0.635	strong	.	FAM208A	113	.	NM_001112736	exon18	c.C3137G	p.T1046R	GAAACTGTACTGA	.	PASS	Atlas-SNP
OR7A10	390892	hgsc.bcm.edu	37	19	14951889	14951889	+	Silent	SNP	A	A	G	rs3752194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	31	60	0	0.476923	0	A|0.922;G|0.078	0.078	strong	.	OR7A10	33	.	NM_001005190	exon1	c.T801C	p.N267N	GTGTGAATTGTGG	.	PASS	Atlas-SNP
ADAD2	161931	hgsc.bcm.edu	37	16	84229436	84229436	+	Silent	SNP	G	G	A	rs62049905	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	47	22	0	0.959184	0	G|0.696;A|0.304	0.304	strong	ADAD2,NS,carcinoma,0,1	ADAD2	46	1	NM_139174	exon8	c.G1314A	p.S438S	CACCTCGGAAGGT	.	PASS	Atlas-SNP
TRAF7	84231	hgsc.bcm.edu	37	16	2222286	2222286	+	Silent	SNP	C	C	T	rs11547311	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	34	84	0	0.441558	0	C|0.945;T|0.055	0.055	strong	.	TRAF7	158	.	NM_032271	exon8	c.C570T	p.H190H	CCGGCACGGCTGC	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59814268	59814268	+	Silent	SNP	G	G	A	rs9320000	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	163	224	0	1	0	G|0.397;A|0.603	0.603	strong	.	PIGN	62	.	NM_176787	exon9	c.C741T	p.H247H	ATAGAAGTGGTTA	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851900	97851900	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	456	20	375	1	0.0438596	0.00266667	.	.	none	OR5H1,NS,carcinoma,0,1	OR5H1	71	1	NM_001005338	exon1	c.A359G	p.Y120C	TGGCATATGATCG	.	scavenged	Atlas-SNP
OMA1	115209	hgsc.bcm.edu	37	1	59002221	59002221	+	Silent	SNP	T	T	C	rs7537470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	149	152	0	0.993333	0	T|0.862;C|0.138	0.138	strong	.	OMA1	50	.	NM_145243	exon3	c.A693G	p.E231E	GAACTGTTCTTTC	.	PASS	Atlas-SNP
RAB11FIP4	84440	hgsc.bcm.edu	37	17	29857460	29857460	+	Silent	SNP	G	G	A	rs61731602	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	50	92	0	0.581395	0	G|0.878;A|0.122	0.122	strong	.	RAB11FIP4	65	.	NM_032932	exon14	c.G1770A	p.A590A	GGCTGCGGAGATA	.	PASS	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	37	7	135329690	135329690	+	Silent	SNP	T	T	C	rs12540688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	116	118	0	1	0	T|0.778;C|0.222	0.222	strong	NUP205,NS,carcinoma,0,1	NUP205	198	1	NM_015135	exon40	c.T5607C	p.A1869A	CACTGCTCAGAAA	.	PASS	Atlas-SNP
BST1	683	hgsc.bcm.edu	37	4	15709252	15709252	+	Missense_Mutation	SNP	G	G	A	rs2302464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	82	151	0	0.573427	0	G|0.944;A|0.056	0.056	strong	BST1,NS,carcinoma,0,1	BST1	30	1	NM_004334	exon3	c.G434A	p.R145Q	GGTGTCGACAGAA	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76853783	76853783	+	Missense_Mutation	SNP	T	T	C	rs1052030	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	60	108	0	0.545455	0	T|0.491;C|0.509	0.509	strong	.	MYO7A	164	.	NM_001127179	exon3	c.T47C	p.L16S	TGAGATTGGGGCA	.	PASS	Atlas-SNP
CHD4	1108	hgsc.bcm.edu	37	12	6711147	6711147	+	Missense_Mutation	SNP	C	C	A	rs1639122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	4	13	0	0.444444	0	C|0.440;A|0.560	0.560	strong	CHD4_ENST00000357008,colon,carcinoma,0,3	CHD4	539	3	NM_001273	exon4	c.G417T	p.E139D	ATCATCCTCCTCC	.	PASS	Atlas-SNP
MLL4	8085	hgsc.bcm.edu	37	19	36218478	36218478	+	Silent	SNP	C	C	T	rs11670414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	7	12	0	0.4375	0	C|0.856;T|0.144	0.144	strong	.	MLL4	229	.	NM_014727	exon16	c.C4257T	p.G1419G	CCAGGGCCTGCTG	.	PASS	Atlas-SNP
OR6P1	128366	hgsc.bcm.edu	37	1	158533224	158533224	+	Silent	SNP	A	A	G	rs12081915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	20	67	2	0.289855	0.0298507	A|0.441;G|0.558	0.558	strong	OR6P1,NS,carcinoma,-1,1	OR6P1	47	1	NM_001160325	exon1	c.T171C	p.R57R	CATGGGACGATGA	.	scavenged	Atlas-SNP
NCLN	56926	hgsc.bcm.edu	37	19	3186085	3186085	+	Silent	SNP	G	G	T	rs11551095	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	54	28	0	0.519231	0	G|0.450;T|0.550	0.550	strong	NCLN,NS,carcinoma,0,1	NCLN	27	1	NM_020170	exon1	c.G57T	p.P19P	TCTGCCGCTCGGC	.	PASS	Atlas-SNP
PSG11	5680	hgsc.bcm.edu	37	19	43529026	43529026	+	Missense_Mutation	SNP	C	C	T	rs34787457	bycluster;alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	45	91	0	0.5	0	CA|0.500;TG|0.500	.	alt	.	PSG11	57	.	NM_002785	exon2	c.G247A	p.V83I	CTACTACATATGA	.	PASS	Atlas-SNP
BTN1A1	696	hgsc.bcm.edu	37	6	26501897	26501897	+	Silent	SNP	T	T	C	rs1321479	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	78	47	2	0.987342	0.0425532	T|0.485;C|0.515	0.515	strong	BTN1A1,colon,carcinoma,0,1	BTN1A1	68	1	NM_001732	exon2	c.T159C	p.S53S	CCTGTCTCCGAAC	.	scavenged	Atlas-SNP
RNASEL	6041	hgsc.bcm.edu	37	1	182554557	182554557	+	Missense_Mutation	SNP	C	C	T	rs486907	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	282	282	226	0	1	0	C|0.737;T|0.263	0.263	strong	.	RNASEL	83	.	NM_021133	exon2	c.G1385A	p.R462Q	ACATTTCGGGCAA	.	PASS	Atlas-SNP
MUC7	4589	hgsc.bcm.edu	37	4	71347171	71347171	+	Missense_Mutation	SNP	C	C	T	rs147763101	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	22	276	1	0.110553	0.00362319	C|0.991;T|0.010	0.010	strong	MUC7,trunk,malignant_melanoma,0,1	MUC7	91	1	NM_001145007	exon4	c.C710T	p.A237V	CAGCTGCCCCACC	.	scavenged	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117808785	117808785	+	Missense_Mutation	SNP	T	T	A	rs2104772	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	206	109	246	0	0.529126	0	T|0.519;A|0.481	0.481	strong	.	TNC	282	.	NM_002160	exon17	c.A5029T	p.I1677L	CTGTTATGTCCCT	.	PASS	Atlas-SNP
DYTN	391475	hgsc.bcm.edu	37	2	207564562	207564562	+	Missense_Mutation	SNP	T	T	A	rs112735024	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	81	139	0	0.487952	0	T|0.997;A|0.003	0.003	strong	.	DYTN	168	.	NM_001093730	exon7	c.A608T	p.E203V	GGAGGCTCAGATT	.	PASS	Atlas-SNP
SIN3B	23309	hgsc.bcm.edu	37	19	16973724	16973724	+	Silent	SNP	G	G	A	rs143287291	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	87	157	0	0.462766	0	G|0.992;A|0.008	0.008	strong	SIN3B,NS,malignant_melanoma,+1,1	SIN3B	90	1	NM_015260	exon10	c.G1296A	p.S432S	GGGTTCGTGGACA	.	PASS	Atlas-SNP
MOGAT1	116255	hgsc.bcm.edu	37	2	223559089	223559089	+	Missense_Mutation	SNP	T	T	C	rs1868024	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	43	138	0	0.43	0	C|0.221;N|0.001	0.221	strong	.	MOGAT1	47	.	NM_058165	exon4	c.T487C	p.S163P	CTGGTTTCAGTTT	.	PASS	Atlas-SNP
MCAM	4162	hgsc.bcm.edu	37	11	119185677	119185677	+	Missense_Mutation	SNP	T	T	C	rs34587557	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	15	30	0	0.652174	0	T|0.968;C|0.032	0.032	strong	MCAM,NS,carcinoma,0,1	MCAM	57	1	NM_006500	exon3	c.A266G	p.E89G	CGCTGCTCGTACT	.	PASS	Atlas-SNP
MAPT	4137	hgsc.bcm.edu	37	17	44061025	44061025	+	Silent	SNP	C	C	T	rs63750222	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	48	98	0	0.551724	0	C|0.896;T|0.104	0.104	strong	.	MAPT	135	.	NM_001123066	exon6	c.C855T	p.D285D	GCCCGACGGGCCC	.	PASS	Atlas-SNP
CHST13	166012	hgsc.bcm.edu	37	3	126260608	126260608	+	Silent	SNP	G	G	T	rs6766712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	8	1	0	1	0	G|0.739;T|0.261	0.261	strong	CHST13,NS,carcinoma,0,1	CHST13	21	1	NM_152889	exon3	c.G213T	p.R71R	GCACCGGCAGCGG	.	scavenged	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49445949	49445949	+	Missense_Mutation	SNP	G	G	T	rs367925817		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	49	86	0	0.505155	0	.	.	weak	.	MLL2	1173	.	NM_003482	exon10	c.C1517A	p.P506Q	TCAGGTGGGGGAG	.	PASS	Atlas-SNP
CASP1	834	hgsc.bcm.edu	37	11	104900488	104900488	+	Silent	SNP	G	G	A	rs580253	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	83	166	0	0.451087	0	G|0.867;A|0.133	0.133	strong	.	CASP1	53	.	NM_001257118	exon6	c.C766T	p.L256L	GTTGTAGTATATC	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1537455	1537455	+	Missense_Mutation	SNP	T	T	C	rs2667673	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	32	88	0	0.463768	0	T|0.479;C|0.521	0.521	strong	.	PTX4	46	.	NM_001013658	exon2	c.A643G	p.R215G	GGCCCCTGTGCTC	.	PASS	Atlas-SNP
FAIM	55179	hgsc.bcm.edu	37	3	138329862	138329862	+	Silent	SNP	G	G	A	rs811322	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	146	143	0	0.663636	0	A|0.616;C|0.002	0.616	strong	.	FAIM	27	.	NM_001033030	exon2	c.G63A	p.P21P	ATCTCCGGACTCT	.	PASS	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	37	4	2341194	2341194	+	Silent	SNP	T	T	C	rs2071680	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	70	151	0	0.448718	0	T|0.375;C|0.625	0.625	strong	.	ZFYVE28	79	.	NM_020972	exon4	c.A507G	p.A169A	AAACTCTGCGAAC	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23861811	23861811	+	Missense_Mutation	SNP	A	A	G	rs365990	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	63	149	0	0.470149	0	A|0.576;G|0.424	0.424	strong	.	MYH6	274	.	NM_002471	exon25	c.T3302C	p.V1101A	GCCAGCACCTGCT	.	PASS	Atlas-SNP
RARG	5916	hgsc.bcm.edu	37	12	53605496	53605496	+	Silent	SNP	C	C	T	rs61754163	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	20	30	0	0.555556	0	C|0.949;T|0.051	0.051	strong	.	RARG	53	.	NM_000966	exon10	c.G1329A	p.G443G	CTGGCCCCCAGGA	.	PASS	Atlas-SNP
OR5D14	219436	hgsc.bcm.edu	37	11	55563900	55563900	+	Missense_Mutation	SNP	T	T	C	rs297055	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	30	47	1	0.517241	0.0212766	T|0.746;C|0.254	0.254	strong	OR5D14,NS,carcinoma,-1,3	OR5D14	116	3	NM_001004735	exon1	c.T869C	p.L290P	ACCCTCTGATCTA	.	scavenged	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	37	19	52000192	52000192	+	Missense_Mutation	SNP	A	A	G	rs144032115	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	15	95	0	0.113636	0	A|1.000;G|0.000	0.000	strong	SIGLEC12,NS,haematopoietic_neoplasm,0,1	SIGLEC12	243	1	NM_053003	exon7	c.T1541C	p.V514A	ACGCCCACTGCTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9075969	9075969	+	Missense_Mutation	SNP	C	C	T	rs2591593	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	69	158	0	0.423313	0	C|0.750;T|0.250	0.250	strong	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon3	c.G11477A	p.G3826E	ACCTGCCCTGGAT	.	PASS	Atlas-SNP
PIK3CD	5293	hgsc.bcm.edu	37	1	9784423	9784423	+	Silent	SNP	C	C	T	rs41476649	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	55	98	0	0.528846	0	C|0.800;T|0.200	0.200	strong	.	PIK3CD	86	.	NM_005026	exon22	c.C2808T	p.Y936Y	CACCTACGACTTT	.	PASS	Atlas-SNP
DHRS4L1	728635	hgsc.bcm.edu	37	14	24507010	24507010	+	Missense_Mutation	SNP	C	C	A	rs12587718	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	166	146	0	0.976471	0	C|0.731;A|0.269	0.269	strong	.	.	.	.	NM_001082488	exon2	c.C187A	p.R63S	GTCAGCCGCCGGA	.	PASS	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	37	8	53555069	53555069	+	Silent	SNP	A	A	G	rs2305427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	69	160	0	0.518797	0	A|0.779;G|0.221	0.221	strong	.	RB1CC1	163	.	NM_001083617	exon18	c.T4179C	p.R1393R	GCTACTACGCAAC	.	PASS	Atlas-SNP
MORN3	283385	hgsc.bcm.edu	37	12	122092181	122092181	+	Silent	SNP	C	C	T	rs11043312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	12	10	0	0.6	0	C|0.950;T|0.050	0.050	strong	.	MORN3	20	.	NM_173855	exon3	c.G462A	p.L154L	CTCACTCAGGCGC	.	PASS	Atlas-SNP
SCUBE2	57758	hgsc.bcm.edu	37	11	9082068	9082068	+	Missense_Mutation	SNP	G	G	A	rs72547298	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	26	41	0	0.5	0	G|0.994;A|0.006	0.006	strong	.	SCUBE2	102	.	NM_001170690	exon8	c.C854T	p.T285M	GCACACGTTTCTG	.	PASS	Atlas-SNP
DTX1	1840	hgsc.bcm.edu	37	12	113532885	113532885	+	Silent	SNP	C	C	T	rs12426056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	21	51	0	0.403846	0	C|0.902;T|0.098	0.098	strong	.	DTX1	83	.	NM_004416	exon7	c.C1425T	p.Y475Y	CATCTACGGGGAG	.	PASS	Atlas-SNP
MCM10	55388	hgsc.bcm.edu	37	10	13230934	13230934	+	Silent	SNP	C	C	T	rs7904071	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	35	72	0	0.522388	0	C|0.909;T|0.091	0.091	strong	.	MCM10	76	.	NM_182751	exon10	c.C1272T	p.S424S	GCTCAGCGCAAAG	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31110786	31110786	+	Silent	SNP	T	T	A	rs12364	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	68	140	0	0.485714	0	T|0.846;A|0.154	0.154	strong	.	CCHCR1	68	.	NM_001105564	exon17	c.A2445T	p.A815A	TGCAGATGCTGAA	.	PASS	Atlas-SNP
MFSD6L	162387	hgsc.bcm.edu	37	17	8701423	8701423	+	Missense_Mutation	SNP	A	A	G	rs34184531	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	24	76	0	0.40678	0	A|0.802;G|0.198	0.198	strong	.	MFSD6L	46	.	NM_152599	exon1	c.T1016C	p.I339T	AAGGCAATGCTCA	.	PASS	Atlas-SNP
EFEMP2	30008	hgsc.bcm.edu	37	11	65638719	65638719	+	Silent	SNP	G	G	A	rs633800	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	133	137	0	0.992537	0	G|0.642;A|0.358	0.358	strong	.	EFEMP2	42	.	NM_016938	exon4	c.C276T	p.H92H	CTCGCCGTGTAGG	.	PASS	Atlas-SNP
NAA25	80018	hgsc.bcm.edu	37	12	112486213	112486213	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	4	49	0	0.0701754	0	.	.	none	.	NAA25	105	.	NM_024953	exon16	c.G1763A	p.G588D	AATGCACCATATT	.	PASS	Atlas-SNP
REEP3	221035	hgsc.bcm.edu	37	10	65380587	65380587	+	Silent	SNP	A	A	G	rs1133386	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	19	44	0	0.395833	0	A|0.988;G|0.012	0.012	strong	.	REEP3	14	.	NM_001001330	exon8	c.A726G	p.S242S	CGGGTCACTAAAA	.	PASS	Atlas-SNP
OTUD7A	161725	hgsc.bcm.edu	37	15	31776837	31776837	+	Missense_Mutation	SNP	C	C	G	rs76704217	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	46	81	0	0.547619	0	C|0.970;G|0.030	0.030	strong	.	OTUD7A	89	.	NM_130901	exon11	c.G1441C	p.V481L	TGCACACCGAATC	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746416	143746416	+	Silent	SNP	A	A	G	rs754957	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	81	81	0	1	0	A|0.478;G|0.522	0.522	strong	.	.	.	.	NM_003724	exon2	c.T1062C	p.H354H	GCGGGCATGGGGG	.	PASS	Atlas-SNP
KIAA1958	158405	hgsc.bcm.edu	37	9	115337154	115337154	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	5	99	0	0.0490196	0	.	.	none	KIAA1958_ENST00000374244,NS,carcinoma,+1,3	KIAA1958	52	3	NM_133465	exon2	c.A794G	p.D265G	AGCTAGACCCACA	.	PASS	Atlas-SNP
SAMD15	161394	hgsc.bcm.edu	37	14	77844869	77844869	+	Missense_Mutation	SNP	A	A	G	rs4903576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	32	75	0	0.516129	0	A|0.446;G|0.554	0.554	strong	SAMD15,NS,carcinoma,0,1	SAMD15	60	1	NM_001010860	exon1	c.A1108G	p.K370E	AATGAGAAAAAAA	.	PASS	Atlas-SNP
OGFOD3	79701	hgsc.bcm.edu	37	17	80373452	80373452	+	Silent	SNP	C	C	T	rs4789769	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	22	43	0	0.536585	0	C|0.728;T|0.272	0.272	strong	.	.	.	.	NM_175902	exon2	c.G126A	p.P42P	TAGCCACGGCCTC	.	PASS	Atlas-SNP
UGT2B17	7367	hgsc.bcm.edu	37	4	69433714	69433714	+	Silent	SNP	C	C	T	rs34664906	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	226	225	0	0	0.995575	.	C|0.694;T|0.306	0.306	strong	UGT2B17,NS,carcinoma,-1,1	UGT2B17	34	1	NM_001077	exon1	c.G489A	p.E163E	AAGTAGCTCAGCC	.	PASS	Atlas-SNP
ESR2	2100	hgsc.bcm.edu	37	14	64724051	64724051	+	Silent	SNP	C	C	T	rs1256049	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	49	89	0	0.521277	0	C|0.909;T|0.091	0.091	strong	ESR2,NS,carcinoma,0,1	ESR2	82	1	NM_001214902	exon5	c.G984A	p.V328V	GAGCCGCACTTGG	.	PASS	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	37	9	139916833	139916833	+	Silent	SNP	T	T	G	rs35590326	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	73	123	9	0.503448	0.0731707	T|0.914;G|0.086	0.086	strong	ABCA2,NS,carcinoma,0,1	ABCA2	113	1	NM_212533	exon6	c.A627C	p.A209A	CAAGAGTGCTTGG	.	scavenged	Atlas-SNP
KCNIP4	80333	hgsc.bcm.edu	37	4	20751343	20751343	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	4	53	0	0.0833333	0	.	.	none	.	KCNIP4	85	.	NM_025221	exon4	c.A311G	p.Y104C	TGTGCATATGTTG	.	PASS	Atlas-SNP
TMEM14E	645843	hgsc.bcm.edu	37	3	152058449	152058449	+	Missense_Mutation	SNP	A	A	G	rs13077912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	95	123	0	0.625	0	A|0.902;G|0.098	0.098	strong	.	TMEM14E	6	.	NM_001123228	exon1	c.T245C	p.L82P	AGTGTTAGAATCT	.	PASS	Atlas-SNP
SRRM4	84530	hgsc.bcm.edu	37	12	119568596	119568596	+	Missense_Mutation	SNP	G	G	A	rs7297606	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	14	18	0	0.538462	0	G|0.908;A|0.092	0.092	strong	.	SRRM4	131	.	NM_194286	exon8	c.G728A	p.S243N	CGCCCAGTCAACC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32634350	32634350	+	Missense_Mutation	SNP	T	T	C	rs1049057	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	12	12	51	0	1	0	T|0.417;C|0.583	0.583	strong	.	HLA-DQB1	15	.	NM_002123	exon1	c.A35G	p.D12G	CGAAGGTCTCCGG	.	PASS	Atlas-SNP
WWC2	80014	hgsc.bcm.edu	37	4	184207192	184207192	+	Missense_Mutation	SNP	C	C	T	rs148189381		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	40	52	0	0.5	0	C|1.000;T|0.000	0.000	weak	.	WWC2	78	.	NM_024949	exon20	c.C3121T	p.R1041C	GAACGCCGCAGTT	.	PASS	Atlas-SNP
GRAP2	9402	hgsc.bcm.edu	37	22	40366924	40366924	+	Missense_Mutation	SNP	C	C	T	rs149718626	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	18	61	0	0.461538	0	C|1.000;T|0.000	0.000	strong	.	GRAP2	29	.	NM_004810	exon8	c.C829T	p.R277W	TGGGCCCGGGCGC	.	PASS	Atlas-SNP
OR6C74	254783	hgsc.bcm.edu	37	12	55641075	55641075	+	Missense_Mutation	SNP	A	A	G	rs7301705	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	33	65	0	0.434211	0	A|0.753;G|0.247	0.247	strong	.	OR6C74	52	.	NM_001005490	exon1	c.A4G	p.R2G	ACTATGAGAAACC	.	PASS	Atlas-SNP
CYP2A7	1549	hgsc.bcm.edu	37	19	41384702	41384702	+	Missense_Mutation	SNP	T	T	C	rs117539170	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	113	188	0	0.515982	0	T|0.870;C|0.130	0.130	strong	.	CYP2A7	71	.	NM_000764	exon5	c.A794G	p.Q265R	AAGTCCTGTGGGG	.	PASS	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	37	3	132218623	132218623	+	Missense_Mutation	SNP	G	G	T	rs3762672	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	41	78	0	0.414141	0	G|0.315;T|0.685	0.685	strong	.	DNAJC13	253	.	NM_015268	exon38	c.G4387T	p.A1463S	ACTCGTGCTAGTA	.	PASS	Atlas-SNP
CRYGB	1419	hgsc.bcm.edu	37	2	209007559	209007559	+	Missense_Mutation	SNP	T	T	G	rs796287	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	210	242	0	0.995261	0	G|0.655;N|0.000	0.655	strong	.	CRYGB	24	.	NM_005210	exon3	c.A331C	p.I111L	CAGAGATACAGTC	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998331	17998331	+	Silent	SNP	T	T	C	rs13001625	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	67	54	0	0.985294	0	T|0.585;C|0.415	0.415	strong	.	MSGN1	39	.	NM_001105569	exon1	c.T546C	p.L182L	CCTCCTTAACCGC	.	PASS	Atlas-SNP
PDCD4	27250	hgsc.bcm.edu	37	10	112654238	112654238	+	Silent	SNP	C	C	T	rs41292602	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	15	31	0	0.5	0	C|0.997;T|0.003	0.003	strong	.	PDCD4	39	.	NM_014456	exon10	c.C1167T	p.S389S	AAAGTCCCTTTGG	.	PASS	Atlas-SNP
CD164L2	388611	hgsc.bcm.edu	37	1	27709020	27709020	+	Missense_Mutation	SNP	T	T	C	rs2504779	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	37	72	0	0.474359	0	T|0.731;C|0.269	0.269	strong	.	CD164L2	13	.	NM_207397	exon2	c.A226G	p.M76V	CCCACATGCAGCT	.	PASS	Atlas-SNP
HUS1	3364	hgsc.bcm.edu	37	7	48004962	48004962	+	Silent	SNP	C	C	T	rs1056663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	107	61	0	1	0	C|0.560;T|0.440	0.440	strong	.	HUS1	36	.	NM_004507	exon8	c.G834A	p.A278A	GGACAGCGCAGGG	.	PASS	Atlas-SNP
SLC4A10	57282	hgsc.bcm.edu	37	2	162696414	162696414	+	Silent	SNP	C	C	T	rs2084543	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	40	86	0	0.465116	0	C|0.922;T|0.078	0.078	strong	.	SLC4A10	309	.	NM_001178016	exon5	c.C426T	p.D142D	TGAGGACGCTGAG	.	PASS	Atlas-SNP
DCLRE1B	64858	hgsc.bcm.edu	37	1	114449662	114449662	+	Silent	SNP	T	T	C	rs3761936	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	198	97	146	0	0.489899	0	C|0.191;N|0.000	0.191	strong	.	DCLRE1B	36	.	NM_022836	exon2	c.T234C	p.H78H	GAGCCATGTATTA	.	PASS	Atlas-SNP
STPG1	90529	hgsc.bcm.edu	37	1	24718079	24718079	+	Missense_Mutation	SNP	C	C	A	rs560219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	32	63	0	0.457143	0	C|0.758;A|0.242	0.242	strong	.	.	.	.	NM_001199012	exon3	c.G161T	p.S54I	GCTTGACTATTGA	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744358	54744358	+	Nonsense_Mutation	SNP	A	A	C	rs1052992	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	286	33	211	8	0.115385	0.0379147	A|1.000;|0.000	.	weak	LILRA6,NS,carcinoma,0,1	LILRA6	75	1	NM_024318	exon6	c.T1050G	p.Y350X	GTCAAAATAACCC	.	scavenged	Atlas-SNP
FAM83G	644815	hgsc.bcm.edu	37	17	18907198	18907198	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	60	110	0	0.517241	0	.	.	none	.	FAM83G	51	.	NM_001039999	exon2	c.G157A	p.E53K	TGTTCTCCCGCTT	.	PASS	Atlas-SNP
UBTD2	92181	hgsc.bcm.edu	37	5	171639152	171639152	+	Missense_Mutation	SNP	C	C	T	rs17074452	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	95	148	0	0.555556	0	C|0.983;T|0.017	0.017	strong	.	UBTD2	26	.	NM_152277	exon3	c.G387A	p.M129I	CTCTATCATGTTG	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42363480	42363480	+	Missense_Mutation	SNP	G	G	A	rs17747505	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	12	27	0	0.444444	0	G|0.925;A|0.075	0.075	strong	.	PLA2G4D	72	.	NM_178034	exon17	c.C1717T	p.R573W	CCAGCCGCGAGGA	.	PASS	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	37	4	2307121	2307121	+	Missense_Mutation	SNP	G	G	A	rs61742112	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	50	78	0	0.561798	0	A|0.086;C|0.000;G|0.914	0.086	strong	.	ZFYVE28	79	.	NM_020972	exon8	c.C946T	p.P316S	CCTCAGGGGGGAG	.	PASS	Atlas-SNP
HBP1	26959	hgsc.bcm.edu	37	7	106836344	106836344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	55	102	0	0.504587	0	.	.	none	.	HBP1	31	.	NM_001244262	exon9	c.G1163A	p.R388H	AGCGTCGTGCATC	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167269629	167269629	+	Silent	SNP	T	T	G	rs33922582	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	224	222	302	1	0.991071	0.00331126	T|0.945;G|0.055	0.055	strong	.	SCN7A	410	.	NM_002976	exon21	c.A3417C	p.A1139A	AAATGTTGCCTGT	.	PASS	Atlas-SNP
OR2G3	81469	hgsc.bcm.edu	37	1	247769062	247769062	+	Missense_Mutation	SNP	A	A	G	rs61748963	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	337	156	330	0	0.462908	0	A|0.914;G|0.086	0.086	strong	OR2G3,NS,carcinoma,-2,2	OR2G3	108	2	NM_001001914	exon1	c.A175G	p.M59V	ACCCCAATGTACT	.	PASS	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	37	10	50732280	50732280	+	Missense_Mutation	SNP	C	C	T	rs2228528	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	53	118	0	0.452991	0	C|0.794;T|0.206	0.206	strong	.	ERCC6	162	.	NM_000124	exon5	c.T1196A	p.L399H	TCAGTACCATCTC	.	PASS	Atlas-SNP
POLR2H	5437	hgsc.bcm.edu	37	3	184082931	184082931	+	Silent	SNP	T	T	C	rs11556518	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	68	178	0	0.350515	0	T|0.918;C|0.082	0.082	strong	.	POLR2H	17	.	NM_006232	exon3	c.T168C	p.F56F	CAAGTTTCGGTTG	.	PASS	Atlas-SNP
SIX5	147912	hgsc.bcm.edu	37	19	46269076	46269076	+	Missense_Mutation	SNP	G	G	A	rs2014576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	19	25	0	0.542857	0	G|0.543;A|0.457	0.457	strong	.	SIX5	35	.	NM_175875	exon3	c.C1903T	p.P635S	AGAAGGGCAGGCT	.	PASS	Atlas-SNP
GABRR1	2569	hgsc.bcm.edu	37	6	89888744	89888744	+	Silent	SNP	C	C	T	rs1796743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	43	78	0	0.544304	0	C|0.582;T|0.418	0.418	strong	.	GABRR1	63	.	NM_002042	exon10	c.G1185A	p.A395A	CAGCATCGCAGTG	.	PASS	Atlas-SNP
ADCK4	79934	hgsc.bcm.edu	37	19	41220529	41220529	+	Silent	SNP	C	C	T	rs11673492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	48	101	0	0.5	0	C|0.854;T|0.146	0.146	strong	.	ADCK4	92	.	NM_001142555	exon2	c.G9A	p.L3L	CACCTTCAGCCAC	.	PASS	Atlas-SNP
TARBP1	6894	hgsc.bcm.edu	37	1	234529570	234529570	+	Silent	SNP	G	G	A	rs2175593	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	61	120	0	0.516949	0	G|0.519;A|0.481	0.481	strong	.	TARBP1	111	.	NM_005646	exon27	c.C4257T	p.V1419V	TGCTTCGACCAAA	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110491840	110491840	+	Missense_Mutation	SNP	C	C	G	rs1783147	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	48	103	0	0.461538	0	C|0.626;G|0.374	0.374	strong	.	PKHD1L1	522	.	NM_177531	exon54	c.C9150G	p.H3050Q	ACCTCACCCAGGG	.	PASS	Atlas-SNP
GTSE1	51512	hgsc.bcm.edu	37	22	46704243	46704243	+	Silent	SNP	C	C	T	rs6008598	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	26	53	0	0.553191	0	C|0.821;T|0.179	0.179	strong	.	GTSE1	100	.	NM_016426	exon4	c.C165T	p.F55F	CTTCTTCGGACCC	.	PASS	Atlas-SNP
LANCL3	347404	hgsc.bcm.edu	37	X	37431597	37431597	+	Silent	SNP	G	G	T	rs186317346	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	25	38	0	0.961538	0	G|0.981;T|0.019	0.019	strong	.	LANCL3	42	.	NM_001170331	exon1	c.G474T	p.A158A	CTGCGCGCCGGTC	.	PASS	Atlas-SNP
ZSCAN30	100101467	hgsc.bcm.edu	37	18	32834186	32834186	+	Missense_Mutation	SNP	T	T	G	rs2249769	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	232	144	144	0	0.62069	0	T|0.892;G|0.108	0.108	strong	.	ZSCAN30	34	.	NM_001166012	exon5	c.A713C	p.Q238P	CCCTTTTGCTTCT	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70225504	70225504	+	Silent	SNP	G	G	T	rs3758626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	22	58	0	0.431373	0	G|0.672;T|0.328	0.328	strong	.	DNA2	76	.	NM_001080449	exon4	c.C507A	p.A169A	ATTTATGGCTTTT	.	PASS	Atlas-SNP
MYCT1	80177	hgsc.bcm.edu	37	6	153043035	153043035	+	Missense_Mutation	SNP	G	G	A	rs17710008	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	78	196	0	0.450867	0	G|0.882;A|0.118	0.118	strong	.	MYCT1	48	.	NM_025107	exon2	c.G355A	p.G119S	ACCCACGGCCTCA	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112176325	112176325	+	Silent	SNP	G	G	A	rs42427	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	80	107	0	1	0	G|0.379;A|0.621	0.621	strong	.	APC	4158	.	NM_001127510	exon17	c.G5034A	p.G1678G	AGGAGGGGCACAG	.	PASS	Atlas-SNP
NEK3	4752	hgsc.bcm.edu	37	13	52707924	52707924	+	Missense_Mutation	SNP	A	A	C	rs200805375	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	30	104	0	0.416667	0	A|0.999;C|0.001	0.001	weak	.	NEK3	41	.	NM_002498	exon15	c.T1337G	p.L446R	TCAGACAGGGGGC	.	PASS	Atlas-SNP
DFNB31	25861	hgsc.bcm.edu	37	9	117169033	117169033	+	Missense_Mutation	SNP	A	A	G	rs942519	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	30	63	0	0.545455	0	A|0.511;G|0.489	0.489	strong	.	DFNB31	100	.	NM_001173425	exon9	c.T1838C	p.M613T	GAAGGCATGGAGG	.	PASS	Atlas-SNP
CLIP4	79745	hgsc.bcm.edu	37	2	29356567	29356567	+	Silent	SNP	G	G	C	rs17749904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	31	87	0	0.469697	0	G|0.838;C|0.162	0.162	strong	.	CLIP4	69	.	NM_024692	exon5	c.G414C	p.L138L	TGACCTGGGAGCA	.	PASS	Atlas-SNP
NCOA5	57727	hgsc.bcm.edu	37	20	44691350	44691350	+	Silent	SNP	T	T	G	rs1537028	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	86	188	0	0.411483	0	A|0.003;C|0.002	.	strong	.	NCOA5	58	.	NM_020967	exon8	c.A1329C	p.T443T	CGTCACTGTGCCA	.	PASS	Atlas-SNP
LACC1	144811	hgsc.bcm.edu	37	13	44457984	44457984	+	Silent	SNP	A	A	G	rs9533673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	54	101	0	0.432	0	A|0.903;G|0.097	0.097	strong	.	.	.	.	NM_001128303	exon4	c.A819G	p.R273R	TCAGAGAGGAGTC	.	PASS	Atlas-SNP
CDC45	8318	hgsc.bcm.edu	37	22	19482035	19482035	+	Missense_Mutation	SNP	C	C	G	rs151216373	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	10	49	0	0.3125	0	C|0.993;G|0.007	0.007	strong	.	CDC45	48	.	NM_001178010	exon7	c.C548G	p.S183C	GTGGCTCTGGGAG	.	PASS	Atlas-SNP
CPA1	1357	hgsc.bcm.edu	37	7	130022041	130022041	+	Silent	SNP	C	C	T	rs968404	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	34	78	0	0.447368	0	C|0.875;T|0.125	0.125	strong	.	CPA1	73	.	NM_001868	exon4	c.C474T	p.Y158Y	CATTTACGTGCTG	.	PASS	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1578939	1578939	+	Silent	SNP	C	C	T	rs33965342	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	46	85	0	0.469388	0	C|0.711;T|0.289	0.289	strong	.	PRPF8	169	.	NM_006445	exon19	c.G2847A	p.P949P	AAGCAGCGGAGGT	.	PASS	Atlas-SNP
OR6B3	150681	hgsc.bcm.edu	37	2	240984789	240984789	+	Missense_Mutation	SNP	C	C	T	rs12465491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	105	196	0	0.558511	0	C|0.680;T|0.320	0.320	strong	.	OR6B3	37	.	NM_173351	exon1	c.G701A	p.C234Y	CTCCAGCAGCCGG	.	PASS	Atlas-SNP
LYPD2	137797	hgsc.bcm.edu	37	8	143833850	143833850	+	Missense_Mutation	SNP	G	G	A	rs11775636	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	207	193	130	0	0.932367	0	G|0.791;A|0.209	0.209	strong	.	LYPD2	18	.	NM_205545	exon1	c.C20T	p.A7V	AGGAGCGCCAGCC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911115	29911115	+	Silent	SNP	G	G	C	rs12721717	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	23	144	0	0.186992	0	A|0.005;C|0.418;G|0.576	0.418	strong	.	HLA-A	89	.	NM_001242758	exon3	c.G414C	p.R138R	GTACCGGCAGGAC	.	PASS	Atlas-SNP
FLYWCH1	84256	hgsc.bcm.edu	37	16	2983138	2983138	+	Silent	SNP	C	C	T	rs2074363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	21	50	0	0.428571	0	C|0.877;T|0.123	0.123	strong	.	FLYWCH1	27	.	NM_020912	exon5	c.C801T	p.A267A	ACAGGCCCGGCCC	.	PASS	Atlas-SNP
IL2RB	3560	hgsc.bcm.edu	37	22	37531436	37531436	+	Silent	SNP	G	G	A	rs228953	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	38	49	0	0.622951	0	G|0.585;A|0.415	0.415	strong	.	IL2RB	44	.	NM_000878	exon8	c.C750T	p.G250G	GCTGAGGCCCACG	.	PASS	Atlas-SNP
AGMAT	79814	hgsc.bcm.edu	37	1	15909744	15909744	+	Missense_Mutation	SNP	C	C	T	rs11580170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	68	76	0	1	0	C|0.690;T|0.310	0.310	strong	.	AGMAT	25	.	NM_024758	exon2	c.G419A	p.R140Q	TGAATTCGCCGGC	.	PASS	Atlas-SNP
TNKS	8658	hgsc.bcm.edu	37	8	9584176	9584176	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	41	71	0	0.488095	0	.	.	none	.	TNKS	198	.	NM_003747	exon13	c.T1947C	p.D649D	TTCTGATGTTGAT	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	256455	256455	+	Missense_Mutation	SNP	C	C	G	rs1126697	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	2	90	0	0.0192308	0	C|0.998;G|0.002	0.002	weak	SDHA,NS,adenocarcinoma,0,1	SDHA	80	1	NM_004168	exon15	c.C1915G	p.L639V	GTCACTCTGGAAT	.	scavenged	Atlas-SNP
OR9K2	441639	hgsc.bcm.edu	37	12	55523860	55523860	+	Missense_Mutation	SNP	A	A	C	rs7305779	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	29	69	0	0.508772	0	A|0.677;C|0.323	0.323	strong	.	OR9K2	63	.	NM_001005243	exon1	c.A308C	p.E103A	TTATTGAACCCAA	.	PASS	Atlas-SNP
EXOSC10	5394	hgsc.bcm.edu	37	1	11159823	11159823	+	Silent	SNP	T	T	C	rs12133922	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	60	124	2	0.491803	0.016129	T|0.931;C|0.069	0.069	strong	EXOSC10,NS,lymphoid_neoplasm,0,1	EXOSC10	59	1	NM_001001998	exon1	c.A66G	p.G22G	CATCTCTCCGTCG	.	scavenged	Atlas-SNP
NDUFB1	4707	hgsc.bcm.edu	37	14	92588002	92588002	+	Silent	SNP	T	T	G	rs3818263	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	46	105	0	0.410714	0	T|0.520;G|0.480	0.480	strong	NDUFB1,rectum,carcinoma,0,1	NDUFB1	5	1	NM_004545	exon1	c.A120C	p.V40V	AGCGCCTACAGCG	.	PASS	Atlas-SNP
ZNF664	144348	hgsc.bcm.edu	37	12	124496864	124496864	+	Missense_Mutation	SNP	T	T	G	rs80197353	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	53	100	0	0.302857	0	T|0.928;G|0.072	0.072	strong	.	ZNF664	27	.	NM_152437	exon5	c.T173G	p.V58G	AGAAGGTCTATAA	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46652929	46652929	+	Silent	SNP	G	G	A	rs6008365	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	23	49	0	0.377049	0	G|0.739;A|0.261	0.261	strong	.	PKDREJ	195	.	NM_006071	exon1	c.C6291T	p.S2097S	ATACACGGACACA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179453429	179453429	+	Missense_Mutation	SNP	G	G	A	rs72646850	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	119	195	0	0.572115	0	G|0.988;A|0.012	0.012	strong	.	TTN	18412	.	NM_001267550	exon304	c.C63023T	p.T21008I	CATCGTGTTGAAT	.	PASS	Atlas-SNP
ST5	6764	hgsc.bcm.edu	37	11	8751889	8751889	+	Missense_Mutation	SNP	C	C	G	rs3794153	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	7	19	0	0.318182	0	C|0.673;G|0.327	0.327	strong	.	ST5	85	.	NM_005418	exon6	c.G948C	p.K316N	TCCAGTCTTCCTT	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121416623	121416623	+	Missense_Mutation	SNP	G	G	C	rs3732407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	217	78	157	0	0.359447	0	G|0.843;C|0.157	0.157	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.C2747G	p.T916S	TTCTCAGTCATAC	.	PASS	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	37	5	56177443	56177443	+	Missense_Mutation	SNP	G	G	A	rs702689	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	39	92	0	0.448276	0	G|0.472;A|0.528	0.528	strong	.	MAP3K1	355	.	NM_005921	exon14	c.G2416A	p.D806N	TCCATTGATAATT	.	PASS	Atlas-SNP
TBX6	6911	hgsc.bcm.edu	37	16	30097630	30097630	+	Silent	SNP	C	C	T	rs2289292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	33	61	0	0.445946	0	C|0.749;T|0.251	0.251	strong	TBX6,NS,lymphoid_neoplasm,0,2	TBX6	29	2	NM_004608	exon9	c.G1227A	p.P409P	AAAGTGCGGGGCA	.	PASS	Atlas-SNP
TULP2	7288	hgsc.bcm.edu	37	19	49398405	49398405	+	Missense_Mutation	SNP	C	C	T	rs34378208	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	22	37	0	0.55	0	C|0.945;T|0.055	0.055	strong	.	TULP2	60	.	NM_003323	exon6	c.G364A	p.G122S	GGAGACCGAGATT	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169513583	169513583	+	Silent	SNP	G	G	T	rs6037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	53	97	0	0.363014	0	G|0.946;T|0.054	0.054	strong	.	F5	301	.	NM_000130	exon12	c.C1926A	p.T642T	GAAGAGGGTCAAG	.	PASS	Atlas-SNP
ADAM33	80332	hgsc.bcm.edu	37	20	3651765	3651765	+	Missense_Mutation	SNP	C	C	T	rs3918396	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	66	142	0	0.485294	0	C|0.949;T|0.051	0.051	strong	.	ADAM33	76	.	NM_025220	exon19	c.G2128A	p.V710I	GCAGGACGCTGAG	.	PASS	Atlas-SNP
DNAI2	64446	hgsc.bcm.edu	37	17	72278021	72278021	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	3	107	1	0.029703	0.00934579	.	.	none	DNAI2,NS,carcinoma,-1,3	DNAI2	102	3	NM_001172810	exon2	c.A65G	p.D22G	TCTCGGACCGCCA	.	scavenged	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453205	195453205	+	Silent	SNP	G	G	A	rs9870815	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	69	140	0	0.428571	0	G|0.938;A|0.062	0.062	strong	.	MUC20	84	.	NM_152673	exon3	c.G1218A	p.S406S	CCCCTCGGAAGCC	.	PASS	Atlas-SNP
TSPYL6	388951	hgsc.bcm.edu	37	2	54482271	54482271	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	47	106	0	0.51087	0	.	.	none	.	TSPYL6	54	.	NM_001003937	exon1	c.A1018G	p.I340V	TATGAATGAAGGA	.	PASS	Atlas-SNP
LOX	4015	hgsc.bcm.edu	37	5	121413208	121413208	+	Missense_Mutation	SNP	C	C	T	rs1800449	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	48	70	0	0.5	0	C|0.827;T|0.173	0.173	strong	LOX,NS,carcinoma,0,1	LOX	29	1	NM_002317	exon1	c.G473A	p.R158Q	GGCGGCCGCAGGT	.	PASS	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	37	3	39178437	39178437	+	Missense_Mutation	SNP	G	G	T	rs35934336	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	69	74	0	0.579832	0	G|0.960;T|0.040	0.040	strong	.	TTC21A	96	.	NM_145755	exon24	c.G3164T	p.R1055L	AGGCACGCAAGGA	.	PASS	Atlas-SNP
MVB12B	89853	hgsc.bcm.edu	37	9	129102840	129102840	+	Silent	SNP	G	G	A	rs1888156	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	59	105	0	0.468254	0	G|0.676;A|0.324	0.324	strong	.	.	.	.	NM_001011703	exon2	c.G135A	p.T45T	AGAAACGTCAATG	.	PASS	Atlas-SNP
NLRP7	199713	hgsc.bcm.edu	37	19	55451258	55451258	+	Missense_Mutation	SNP	T	T	C	rs77812009	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	38	92	0	0.413043	0	T|0.989;C|0.011	0.011	strong	NLRP7_ENST00000328092,NS,lymphoid_neoplasm,+1,2	NLRP7	411	2	NM_001127255	exon4	c.A929G	p.Q310R	AGGAGCTGGAGGT	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111653574	111653574	+	Silent	SNP	C	C	G	rs1063110	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	30	81	0	0.410959	0	G|0.357;C|0.643	0.357	strong	.	IKBKAP	122	.	NM_003640	exon28	c.G3069C	p.L1023L	ACATGTCAGAAAG	.	PASS	Atlas-SNP
MYADML2	255275	hgsc.bcm.edu	37	17	79899283	79899283	+	Missense_Mutation	SNP	C	C	T	rs118129884	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	10	13	0	0.3125	0	C|0.964;T|0.036	0.036	strong	.	MYADML2	11	.	NM_001145113	exon3	c.G335A	p.R112Q	TCCCGCCGGGCAA	.	PASS	Atlas-SNP
C5AR2	27202	hgsc.bcm.edu	37	19	47844383	47844383	+	Silent	SNP	G	G	T	rs373920189	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	17	26	0	0.515152	0	.	.	alt	.	.	.	.	NM_001271750	exon2	c.G327T	p.A109A	TCGGGCGCTGCCC	.	PASS	Atlas-SNP
DPP7	29952	hgsc.bcm.edu	37	9	140006202	140006202	+	Silent	SNP	G	G	A	rs13631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	58	108	0	0.591837	0	G|0.539;A|0.461	0.461	strong	.	DPP7	22	.	NM_013379	exon11	c.C1212T	p.L404L	GGCTCTGAGATCT	.	PASS	Atlas-SNP
AQP7	364	hgsc.bcm.edu	37	9	33385241	33385241	+	Missense_Mutation	SNP	C	C	A	rs62542743	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	15	44	0	0.394737	0	C|0.964;A|0.036	0.036	strong	.	AQP7	58	.	NM_001170	exon8	c.G791T	p.G264V	TAGGCACCCAGAA	.	PASS	Atlas-SNP
DGKH	160851	hgsc.bcm.edu	37	13	42793479	42793479	+	Silent	SNP	G	G	A	rs180870	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	96	96	0	1	0	G|0.337;A|0.663	0.663	strong	.	DGKH	106	.	NM_001204504	exon28	c.G3327A	p.E1109E	AAATGAGGATGAG	.	PASS	Atlas-SNP
GAPDH	2597	hgsc.bcm.edu	37	12	6647109	6647109	+	Silent	SNP	T	T	C	rs1803621	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	16	24	0	0.761905	0	T|0.686;C|0.314	0.314	strong	.	GAPDH	20	.	NM_002046	exon8	c.T885C	p.F295F	CACCTTTGACGCT	.	PASS	Atlas-SNP
CCDC125	202243	hgsc.bcm.edu	37	5	68616331	68616331	+	Missense_Mutation	SNP	C	C	T	rs10471774	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	54	94	0	0.568421	0	C|0.689;T|0.311	0.311	strong	.	CCDC125	41	.	NM_176816	exon1	c.G37A	p.V13M	GCTGCACGTCTGA	.	PASS	Atlas-SNP
TOX3	27324	hgsc.bcm.edu	37	16	52473263	52473263	+	Silent	SNP	A	A	G	rs9925256	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	34	62	1	0.507463	0.016129	A|0.542;G|0.458	0.458	strong	TOX3,NS,carcinoma,0,1	TOX3	121	1	NM_001080430	exon7	c.T1605C	p.P535P	GGCGACAGGGGAG	.	scavenged	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957517	111957517	+	Missense_Mutation	SNP	T	T	C	rs3767609	bycluster;byfrequency;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	25	109	0	0.277778	0	T|0.776;C|0.224	0.224	strong	.	OVGP1	177	.	NM_002557	exon11	c.A1606G	p.S536G	GATGACTCACAGG	.	PASS	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	37	15	101598314	101598314	+	Silent	SNP	C	C	T	rs11853661	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	41	78	0	0.5	0	C|0.644;T|0.356	0.356	strong	.	LRRK1	310	.	NM_024652	exon29	c.C4647T	p.T1549T	GTACACCGTGGTG	.	PASS	Atlas-SNP
CTAG2	30848	hgsc.bcm.edu	37	X	153881525	153881525	+	Missense_Mutation	SNP	G	G	C	rs17328091	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	163	120	0	0.993902	0	0|0.004;C|0.526	0.526	strong	.	CTAG2	88	.	NM_020994	exon1	c.C265G	p.Q89E	ACAACTGAAGCAG	.	PASS	Atlas-SNP
CAMK2G	818	hgsc.bcm.edu	37	10	75632760	75632760	+	Silent	SNP	C	C	T	rs2675671	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	88	71	0	0.988764	0	C|0.601;T|0.399	0.399	strong	CAMK2G_ENST00000322680,colon,carcinoma,0,2	CAMK2G	79	2	NM_172170	exon2	c.G147A	p.K49K	AGACAACTTCTTG	.	PASS	Atlas-SNP
ERGIC2	51290	hgsc.bcm.edu	37	12	29521193	29521193	+	Silent	SNP	A	A	G	rs12831730	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	112	106	0	0.982456	0	A|0.833;G|0.167	0.167	strong	.	ERGIC2	29	.	NM_016570	exon4	c.T243C	p.T81T	GGCAACAGTAATA	.	PASS	Atlas-SNP
FHDC1	85462	hgsc.bcm.edu	37	4	153886104	153886104	+	Silent	SNP	G	G	A	rs2018007	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	330	166	383	1	0.50303	0.00261097	G|0.973;A|0.027	0.027	strong	.	FHDC1	102	.	NM_033393	exon8	c.G1077A	p.L359L	AAAATTGCATCAT	.	PASS	Atlas-SNP
ATP6V0A2	23545	hgsc.bcm.edu	37	12	124209332	124209332	+	Silent	SNP	T	T	C	rs1139789	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	34	52	0	0.971429	0	T|0.317;G|0.037	.	strong	.	ATP6V0A2	68	.	NM_012463	exon4	c.T426C	p.N142N	ACGCAATGTTGAG	.	PASS	Atlas-SNP
MXD1	4084	hgsc.bcm.edu	37	2	70162534	70162534	+	Silent	SNP	T	T	G	rs2228183	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	67	120	0	0.51938	0	T|0.439;G|0.561	0.561	strong	.	MXD1	23	.	NM_001202513	exon4	c.T255G	p.L85L	GCCACTTGGACCC	.	PASS	Atlas-SNP
KDM2B	84678	hgsc.bcm.edu	37	12	121877738	121877738	+	Missense_Mutation	SNP	C	C	T	rs200642027	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	33	67	0	0.452055	0	.	.	weak	.	KDM2B	218	.	NM_032590	exon22	c.G3751A	p.V1251I	CGGTGACGTGGTT	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32605257	32605257	+	Missense_Mutation	SNP	C	C	A	rs1047989	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	92	114	0	1	0	C|0.493;A|0.507	0.507	strong	.	HLA-DQA1	52	.	NM_002122	exon1	c.C22A	p.L8M	GCTCTGCTGCTGG	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112917278	112917278	+	Silent	SNP	T	T	G	rs11748794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	71	116	0	0.572581	0	G|0.200;N|0.000	0.200	strong	.	YTHDC2	118	.	NM_022828	exon25	c.T3519G	p.S1173S	ACCATCTGGGATT	.	PASS	Atlas-SNP
WNK2	65268	hgsc.bcm.edu	37	9	96055063	96055063	+	Silent	SNP	C	C	T	rs41278286	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	58	110	1	0.423358	0.00909091	C|0.672;T|0.328	0.328	strong	WNK2_ENST00000297954,colon,carcinoma,+2,4	WNK2	277	4	NM_006648	exon22	c.C5316T	p.D1772D	ACCCGACGTCTAC	.	scavenged	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	37	6	33391270	33391270	+	Silent	SNP	T	T	C	rs142359891	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	52	89	0	0.5	0	T|0.993;C|0.007	0.007	strong	.	SYNGAP1	202	.	NM_006772	exon2	c.T84C	p.S28S	ACCCTCTATGCAC	.	PASS	Atlas-SNP
CTRC	11330	hgsc.bcm.edu	37	1	15767036	15767036	+	Silent	SNP	C	C	T	rs497078	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	52	67	0	0.541667	0	A|0.000;C|0.887;T|0.113	0.113	strong	.	CTRC	28	.	NM_007272	exon3	c.C180T	p.G60G	GTGTGGCGGGACT	.	PASS	Atlas-SNP
SLC22A1	6580	hgsc.bcm.edu	37	6	160575837	160575837	+	Missense_Mutation	SNP	G	G	A	rs34059508	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	68	162	0	0.433121	0	A|0.014;C|0.000;G|0.986	0.014	strong	.	SLC22A1	69	.	NM_003057	exon9	c.G1393A	p.G465R	AACCTCGGAGTGA	.	PASS	Atlas-SNP
NDST3	9348	hgsc.bcm.edu	37	4	119161795	119161795	+	Silent	SNP	G	G	A	rs617430	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	52	126	0	0.444444	0	G|0.732;A|0.268	0.268	strong	NDST3,NS,carcinoma,0,1	NDST3	107	1	NM_004784	exon11	c.G2235A	p.P745P	GGTCCCGGGGTGG	.	PASS	Atlas-SNP
GALNT4	8693	hgsc.bcm.edu	37	12	89916811	89916811	+	Missense_Mutation	SNP	C	C	T	rs2230283	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	52	71	0	1	0	C|0.758;T|0.242	0.242	strong	GALNT4,NS,carcinoma,0,1	GALNT4	38	1	NM_003774	exon1	c.G1516A	p.V506I	CAGGTACCTCTGC	.	PASS	Atlas-SNP
MUC7	4589	hgsc.bcm.edu	37	4	71347185	71347185	+	Missense_Mutation	SNP	T	T	C	rs79807294	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	33	291	11	0.170103	0.0378007	T|0.993;C|0.007	0.007	strong	MUC7,right_upper_lobe,carcinoma,0,4	MUC7	91	4	NM_001145007	exon4	c.T724C	p.S242P	ACACCTTCTGCAA	.	scavenged	Atlas-SNP
MAP1S	55201	hgsc.bcm.edu	37	19	17837090	17837090	+	Silent	SNP	C	C	T	rs12975100	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	22	20	0	0.666667	0	C|0.836;T|0.164	0.164	strong	.	MAP1S	74	.	NM_018174	exon5	c.C897T	p.P299P	CCTCCCCGGCCTC	.	PASS	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133963499	133963499	+	Missense_Mutation	SNP	C	C	T	rs117391524	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	65	96	0	0.570175	0	C|0.940;T|0.060	0.060	strong	JAKMIP3,brain,glioma,0,1	JAKMIP3	69	1	NM_001105521	exon15	c.C1961T	p.A654V	TGGTTGCGGAGCT	.	PASS	Atlas-SNP
MRGPRE	116534	hgsc.bcm.edu	37	11	3249552	3249552	+	Missense_Mutation	SNP	C	C	T	rs4391795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	24	15	0	0.571429	0	C|0.673;T|0.327	0.327	strong	.	MRGPRE	35	.	NM_001039165	exon2	c.G478A	p.G160S	AGGCGCCGCTGAG	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364295	5364295	+	Missense_Mutation	SNP	C	C	T	rs12273630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	25	49	0	0.581395	0	C|0.888;T|0.112	0.112	strong	.	OR51B5	60	.	NM_001005567	exon5	c.G460A	p.V154I	GAACAACGGATAC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11532835	11532835	+	Silent	SNP	A	A	G	rs9895535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	89	98	0	1	0	A|0.589;G|0.411	0.411	strong	.	DNAH9	695	.	NM_001372	exon7	c.A1452G	p.E484E	GCATGAAGAATTT	.	PASS	Atlas-SNP
TECPR2	9895	hgsc.bcm.edu	37	14	102916966	102916966	+	Missense_Mutation	SNP	C	C	A	rs139247564	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	72	169	0	0.423529	0	C|0.999;A|0.001	0.001	weak	.	TECPR2	114	.	NM_001172631	exon15	c.C3386A	p.S1129Y	TGGCTTCTGCAGC	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96638636	96638636	+	Missense_Mutation	SNP	A	A	C	rs816142	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	58	0	1	0	T|0.000;C|0.856;A|0.143	0.856	strong	.	UGGT2	127	.	NM_020121	exon9	c.T982G	p.S328A	TAATGGAATCATA	.	PASS	Atlas-SNP
SRMS	6725	hgsc.bcm.edu	37	20	62173927	62173927	+	Missense_Mutation	SNP	G	G	A	rs378483	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	63	124	1	0.484615	0.00806452	G|0.845;A|0.155	0.155	strong	SRMS,NS,lymphoid_neoplasm,0,1	SRMS	48	1	NM_080823	exon4	c.C653T	p.P218L	TGCCTCGGGGCCT	.	scavenged	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8176945	8176945	+	Missense_Mutation	SNP	T	T	C	rs4804063	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	45	110	0	0.375	0	C|0.236;N|0.000	0.236	strong	.	FBN3	300	.	NM_032447	exon30	c.A3877G	p.S1293G	CGTGACTGTCACA	.	PASS	Atlas-SNP
ANO10	55129	hgsc.bcm.edu	37	3	43602803	43602803	+	Missense_Mutation	SNP	C	C	T	rs3772165	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	109	152	0	0.626437	0	C|0.413;T|0.587	0.587	strong	.	ANO10	70	.	NM_018075	exon9	c.G1385A	p.R462Q	TTCACCCGCACAC	.	PASS	Atlas-SNP
ZNF229	7772	hgsc.bcm.edu	37	19	44933947	44933947	+	Missense_Mutation	SNP	G	G	A	rs12151338	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	64	80	0	1	0	G|0.732;A|0.268	0.268	strong	ZNF229,NS,carcinoma,+1,1	ZNF229	123	1	NM_014518	exon6	c.C1009T	p.R337C	GGTTACGTATGTG	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9324670	9324670	+	Silent	SNP	A	A	G	rs9434743	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	61	122	0	0.508333	0	A|0.603;G|0.397	0.397	strong	.	H6PD	71	.	NM_004285	exon5	c.A2118G	p.S706S	ACAGTCACCCACT	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135720851	135720851	+	Missense_Mutation	SNP	G	G	T	rs6779903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	70	77	0	1	0	G|0.660;T|0.340	0.340	strong	.	PPP2R3A	114	.	NM_002718	exon2	c.G511T	p.A171S	GGGAACGCCCCAT	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20998720	20998720	+	Silent	SNP	G	G	A	rs111770788	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	49	98	0	0.422414	0	G|0.976;A|0.024	0.024	strong	.	DNAH3	1142	.	NM_017539	exon47	c.C6933T	p.F2311F	ATCATAGAAGACC	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112754943	112754943	+	Silent	SNP	C	C	T	rs3811634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	46	117	0	0.469388	0	C|0.776;T|0.224	0.224	strong	MERTK,colon,carcinoma,0,1	MERTK	112	1	NM_006343	exon10	c.C1494T	p.N498N	TGGCAACGCAGAT	.	PASS	Atlas-SNP
NUP62	23636	hgsc.bcm.edu	37	19	50412417	50412417	+	Silent	SNP	G	G	A	rs999583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	39	96	0	0.410526	0	G|0.175;A|0.825	0.825	strong	.	NUP62	50	.	NM_153719	exon3	c.C648T	p.S216S	CCCAGTGCTGGTG	.	PASS	Atlas-SNP
REPIN1	29803	hgsc.bcm.edu	37	7	150068620	150068620	+	Missense_Mutation	SNP	C	C	T	rs17173703	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	24	38	0	0.55814	0	C|0.765;T|0.235	0.235	strong	.	REPIN1	74	.	NM_001099695	exon3	c.C461T	p.A154V	GCCATGCCCCCTT	.	PASS	Atlas-SNP
SETDB2	83852	hgsc.bcm.edu	37	13	50057097	50057097	+	Missense_Mutation	SNP	G	G	A	rs2057413	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	153	181	1	1	0.00552486	G|0.195;A|0.805	0.805	strong	.	SETDB2	48	.	NM_031915	exon10	c.G1417A	p.V473M	CTTACTGTGTAAG	.	PASS	Atlas-SNP
TEX33	339669	hgsc.bcm.edu	37	22	37387257	37387257	+	Missense_Mutation	SNP	T	T	C	rs9610624	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	228	122	201	0	0.535088	0	T|0.899;C|0.101	0.101	strong	.	TEX33	25	.	NM_001163857	exon6	c.A806G	p.Y269C	TCTCCATATTTCT	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141334921	141334921	+	Silent	SNP	C	C	T	rs2434322	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	29	66	0	0.47541	0	C|0.889;T|0.111	0.111	strong	.	PCDH12	133	.	NM_016580	exon1	c.G2496A	p.Q832Q	TGCTCCCTGGTTG	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57592067	57592067	+	Silent	SNP	G	G	A	rs143423493	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	26	47	1	0.472727	0.0212766	G|0.996;A|0.004	0.004	strong	LRP1,colon,carcinoma,+2,1	LRP1	428	1	NM_002332	exon59	c.G9411A	p.T3137T	TCGGACGGTGCTG	.	scavenged	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37603051	37603051	+	Silent	SNP	C	C	T	rs229569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	21	34	0	0.428571	0	C|0.666;T|0.334	0.334	strong	.	SSTR3	42	.	NM_001051	exon2	c.G792A	p.A264A	GAAGAGCGCCACC	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25016092	25016092	+	Silent	SNP	C	C	T	rs55888616	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	27	49	0	0.931035	0	C|0.673;T|0.327	0.327	strong	.	PARP4	142	.	NM_006437	exon30	c.G3558A	p.S1186S	AAAAGGCGACTCA	.	PASS	Atlas-SNP
ACOT11	26027	hgsc.bcm.edu	37	1	55060254	55060254	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	3	102	0	0.0191083	0	.	.	none	ACOT11_ENST00000371316,bladder,carcinoma,+1,2	ACOT11	105	2	NM_147161	exon6	c.G497A	p.R166Q	CGCCGCGGACAGA	.	scavenged	Atlas-SNP
C20orf194	25943	hgsc.bcm.edu	37	20	3285126	3285126	+	Silent	SNP	A	A	T	rs2254916	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	42	51	0	0.636364	0	A|0.732;T|0.268	0.268	strong	.	C20orf194	83	.	NM_001009984	exon21	c.T1743A	p.I581I	CTTGGAAATGATG	.	PASS	Atlas-SNP
CNR1	1268	hgsc.bcm.edu	37	6	88854166	88854166	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	34	64	0	0.5	0	.	.	none	.	CNR1	91	.	NM_001160258	exon4	c.G828A	p.L276L	GAACATCAGGTAG	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	37	14	105211221	105211221	+	Silent	SNP	C	C	T	rs12432802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	39	65	0	0.448276	0	C|0.882;T|0.118	0.118	strong	.	ADSSL1	37	.	NM_199165	exon11	c.C1275T	p.N425N	GCTGAACGGGAAA	.	PASS	Atlas-SNP
WDR41	55255	hgsc.bcm.edu	37	5	76728996	76728996	+	Silent	SNP	T	T	C	rs72769029	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	201	101	135	0	0.502488	0	T|0.979;C|0.021	0.021	strong	.	WDR41	29	.	NM_018268	exon13	c.A1344G	p.K448K	CTCTAATTTTTGA	.	PASS	Atlas-SNP
RFX5	5993	hgsc.bcm.edu	37	1	151315287	151315287	+	Missense_Mutation	SNP	G	G	C	rs2233854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	71	87	0	0.617391	0	G|0.896;C|0.104	0.104	strong	.	RFX5	69	.	NM_000449	exon11	c.C1226G	p.P409R	CCCCGGGGCTGAG	.	PASS	Atlas-SNP
OR10X1	128367	hgsc.bcm.edu	37	1	158549511	158549511	+	Missense_Mutation	SNP	A	A	G	rs863363	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	45	116	0	0.335821	0	A|0.470;G|0.529	0.529	strong	.	OR10X1	96	.	NM_001004477	exon1	c.T179C	p.I60T	ATGATGATCAGAT	.	PASS	Atlas-SNP
FRY	10129	hgsc.bcm.edu	37	13	32776603	32776603	+	Silent	SNP	T	T	C	rs2428249	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	34	95	0	0.492754	0	T|0.634;C|0.366	0.366	strong	.	FRY	312	.	NM_023037	exon31	c.T3957C	p.L1319L	GTCACTTGCCCTC	.	PASS	Atlas-SNP
SGOL2	151246	hgsc.bcm.edu	37	2	201437214	201437214	+	Silent	SNP	A	A	G	rs17532679	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	61	146	0	0.480315	0	A|0.865;G|0.135	0.135	strong	SGOL2,NS,carcinoma,0,1	SGOL2	126	1	NM_001160046	exon7	c.A2145G	p.K715K	GCAGAAAGTAAAT	.	PASS	Atlas-SNP
PRB3	5544	hgsc.bcm.edu	37	12	11420773	11420773	+	Missense_Mutation	SNP	C	C	T	rs200940772	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	5	49	1	0.135135	0.0204082	C|0.998;T|0.002	0.002	weak	PRB3,NS,carcinoma,0,2	PRB3	84	2	NM_006249	exon3	c.G410A	p.R137H	CCCGGACGAGGCG	.	scavenged	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1636945	1636945	+	Silent	SNP	C	C	T	rs146469235	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	44	70	0	0.44898	0	C|0.981;T|0.019	0.019	strong	.	WDR81	180	.	NM_001163809	exon7	c.C4614T	p.T1538T	CGGCACCGGGCCC	.	PASS	Atlas-SNP
VWA3A	146177	hgsc.bcm.edu	37	16	22155629	22155629	+	Missense_Mutation	SNP	A	A	G	rs9937453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	229	105	186	0	0.458515	0	A|0.627;G|0.373	0.373	strong	VWA3A_ENST00000389398,NS,carcinoma,-1,2	VWA3A	115	2	NM_173615	exon26	c.A2654G	p.N885S	GTCCCAACTGCAC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187542316	187542316	+	Silent	SNP	T	T	C	rs2099854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	44	77	0	0.60274	0	T|0.923;C|0.077	0.077	strong	.	FAT1	500	.	NM_005245	exon10	c.A5424G	p.V1808V	GTGATATACAAGC	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238253065	238253065	+	Silent	SNP	C	C	T	rs2291795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	146	164	1	0.993197	0.00609756	C|0.865;T|0.135	0.135	strong	.	COL6A3	608	.	NM_004369	exon36	c.G7596A	p.K2532K	TGAGAGCTTGAGC	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	145015877	145015877	+	Missense_Mutation	SNP	G	G	T	rs77741369	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	222	35	137	1	0.157658	0.00729927	G|0.821;T|0.179	0.179	strong	PDE4DIP_ENST00000369348,NS,carcinoma,0,2	PDE4DIP	817	2	NM_022359	exon3	c.C424A	p.L142I	CTCGAAGAGCCTG	.	scavenged	Atlas-SNP
ZNF589	51385	hgsc.bcm.edu	37	3	48309828	48309828	+	Missense_Mutation	SNP	C	C	G	rs11718329	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	68	69	0	0.618182	0	C|0.735;G|0.265	0.265	strong	.	ZNF589	20	.	NM_016089	exon4	c.C647G	p.T216R	CAGTCACGTTTGG	.	PASS	Atlas-SNP
GSTA2	2939	hgsc.bcm.edu	37	6	52615415	52615415	+	Missense_Mutation	SNP	T	T	G	rs6577	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	40	85	0	0.444444	0	T|0.753;G|0.247	0.247	strong	GSTA2,NS,carcinoma,0,1	GSTA2	33	1	NM_000846	exon7	c.A629C	p.E210A	GATTTCTCATCCA	.	PASS	Atlas-SNP
TEAD1	7003	hgsc.bcm.edu	37	11	12903443	12903443	+	Silent	SNP	C	C	T	rs2304733	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	120	120	0	1	0	C|0.574;T|0.426	0.426	strong	.	TEAD1	40	.	NM_021961	exon8	c.C513T	p.D171D	TCCCAGCGTCAAG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29840164	29840164	+	Silent	SNP	A	A	G	rs3740002	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	21	35	0	0.538462	0	A|0.744;G|0.256	0.256	strong	.	SVIL	226	.	NM_003174	exon8	c.T189C	p.S63S	AGAATCAGAAGTT	.	PASS	Atlas-SNP
MAML2	84441	hgsc.bcm.edu	37	11	95825404	95825404	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	9	95	1	0.103448	0.0105263	.	.	none	MAML2,caecum,carcinoma,0,1	MAML2	94	1	NM_032427	exon2	c.G1791A	p.Q597Q	CTGCTGCTGCTGC	.	scavenged	Atlas-SNP
OR1A1	8383	hgsc.bcm.edu	37	17	3119767	3119767	+	Missense_Mutation	SNP	C	C	T	rs769427	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	76	79	0	1	0	C|0.608;T|0.392	0.392	strong	OR1A1,NS,carcinoma,0,1	OR1A1	54	1	NM_014565	exon1	c.C853T	p.P285S	TTAAATCCTTTCA	.	PASS	Atlas-SNP
RALY	22913	hgsc.bcm.edu	37	20	32664926	32664926	+	Missense_Mutation	SNP	G	G	A	rs2281209	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	17	34	0	0.53125	0	G|0.949;C|0.000;A|0.050	0.050	strong	.	RALY	44	.	NM_016732	exon8	c.G751A	p.G251S	GGCGGTGGCAGCA	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241405485	241405485	+	Silent	SNP	C	C	T	rs2228330	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	93	113	1	0.989362	0.00884956	C|0.832;T|0.168	0.168	strong	.	GPC1	32	.	NM_002081	exon9	c.C1455T	p.G485G	CGACGGCAGCGGC	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49969085	49969085	+	Silent	SNP	C	C	T	rs10853810	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	52	91	1	0.55914	0.010989	C|0.695;T|0.305	0.305	strong	ALDH16A1,colon,carcinoma,0,1	ALDH16A1	54	1	NM_153329	exon13	c.C1659T	p.N553N	TGGCAACCTCCAT	.	scavenged	Atlas-SNP
MCM3AP	8888	hgsc.bcm.edu	37	21	47704896	47704896	+	Missense_Mutation	SNP	G	G	A	rs9975588	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	17	45	0	0.459459	0	G|0.707;A|0.293	0.293	strong	.	MCM3AP	146	.	NM_003906	exon1	c.C305T	p.S102L	ACAGATGAACTTG	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	37	22	32754232	32754232	+	Silent	SNP	C	C	T	rs57606003	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	223	100	206	0	0.44843	0	C|0.923;T|0.077	0.077	strong	.	RFPL3	91	.	NM_001098535	exon1	c.C174T	p.T58T	ATGCACCGTCTGC	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	65149185	65149185	+	Missense_Mutation	SNP	T	T	A	rs9353806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	48	92	0	0.45283	0	T|0.686;A|0.314	0.314	strong	.	EYS	527	.	NM_001142800	exon27	c.A5705T	p.N1902I	TGTGGATTTAAAG	.	PASS	Atlas-SNP
DNAJB13	374407	hgsc.bcm.edu	37	11	73681135	73681135	+	Missense_Mutation	SNP	G	G	A	rs72982975	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	27	51	0	0.509434	0	G|0.759;A|0.241	0.241	strong	.	DNAJB13	28	.	NM_153614	exon8	c.G927A	p.M309I	GCAGATGCTGCGC	.	PASS	Atlas-SNP
OR2M3	127062	hgsc.bcm.edu	37	1	248366702	248366702	+	Silent	SNP	G	G	A	rs4916112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	178	145	0	0.994413	0	G|0.470;A|0.530	0.530	strong	.	OR2M3	116	.	NM_001004689	exon1	c.G333A	p.E111E	CTCTGAGTGCTTT	.	PASS	Atlas-SNP
FBLN1	2192	hgsc.bcm.edu	37	22	45937149	45937149	+	Silent	SNP	C	C	T	rs9682	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	87	162	0	0.467742	0	C|0.673;T|0.327	0.327	strong	.	FBLN1	143	.	NM_006487	exon9	c.C963T	p.I321I	CCCTATCGGGCAT	.	PASS	Atlas-SNP
INCENP	3619	hgsc.bcm.edu	37	11	61908440	61908440	+	Missense_Mutation	SNP	T	T	C	rs2277283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	63	157	0	0.45	0	T|0.764;C|0.236;A|0.000	0.236	strong	.	INCENP	122	.	NM_001040694	exon10	c.T1517C	p.M506T	TGCTCATGACCCC	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104642524	104642524	+	Silent	SNP	C	C	T	rs78184481	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	27	49	0	0.509434	0	C|0.971;T|0.029	0.029	strong	.	KIF26A	84	.	NM_015656	exon12	c.C3399T	p.F1133F	CCGCTTCAGCCCC	.	PASS	Atlas-SNP
HAGHL	84264	hgsc.bcm.edu	37	16	778024	778024	+	Silent	SNP	T	T	C	rs1406814	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	28	62	0	0.4	0	T|0.616;C|0.384	0.384	strong	HAGHL,NS,carcinoma,0,1	HAGHL	18	1	NM_032304	exon2	c.T165C	p.H55H	CCACCATCACTGG	.	PASS	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	37	7	18705964	18705964	+	Silent	SNP	C	C	T	rs35691757	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	88	77	0	0.642336	0	C|0.972;T|0.028	0.028	strong	HDAC9_ENST00000417496,colon,carcinoma,+2,5	HDAC9	560	5	NM_178425	exon11	c.C1596T	p.S532S	TAGGAGCGACAGC	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888048	52888048	+	Silent	SNP	G	G	A	rs324124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	8	13	0	0.5	0	G|0.865;A|0.135	0.135	strong	.	ZNF880	45	.	NM_001145434	exon4	c.G1215A	p.E405E	GGGAGAGCAACCT	.	PASS	Atlas-SNP
HPS5	11234	hgsc.bcm.edu	37	11	18327684	18327684	+	Silent	SNP	G	G	T	rs1140047	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	55	113	0	0.454545	0	G|0.215;T|0.590	0.590	strong	.	HPS5	70	.	NM_181507	exon7	c.C822A	p.L274L	TTACCTGAGAGTA	.	PASS	Atlas-SNP
KRT3	3850	hgsc.bcm.edu	37	12	53189428	53189428	+	Silent	SNP	C	C	A	rs184322044	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	12	85	0	0.137931	0	C|0.888;A|0.112	0.112	strong	.	KRT3	65	.	NM_057088	exon1	c.G399T	p.G133G	ACCAGCCCCTCCA	.	PASS	Atlas-SNP
ZNF519	162655	hgsc.bcm.edu	37	18	14106039	14106039	+	Missense_Mutation	SNP	T	T	C	rs62086326	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	42	45	0	0.65625	0	T|0.799;C|0.201	0.201	strong	.	ZNF519	53	.	NM_145287	exon3	c.A500G	p.N167S	CTAATATTTGAGT	.	PASS	Atlas-SNP
PRDM1	639	hgsc.bcm.edu	37	6	106554343	106554343	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	13	54	0	0.22807	0	.	.	none	.	PRDM1	195	.	NM_001198	exon6	c.T1871A	p.V624E	ACCTGGTACACAC	.	PASS	Atlas-SNP
ABCF2	10061	hgsc.bcm.edu	37	7	150912750	150912750	+	Silent	SNP	G	G	T	rs12538823	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	76	114	1	1	0.00877193	G|0.939;T|0.061	0.061	strong	.	ABCF2	54	.	NM_007189	exon13	c.C1470A	p.I490I	CTCCTTGATCTCT	.	PASS	Atlas-SNP
THUMPD3	25917	hgsc.bcm.edu	37	3	9425944	9425944	+	Silent	SNP	G	G	C	rs1046788	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	30	64	0	0.375	0	G|0.878;C|0.122	0.122	strong	.	THUMPD3	46	.	NM_001114092	exon9	c.G1284C	p.R428R	CCTACGGGAGATG	.	PASS	Atlas-SNP
PNP	4860	hgsc.bcm.edu	37	14	20940515	20940515	+	Silent	SNP	C	C	T	rs1049562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	63	124	0	0.492188	0	C|0.817;T|0.183	0.183	strong	.	PNP	21	.	NM_000270	exon2	c.C60T	p.H20H	GTCTCACACTAAG	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49221885	49221885	+	Silent	SNP	T	T	A	rs202680	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	60	112	0	0.47619	0	T|0.646;A|0.354	0.354	strong	.	FOLH1	141	.	NM_004476	exon3	c.A333T	p.A111A	ATAATGTGCTAGC	.	PASS	Atlas-SNP
CLIP2	7461	hgsc.bcm.edu	37	7	73753250	73753250	+	Silent	SNP	T	T	C	rs539518	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	27	22	0	1	0	T|0.406;C|0.594	0.594	strong	.	CLIP2	134	.	NM_032421	exon3	c.T594C	p.T198T	GAAGACTGGCAAC	.	PASS	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	37	1	16354590	16354590	+	Missense_Mutation	SNP	A	A	T	rs12126269	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	167	92	160	0	0.550898	0	A|0.809;T|0.191	0.191	strong	.	CLCNKA	56	.	NM_004070	exon10	c.A944T	p.Y315F	ATCGGTACAGCTC	.	PASS	Atlas-SNP
SPECC1	92521	hgsc.bcm.edu	37	17	20217375	20217375	+	Silent	SNP	G	G	A	rs75296798	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	27	74	0	0.45	0	G|0.923;A|0.077	0.077	strong	.	SPECC1	100	.	NM_001033553	exon15	c.G3204A	p.T1068T	TGAGACGTAACCC	.	PASS	Atlas-SNP
SSR1	6745	hgsc.bcm.edu	37	6	7310259	7310259	+	Missense_Mutation	SNP	A	A	G	rs10004	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	35	70	0	0.492958	0	T|0.123;G|0.260	0.260	strong	SSR1,NS,carcinoma,0,1	SSR1	21	1	NM_003144	exon2	c.T83C	p.L28S	GCTAACAAGCCTA	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5353061	5353061	+	Silent	SNP	C	C	T	rs188607046	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	201	146	89	0	0.726368	0	C|0.942;T|0.058	0.058	strong	.	TNRC18	311	.	NM_001080495	exon27	c.G7461A	p.P2487P	CGCCCCCGGATCC	.	PASS	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	37	12	20885931	20885931	+	Silent	SNP	A	A	G	rs16923154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	56	129	1	0.430769	0.00775194	A|0.919;G|0.081	0.081	strong	SLCO1C1,NS,carcinoma,0,1	SLCO1C1	216	1	NM_017435	exon10	c.A1275G	p.A425A	AGCTGCAAAACTC	.	scavenged	Atlas-SNP
CLEC4M	10332	hgsc.bcm.edu	37	19	7831628	7831628	+	Missense_Mutation	SNP	G	G	A	rs2277998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	102	107	0	0.990291	0	G|0.787;A|0.213	0.213	strong	CLEC4M,right_lower_lobe,carcinoma,-2,2	CLEC4M	58	2	NM_014257	exon5	c.G871A	p.D291N	TGGCACGACTCCG	.	PASS	Atlas-SNP
ACTN2	88	hgsc.bcm.edu	37	1	236908053	236908053	+	Silent	SNP	C	C	T	rs34827377	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	59	100	0	0.536364	0	C|0.998;T|0.002	0.002	strong	.	ACTN2	191	.	NM_001103	exon12	c.C1383T	p.I461I	GCAGATCGCAGCC	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31594508	31594508	+	Silent	SNP	C	C	T	rs2286711	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	111	115	0	0.720779	0	C|0.772;T|0.228	0.228	strong	.	CCDC129	127	.	NM_001257968	exon4	c.C327T	p.D109D	CATTGACCGCACT	.	PASS	Atlas-SNP
NLRX1	79671	hgsc.bcm.edu	37	11	119043656	119043656	+	Missense_Mutation	SNP	C	C	T	rs643423	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	35	28	0	0.546875	0	C|0.405;T|0.595	0.595	strong	.	NLRX1	128	.	NM_024618	exon4	c.C187T	p.P63S	CCCCCACCCGGGA	.	PASS	Atlas-SNP
F9	2158	hgsc.bcm.edu	37	X	138633280	138633280	+	Missense_Mutation	SNP	A	A	G	rs6048	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	111	114	0	1	0	A|0.797;0|0.004	.	strong	.	F9	107	.	NM_000133	exon6	c.A580G	p.T194A	GCTGAGACTGTTT	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62598815	62598815	+	Silent	SNP	C	C	T	rs817330	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	61	105	0	0.516949	0	C|0.646;T|0.354	0.354	strong	ZNF512B,colon,carcinoma,0,1	ZNF512B	72	1	NM_020713	exon3	c.G183A	p.P61P	ACTTCCCGGGTCA	.	PASS	Atlas-SNP
OR4C46	119749	hgsc.bcm.edu	37	11	51515460	51515460	+	Missense_Mutation	SNP	C	C	T	rs11246606	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	51	156	0	0.495146	0	C|0.823;T|0.177	0.177	strong	.	OR4C46	96	.	NM_001004703	exon1	c.C179T	p.S60F	ACCTTTCCCTGGC	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497961	32497961	+	Missense_Mutation	SNP	T	T	G	rs1064587	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	77	115	8	0.916667	0.0695652	G|0.051;C|0.542;A|0.407	0.051	strong	HLA-DRB5,colon,carcinoma,-1,2	HLA-DRB5	31	2	NM_002125	exon1	c.A41C	p.K14T	GTCAGCTTTGCCA	.	scavenged	Atlas-SNP
PALM	5064	hgsc.bcm.edu	37	19	746712	746712	+	Silent	SNP	C	C	T	rs10421265	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	14	30	0	0.4375	0	C|0.778;T|0.222	0.222	strong	.	PALM	26	.	NM_002579	exon9	c.C1062T	p.A354A	GGAGGCCGCCTCC	.	PASS	Atlas-SNP
GREB1	9687	hgsc.bcm.edu	37	2	11758536	11758536	+	Missense_Mutation	SNP	C	C	A	rs61741332	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	43	84	0	0.5	0	C|0.989;A|0.011	0.011	strong	.	GREB1	308	.	NM_014668	exon22	c.C3535A	p.P1179T	CAGAGGCCCCGGG	.	PASS	Atlas-SNP
SP8	221833	hgsc.bcm.edu	37	7	20824956	20824956	+	Silent	SNP	C	C	G	rs201180283		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	7	7	2	0	1	0	.	.	weak	.	SP8	43	.	NM_182700	exon2	c.G480C	p.G160G	GCCGCCCCCGCCG	.	PASS	Atlas-SNP
LPIN1	23175	hgsc.bcm.edu	37	2	11911761	11911761	+	Silent	SNP	C	C	T	rs11538448	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	68	140	0	0.472222	0	C|0.912;T|0.088	0.088	strong	.	LPIN1	99	.	NM_001261428	exon5	c.C699T	p.I233I	CCCCATCGAGATG	.	PASS	Atlas-SNP
JRK	8629	hgsc.bcm.edu	37	8	143746701	143746701	+	Silent	SNP	A	A	G	rs3802232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	61	77	0	1	0	A|0.479;G|0.521	0.521	strong	.	.	.	.	NM_003724	exon2	c.T777C	p.N259N	CCAGGCATTCCCC	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103370	53103370	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	53	59	0	0.736111	0	.	.	none	.	POM121L12	146	.	NM_182595	exon1	c.C6T	p.G2G	CATGGGCGCTGCA	.	PASS	Atlas-SNP
FAM149A	25854	hgsc.bcm.edu	37	4	187078866	187078866	+	Missense_Mutation	SNP	C	C	T	rs2276922	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	15	36	0	0.416667	0	C|0.713;T|0.287	0.287	strong	FAM149A,right_upper_lobe,carcinoma,-1,1	FAM149A	52	1	NM_001006655	exon7	c.C722T	p.P241L	TGAACCCGCCCCA	.	PASS	Atlas-SNP
MPHOSPH10	10199	hgsc.bcm.edu	37	2	71376999	71376999	+	Missense_Mutation	SNP	G	G	A	rs6574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	288	126	290	0	0.4375	0	G|0.736;T|0.001	.	strong	.	MPHOSPH10	81	.	NM_005791	exon11	c.G1900A	p.E634K	CAGGATGAAGGTA	.	PASS	Atlas-SNP
DCDC2	51473	hgsc.bcm.edu	37	6	24302046	24302046	+	Missense_Mutation	SNP	G	G	C	rs33914824	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	77	141	0	0.516779	0	G|0.959;C|0.041	0.041	strong	.	DCDC2	53	.	NM_001195610	exon5	c.C454G	p.P152A	AAGCTGGGTTTAT	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151859683	151859683	+	Missense_Mutation	SNP	G	G	A	rs74483926	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	69	150	0	0.428571	0	G|0.962;A|0.038	0.038	strong	.	MLL3	1564	.	NM_170606	exon43	c.C10979T	p.S3660L	TCCACCGACTCTT	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145297661	145297661	+	Missense_Mutation	SNP	C	C	A	rs4068083	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	8	103	4	0.186047	0.038835	C|0.583;A|0.417	0.417	strong	NBPF10,NS,carcinoma,0,2	NBPF10	221	2	NM_001039703	exon4	c.C536A	p.A179D	AGGAGGCTGAGAA	.	scavenged	Atlas-SNP
USP15	9958	hgsc.bcm.edu	37	12	62696599	62696599	+	Silent	SNP	C	C	T	rs11174420	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	36	67	0	0.486486	0	C|0.662;T|0.338	0.338	strong	.	USP15	105	.	NM_001252078	exon3	c.C246T	p.H82H	GGAACACCTTATT	.	PASS	Atlas-SNP
TNFRSF10B	8795	hgsc.bcm.edu	37	8	22900701	22900701	+	Missense_Mutation	SNP	G	G	A	rs1047266	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	52	85	0	0.429752	0	G|0.919;A|0.081	0.081	strong	.	TNFRSF10B	34	.	NM_147187	exon2	c.C200T	p.A67V	GGGGCCGCTCTCT	.	PASS	Atlas-SNP
SREK1IP1	285672	hgsc.bcm.edu	37	5	64020316	64020316	+	Missense_Mutation	SNP	T	T	G	rs80170948	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	49	109	0	0.457944	0	T|0.972;G|0.028	0.028	strong	.	SREK1IP1	28	.	NM_173829	exon5	c.A363C	p.K121N	ACTCTTTTTTTCT	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72184566	72184566	+	Missense_Mutation	SNP	C	C	T	rs35370634	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	55	118	0	0.436508	0	C|0.891;T|0.109	0.109	strong	.	PMFBP1	101	.	NM_031293	exon5	c.G577A	p.E193K	GTAACTCGATGTT	.	PASS	Atlas-SNP
CNTN5	53942	hgsc.bcm.edu	37	11	99690376	99690376	+	Nonsense_Mutation	SNP	C	C	T	rs12292659	bycluster;byfrequency;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	35	148	0	0.343137	0	C|0.822;T|0.178	0.178	strong	.	CNTN5	324	.	NM_001243270	exon3	c.C157T	p.R53X	AGACCACGATACA	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47968927	47968927	+	Missense_Mutation	SNP	C	C	A	rs2686817	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	249	249	200	0	1	0	C|0.513;A|0.487	0.487	strong	.	PKD1L1	328	.	NM_138295	exon7	c.G934T	p.V312F	TATGAACACGGAA	.	PASS	Atlas-SNP
TPRX1	284355	hgsc.bcm.edu	37	19	48305626	48305626	+	Silent	SNP	T	T	C	rs62130757	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	16	15	0	0.470588	0	T|0.887;C|0.113	0.113	strong	.	TPRX1	46	.	NM_198479	exon2	c.A642G	p.P214P	TGAGATTGGGCCT	.	PASS	Atlas-SNP
CRTAC1	55118	hgsc.bcm.edu	37	10	99655648	99655648	+	Silent	SNP	G	G	T	rs577537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	58	0	0.471698	0	G|0.950;T|0.050	0.050	strong	.	CRTAC1	86	.	NM_001206528	exon10	c.C1311A	p.G437G	CTGATTGCCCCGG	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64612845	64612845	+	Silent	SNP	C	C	T	rs11629287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	75	179	1	0.503356	0.00558659	C|0.567;T|0.433	0.433	strong	SYNE2,NS,carcinoma,0,1	SYNE2	577	1	NM_182914	exon84	c.C15543T	p.I5181I	ACAGATCTTGAAC	.	scavenged	Atlas-SNP
XYLT2	64132	hgsc.bcm.edu	37	17	48431021	48431021	+	Missense_Mutation	SNP	G	G	A	rs113835371	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	31	52	0	0.525424	0	G|0.991;A|0.009	0.009	strong	.	XYLT2	51	.	NM_022167	exon2	c.G166A	p.D56N	CCACTGGACCCTG	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295834	20295834	+	Missense_Mutation	SNP	T	T	C	rs79065635		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	244	45	225	0	0.184426	0	.	.	weak	.	OR4N2	125	.	NM_001004723	exon1	c.T227C	p.I76T	CCTTCATTGTGGC	.	PASS	Atlas-SNP
KCNMB3	27094	hgsc.bcm.edu	37	3	178968660	178968660	+	Missense_Mutation	SNP	T	T	C	rs1170672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	85	186	0	0.414634	0	T|0.918;C|0.082	0.082	strong	.	KCNMB3	46	.	NM_014407	exon2	c.A131G	p.D44G	TGCACATCTAGTG	.	PASS	Atlas-SNP
EIF4E	1977	hgsc.bcm.edu	37	4	99808254	99808254	+	Silent	SNP	G	G	A	rs62323192	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	86	185	0	0.52439	0	G|0.819;A|0.181	0.181	strong	EIF4E,NS,carcinoma,0,1	EIF4E	18	1	NM_001130678	exon5	c.C435T	p.D145D	ATCGAGGTCACTT	.	PASS	Atlas-SNP
MS4A14	84689	hgsc.bcm.edu	37	11	60184277	60184277	+	Missense_Mutation	SNP	A	A	C	rs73481226	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	31	78	0	0.43662	0	A|0.960;C|0.040	0.040	strong	.	MS4A14	120	.	NM_001261828	exon6	c.A1935C	p.Q645H	GGCCCAAGAGAAG	.	PASS	Atlas-SNP
SERPINF2	5345	hgsc.bcm.edu	37	17	1657653	1657653	+	Missense_Mutation	SNP	G	G	A	rs1057335	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	61	109	0	0.521368	0	G|0.814;A|0.186	0.186	strong	.	SERPINF2	33	.	NM_000934	exon10	c.G1301A	p.R434K	GCGTGAGGAACCC	.	PASS	Atlas-SNP
MRS2	57380	hgsc.bcm.edu	37	6	24418348	24418348	+	Silent	SNP	G	G	A	rs2793422	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	56	95	0	0.533333	0	G|0.730;A|0.270	0.270	strong	.	MRS2	31	.	NM_020662	exon8	c.G873A	p.E291E	AGAAGAGATGGAG	.	PASS	Atlas-SNP
GRID2	2895	hgsc.bcm.edu	37	4	94344042	94344042	+	Missense_Mutation	SNP	G	G	A	rs10034345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	39	90	0	0.443182	0	G|0.911;A|0.089	0.089	strong	.	GRID2	233	.	NM_001510	exon10	c.G1468A	p.V490I	ATTTACGTAGCAC	.	PASS	Atlas-SNP
JMJD4	65094	hgsc.bcm.edu	37	1	227922918	227922918	+	Missense_Mutation	SNP	A	A	C	rs2295994	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	5	18	0	0.3125	0	A|0.590;C|0.410	0.410	strong	.	JMJD4	28	.	NM_023007	exon1	c.T195G	p.D65E	GGGGACATCGACC	.	PASS	Atlas-SNP
SCFD2	152579	hgsc.bcm.edu	37	4	54011526	54011526	+	Missense_Mutation	SNP	A	A	G	rs7675987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	62	148	0	0.466165	0	A|0.710;G|0.290	0.290	strong	.	SCFD2	78	.	NM_152540	exon5	c.T1535C	p.L512S	GGTGACAATCCAG	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324333	39324333	+	Missense_Mutation	SNP	T	T	A	rs12953139	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	16	107	0	0.132231	0	A|0.046;T|0.954	0.046	strong	KRTAP4-3,NS,carcinoma,0,1	KRTAP4-3	40	1	NM_033187	exon1	c.A92T	p.Q31L	GTGGTCTGGCAGC	.	scavenged	Atlas-SNP
E2F8	79733	hgsc.bcm.edu	37	11	19251826	19251826	+	Silent	SNP	G	G	A	rs11821023	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	49	119	0	0.429825	0	G|0.897;A|0.103	0.103	strong	.	E2F8	84	.	NM_001256372	exon9	c.C1320T	p.L440L	AGCTGCGAGCTGA	.	PASS	Atlas-SNP
KRTAP10-9	386676	hgsc.bcm.edu	37	21	46047105	46047105	+	Missense_Mutation	SNP	T	T	C	rs200504844	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	47	91	0	0.522222	0	T|0.999;C|0.001	0.001	weak	.	KRTAP10-9	24	.	NM_198690	exon1	c.T17C	p.M6T	CCACCATGTCCAT	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25009441	25009441	+	Missense_Mutation	SNP	C	C	G	rs13428	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	121	126	1	1	0.00793651	G|0.405;C|0.595;A|0.000	0.405	strong	PARP4,NS,carcinoma,0,1	PARP4	142	1	NM_006437	exon31	c.G3838C	p.G1280R	CCACACCTCCACG	.	PASS	Atlas-SNP
GTF2F1	2962	hgsc.bcm.edu	37	19	6392908	6392908	+	Missense_Mutation	SNP	T	T	C	rs140541374	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	37	70	0	0.4625	0	T|0.999;C|0.001	0.001	strong	.	GTF2F1	39	.	NM_002096	exon2	c.A19G	p.S7G	GGCTGCTAGGGCC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323254	31323254	+	Silent	SNP	G	G	C	rs61759952	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	39	132	0	0.253247	0	G|0.992;C|0.008;A|0.000	0.008	strong	.	HLA-B	54	.	NM_005514	exon4	c.C735G	p.G245G	GTCCTCGCCATCC	.	PASS	Atlas-SNP
TMEM86B	255043	hgsc.bcm.edu	37	19	55739689	55739689	+	Silent	SNP	G	G	A	rs10413828	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	37	47	0	0.521127	0	G|0.620;A|0.380	0.380	strong	.	TMEM86B	12	.	NM_173804	exon2	c.C168T	p.P56P	GAGGACGGGCAGG	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42524795	42524795	+	Silent	SNP	A	A	G	rs28371713	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	31	103	0	0.215278	0	A|0.625;G|0.375	0.375	strong	CYP2D6_ENST00000360608,NS,carcinoma,0,2	CYP2D6	104	2	NM_000106	exon4	c.T657C	p.F219F	GCGCAGAAAGCCC	.	PASS	Atlas-SNP
PHF20	51230	hgsc.bcm.edu	37	20	34502107	34502107	+	Missense_Mutation	SNP	G	G	A	rs17431878	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	44	112	0	0.423077	0	G|0.905;A|0.095	0.095	strong	.	PHF20	94	.	NM_016436	exon12	c.G1813A	p.V605M	GGGAAAGTGAAAG	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10467653	10467653	+	Missense_Mutation	SNP	C	C	T	rs73201156	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	48	103	0	0.6	0	.	.	strong	.	RP1L1	453	.	NM_178857	exon4	c.G3955A	p.A1319T	GCACCGCCTCTTC	.	PASS	Atlas-SNP
CSRNP3	80034	hgsc.bcm.edu	37	2	166535918	166535918	+	Silent	SNP	C	C	T	rs777346	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	41	87	0	0.488095	0	C|0.583;T|0.417	0.417	strong	.	CSRNP3	73	.	NM_001172173	exon7	c.C1413T	p.T471T	TTACACCATGACC	.	PASS	Atlas-SNP
OR1A1	8383	hgsc.bcm.edu	37	17	3119673	3119673	+	Silent	SNP	A	A	G	rs769426	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	57	120	0	0.445312	0	A|0.801;G|0.199	0.199	strong	OR1A1,NS,carcinoma,+1,1	OR1A1	54	1	NM_014565	exon1	c.A759G	p.T253T	TGGTACAGTCATG	.	PASS	Atlas-SNP
CNDP1	84735	hgsc.bcm.edu	37	18	72228154	72228154	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	34	87	0	0.300885	0	.	.	none	CNDP1,NS,carcinoma,-1,1	CNDP1	98	1	NM_032649	exon4	c.A367C	p.T123P	GATCCCACGAAAG	.	PASS	Atlas-SNP
FGD4	121512	hgsc.bcm.edu	37	12	32764184	32764184	+	Silent	SNP	G	G	A	rs10844253	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	28	54	0	0.474576	0	G|0.731;A|0.269	0.269	strong	FGD4,NS,carcinoma,+2,1	FGD4	86	1	NM_139241	exon10	c.G1305A	p.R435R	TGCTCGGAACACT	.	PASS	Atlas-SNP
KCNK4	50801	hgsc.bcm.edu	37	11	64066999	64066999	+	Missense_Mutation	SNP	C	C	T	rs953778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	27	25	0	0.490909	0	C|0.772;T|0.228	0.228	strong	.	KCNK4	22	.	NM_033310	exon7	c.C983T	p.P328L	CTCAGCCGCCTTC	.	PASS	Atlas-SNP
CARD17	440068	hgsc.bcm.edu	37	11	104971257	104971257	+	Missense_Mutation	SNP	G	G	A	rs12806837	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	54	126	0	0.453782	0	G|0.903;A|0.097	0.097	strong	.	CARD17	15	.	NM_001007232	exon2	c.C257T	p.T86M	CCCAGCGTCCCTG	.	PASS	Atlas-SNP
RNF122	79845	hgsc.bcm.edu	37	8	33416189	33416189	+	Silent	SNP	G	G	A	rs3735950	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	32	51	0	0.571429	0	G|0.454;A|0.546	0.546	strong	.	RNF122	17	.	NM_024787	exon2	c.C126T	p.F42F	TGTGCCGAAGATG	.	PASS	Atlas-SNP
ABCF2	10061	hgsc.bcm.edu	37	7	150920891	150920891	+	Silent	SNP	G	G	A	rs41273648	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	25	67	0	0.462963	0	G|0.985;A|0.015	0.015	strong	.	ABCF2	54	.	NM_007189	exon5	c.C595T	p.L199L	CATCCAGCTCCTC	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1029320	1029320	+	Missense_Mutation	SNP	C	C	T	rs11604757	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	37	35	0	0.973684	0	C|0.945;T|0.055	0.055	strong	.	MUC6	408	.	NM_005961	exon10	c.G1183A	p.G395R	AGTGTCCGGGGCA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13811775	13811775	+	Missense_Mutation	SNP	T	T	C	rs10078391	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	37	74	1	0.440476	0.0135135	T|0.764;C|0.236	0.236	strong	DNAH5,right_upper_lobe,carcinoma,-1,1	DNAH5	868	1	NM_001369	exon44	c.A7388G	p.Q2463R	AGGCCTTGAAGCA	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076728	9076728	+	Missense_Mutation	SNP	C	C	T	rs2591594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	269	118	292	0	0.438662	0	C|0.751;T|0.249	0.249	strong	MUC16_ENST00000397910,NS,carcinoma,-1,4	MUC16	4315	4	NM_024690	exon3	c.G10718A	p.R3573H	GTTGTGCGCCTCT	.	PASS	Atlas-SNP
PMEPA1	56937	hgsc.bcm.edu	37	20	56227532	56227532	+	Silent	SNP	T	T	C	rs6025699	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	35	75	1	0.466667	0.0133333	C|0.670;G|0.000;T|0.330	0.670	strong	PMEPA1,caecum,carcinoma,0,1	PMEPA1	29	1	NM_020182	exon4	c.A441G	p.P147P	GGTGGGTGGCAGG	.	scavenged	Atlas-SNP
OR52K1	390036	hgsc.bcm.edu	37	11	4510285	4510285	+	Missense_Mutation	SNP	A	A	G	rs96489	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	49	114	0	0.485149	0	A|0.625;G|0.375	0.375	strong	OR52K1,NS,carcinoma,+1,3	OR52K1	70	3	NM_001005171	exon1	c.A155G	p.Q52R	TTATCCAGGCTGA	.	PASS	Atlas-SNP
KANK4	163782	hgsc.bcm.edu	37	1	62739495	62739495	+	Silent	SNP	C	C	T	rs115190866	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	54	133	0	0.461538	0	C|0.976;T|0.024	0.024	strong	.	KANK4	135	.	NM_181712	exon3	c.G1281A	p.S427S	ATCACACGACTCC	.	PASS	Atlas-SNP
SH2D3C	10044	hgsc.bcm.edu	37	9	130504070	130504070	+	Silent	SNP	G	G	A	rs514024	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	132	91	0	0.977778	0	G|0.444;A|0.556	0.556	strong	SH2D3C_ENST00000314830,NS,carcinoma,0,2	SH2D3C	102	2	NM_170600	exon9	c.C2085T	p.A695A	TACCTGGGCCATG	.	PASS	Atlas-SNP
FAM167A	83648	hgsc.bcm.edu	37	8	11301601	11301601	+	Missense_Mutation	SNP	G	G	C	rs3021512	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	175	83	143	0	0.474286	0	G|0.854;C|0.146	0.146	strong	.	FAM167A	21	.	NM_053279	exon2	c.C320G	p.T107S	TTGCCAGTGGACA	.	PASS	Atlas-SNP
CBR3	874	hgsc.bcm.edu	37	21	37518706	37518706	+	Missense_Mutation	SNP	G	G	A	rs1056892	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	91	91	0	0.98913	0	G|0.606;A|0.394	0.394	strong	.	CBR3	11	.	NM_001236	exon3	c.G730A	p.V244M	AGGACTGTGGAGG	.	PASS	Atlas-SNP
STYXL1	51657	hgsc.bcm.edu	37	7	75634687	75634687	+	Silent	SNP	G	G	A	rs1044484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	75	118	0	0.487013	0	G|0.900;A|0.100	0.100	strong	.	STYXL1	35	.	NM_016086	exon6	c.C489T	p.I163I	TGGCACGATTTCA	.	PASS	Atlas-SNP
CRB2	286204	hgsc.bcm.edu	37	9	126128211	126128211	+	Missense_Mutation	SNP	T	T	C	rs1105223	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	9	9	12	0	1	0	T|0.636;C|0.364	0.364	strong	.	CRB2	86	.	NM_173689	exon3	c.T434C	p.M145T	GCGAGATGGAGGT	.	PASS	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1580929	1580929	+	Silent	SNP	G	G	C	rs11078565	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	30	58	0	0.441176	0	G|0.698;C|0.302	0.302	strong	.	PRPF8	169	.	NM_006445	exon14	c.C1914G	p.L638L	GAAAAAGAGCCAG	.	PASS	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5842384	5842384	+	Missense_Mutation	SNP	C	C	G	rs62621415	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	87	173	0	0.437186	0	C|0.939;G|0.061	0.061	strong	.	OR52N2	58	.	NM_001005174	exon1	c.C819G	p.N273K	CCCAAACCACATA	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085373	17085373	+	Missense_Mutation	SNP	C	C	T	rs2092130	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	380	16	394	0	0.0421053	0	C|1.000;|0.000	.	weak	Q13209_HUMAN,NS,carcinoma,0,6	.	.	6	NM_001271733	exon10	c.G1318A	p.G440R	TATCCCCATCTGG	.	scavenged	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126240510	126240510	+	Silent	SNP	T	T	C	rs2940779	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	19	28	0	0.5	0	T|0.291;C|0.709	0.709	strong	.	FAT4	1752	.	NM_024582	exon1	c.T2944C	p.L982L	GTCATCTTAACAG	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4874420	4874420	+	Missense_Mutation	SNP	G	G	C	rs2292498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	38	34	0	0.431818	0	G|0.754;C|0.246	0.246	strong	.	RADIL	110	.	NM_018059	exon4	c.C1234G	p.H412D	CCAGGTGGGGCTC	.	PASS	Atlas-SNP
CENPC1	1060	hgsc.bcm.edu	37	4	68380070	68380070	+	Missense_Mutation	SNP	C	C	T	rs1056787	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	58	167	0	0.411348	0	C|0.973;T|0.027	0.027	strong	.	CENPC1	66	.	NM_001812	exon8	c.G1166A	p.G389D	GTTTCACCTATCA	.	PASS	Atlas-SNP
SNX29	92017	hgsc.bcm.edu	37	16	12162969	12162969	+	Silent	SNP	A	A	G	rs1641843	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	27	74	0	0.380282	0	A|0.468;G|0.532	0.532	strong	SNX29_ENST00000306030,NS,carcinoma,0,1	SNX29	60	1	NM_032167	exon10	c.A1299G	p.P433P	TCTCCCAGATCCT	.	PASS	Atlas-SNP
DMXL1	1657	hgsc.bcm.edu	37	5	118454599	118454599	+	Missense_Mutation	SNP	T	T	C	rs200933738	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	54	95	0	0.432	0	T|0.999;C|0.001	0.001	weak	.	DMXL1	268	.	NM_005509	exon8	c.T833C	p.L278P	GTTTGCTATACGG	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160661704	160661704	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	16	117	0	0.161616	0	.	.	none	.	LY75	151	.	NM_002349	exon35	c.G5020A	p.V1674I	TGGCAACTATGAT	.	PASS	Atlas-SNP
FRYL	285527	hgsc.bcm.edu	37	4	48542671	48542671	+	Silent	SNP	G	G	A	rs373260615		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	57	132	0	0.487179	0	.	.	weak	.	FRYL	242	.	NM_015030	exon46	c.C5994T	p.N1998N	CATCAAGTTGGTA	.	PASS	Atlas-SNP
PANK1	53354	hgsc.bcm.edu	37	10	91404448	91404448	+	Silent	SNP	C	C	G	rs11185826	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	10	3	0	0.526316	0	C|0.693;G|0.307	0.307	strong	.	PANK1	35	.	NM_148977	exon1	c.G612C	p.L204L	CGGCTGCAGCTCC	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46654323	46654323	+	Silent	SNP	G	G	A	rs6007740	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	50	91	0	0.49505	0	G|0.736;A|0.264	0.264	strong	.	PKDREJ	195	.	NM_006071	exon1	c.C4897T	p.L1633L	CTGACAGGAGTAT	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101778272	101778272	+	Missense_Mutation	SNP	A	A	C	rs35250850	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	32	67	0	0.463768	0	A|0.927;C|0.073	0.073	strong	.	COL15A1	211	.	NM_001855	exon11	c.A1518C	p.E506D	TGATGAAGAAGAC	.	PASS	Atlas-SNP
VAV3	10451	hgsc.bcm.edu	37	1	108417534	108417534	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	92	151	0	0.484211	0	.	.	none	.	VAV3	176	.	NM_006113	exon2	c.G310A	p.D104N	CAAAGTCACGAAC	.	PASS	Atlas-SNP
GPRIN2	9721	hgsc.bcm.edu	37	10	46999922	46999922	+	Missense_Mutation	SNP	G	G	T	rs4926046	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	16	79	2	0.222222	0.0253165	G|0.634;T|0.366	0.366	strong	GPRIN2,colon,carcinoma,0,1	GPRIN2	94	1	NM_014696	exon3	c.G1042T	p.V348L	AAGGCTGTGGCCA	.	scavenged	Atlas-SNP
TGM2	7052	hgsc.bcm.edu	37	20	36766591	36766591	+	Silent	SNP	G	G	A	rs140171902	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	75	127	0	0.487013	0	G|1.000;A|0.000	0.000	strong	.	TGM2	88	.	NM_198951	exon10	c.C1539T	p.T513T	GCTGACGGTGCGG	.	PASS	Atlas-SNP
KIF18A	81930	hgsc.bcm.edu	37	11	28057957	28057957	+	Missense_Mutation	SNP	T	T	C	rs10458896	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	178	197	0	0.994413	0	C|0.398;N|0.000	0.398	strong	.	KIF18A	92	.	NM_031217	exon14	c.A2203G	p.I735V	AGCTGATAGCCTG	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110489620	110489620	+	Silent	SNP	A	A	T	rs1783148	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	18	58	0	0.375	0	A|0.634;T|0.366	0.366	strong	.	PKHD1L1	522	.	NM_177531	exon53	c.A9084T	p.T3028T	AGCCACATATAAG	.	PASS	Atlas-SNP
FAM83H	286077	hgsc.bcm.edu	37	8	144810346	144810346	+	Missense_Mutation	SNP	C	C	A	rs144418186	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	13	11	0	0.541667	0	C|0.991;A|0.009	0.009	strong	.	FAM83H	68	.	NM_198488	exon5	c.G1285T	p.V429L	GCGACACCTGCCG	.	PASS	Atlas-SNP
PROC	5624	hgsc.bcm.edu	37	2	128186156	128186156	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	42	84	0	0.424242	0	.	.	none	.	PROC	31	.	NM_000312	exon9	c.G1020A	p.T340T	CGTGACGGGCTGG	.	PASS	Atlas-SNP
PROM1	8842	hgsc.bcm.edu	37	4	16020162	16020162	+	Silent	SNP	C	C	T	rs2286455	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	79	153	0	0.459302	0	C|0.873;T|0.127	0.127	strong	.	PROM1	91	.	NM_006017	exon8	c.G786A	p.A262A	CTTGATCGCTATG	.	PASS	Atlas-SNP
OR7C1	26664	hgsc.bcm.edu	37	19	14910654	14910654	+	Missense_Mutation	SNP	T	T	C	rs17230134	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	39	96	0	0.565217	0	T|0.783;C|0.217	0.217	strong	.	OR7C1	58	.	NM_198944	exon1	c.A295G	p.S99G	TCTGACTGAGACA	.	PASS	Atlas-SNP
ROBO3	64221	hgsc.bcm.edu	37	11	124742365	124742365	+	Missense_Mutation	SNP	G	G	A	rs3862618	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	28	91	0	0.388889	0	G|0.872;A|0.128	0.128	strong	.	ROBO3	199	.	NM_022370	exon8	c.G1247A	p.R416H	TGCAGCGTGGGGA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	715990	715990	+	Missense_Mutation	SNP	G	G	A	rs7190775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	29	23	0	0.966667	0	G|0.423;A|0.577	0.577	strong	.	WDR90	107	.	NM_145294	exon36	c.G4475A	p.R1492H	GTGGCCGCCCTGA	.	PASS	Atlas-SNP
TRIM10	10107	hgsc.bcm.edu	37	6	30128442	30128442	+	Missense_Mutation	SNP	C	C	T	rs12212092	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	58	135	0	0.411348	0	C|0.895;T|0.105	0.105	strong	.	TRIM10	65	.	NM_052828	exon1	c.G194A	p.R65H	CCAGGACGGAAGG	.	PASS	Atlas-SNP
MVB12B	89853	hgsc.bcm.edu	37	9	129143435	129143435	+	Silent	SNP	A	A	G	rs2286889	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	13	25	0	0.52	0	A|0.895;G|0.105	0.105	strong	.	.	.	.	NM_001011703	exon3	c.A297G	p.S99S	AAGATCATTTTCC	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31084435	31084435	+	Silent	SNP	G	G	A	rs1062470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	13	21	0	0.5	0	G|0.569;A|0.431	0.431	strong	.	CDSN	48	.	NM_001264	exon2	c.C957T	p.Y319Y	CACAGGGTAGATT	.	PASS	Atlas-SNP
ALDH1L2	160428	hgsc.bcm.edu	37	12	105433523	105433523	+	Silent	SNP	T	T	A	rs4964317	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	66	141	0	0.471429	0	T|0.687;A|0.313	0.313	strong	.	ALDH1L2	71	.	NM_001034173	exon17	c.A2013T	p.G671G	AGTGGATCCAGTG	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609806	32609806	+	Missense_Mutation	SNP	C	C	T	rs707952	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	101	254	0	0.561111	0	C|0.785;T|0.215	0.215	strong	.	HLA-DQA1	52	.	NM_002122	exon3	c.C389T	p.T130I	CCAACACCCTCAT	.	PASS	Atlas-SNP
COQ6	51004	hgsc.bcm.edu	37	14	74428445	74428445	+	Missense_Mutation	SNP	G	G	A	rs8500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	29	60	0	0.58	0	G|0.641;A|0.359	0.359	strong	.	COQ6	27	.	NM_182476	exon11	c.G1216A	p.V406M	GGTTCCGTGAGCC	.	PASS	Atlas-SNP
FAM126A	84668	hgsc.bcm.edu	37	7	23030692	23030692	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	106	71	0	0.76259	0	.	.	none	.	FAM126A	53	.	NM_032581	exon2	c.G39A	p.L13L	CTCTGACAACCAT	.	PASS	Atlas-SNP
ZADH2	284273	hgsc.bcm.edu	37	18	72913920	72913920	+	Silent	SNP	C	C	T	rs61910717	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	59	76	0	0.702381	0	C|0.973;T|0.027	0.027	strong	.	ZADH2	25	.	NM_175907	exon2	c.G585A	p.K195K	CTTTGCCTTCTTT	.	PASS	Atlas-SNP
STK40	83931	hgsc.bcm.edu	37	1	36820927	36820927	+	Silent	SNP	G	G	A	rs11263875	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	142	125	0	0.97931	0	G|0.907;A|0.093	0.093	strong	.	STK40	53	.	NM_032017	exon6	c.C450T	p.S150S	CTTATCGCTGAAG	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	377111	377111	+	Silent	SNP	G	G	C	rs10814431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	8	16	0	0.421053	0	G|0.749;C|0.251	0.251	strong	.	DOCK8	401	.	NM_203447	exon20	c.G2340C	p.L780L	CTGCCTGAACTCC	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152534768	152534768	+	Silent	SNP	C	C	T	rs34891041	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	243	133	243	0	0.547325	0	C|0.969;T|0.031	0.031	strong	.	SYNE1	3227	.	NM_182961	exon123	c.G22473A	p.L7491L	CTGTTCCAAAAGG	.	PASS	Atlas-SNP
TUBA1B	10376	hgsc.bcm.edu	37	12	49522578	49522578	+	Silent	SNP	T	T	C	rs1057725	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	55	191	0	0.352564	0	T|0.527;C|0.473	0.473	strong	.	TUBA1B	24	.	NM_006082	exon4	c.A519G	p.P173P	GGGTGCTGGGTAA	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201168499	201168499	+	Silent	SNP	G	G	A	rs1534057	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	86	89	0	0.646617	0	G|0.819;A|0.181	0.181	strong	.	IGFN1	220	.	NM_001164586	exon6	c.G405A	p.P135P	GGAACCGCAGGAA	.	PASS	Atlas-SNP
BANP	54971	hgsc.bcm.edu	37	16	88105725	88105725	+	Silent	SNP	G	G	A	rs8050209	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	17	19	0	0.395349	0	G|0.524;A|0.476	0.476	strong	.	BANP	67	.	NM_001173543	exon13	c.G1395A	p.A465A	CGCGGCGGCGGGC	.	PASS	Atlas-SNP
CARD10	29775	hgsc.bcm.edu	37	22	37915100	37915100	+	Silent	SNP	A	A	G	rs7287804	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	9	14	0	0.6	0	A|0.879;G|0.121	0.121	strong	.	CARD10	55	.	NM_014550	exon1	c.T108C	p.H36H	CAGCCGATGCCGG	.	PASS	Atlas-SNP
DDIT3	1649	hgsc.bcm.edu	37	12	57911160	57911160	+	Silent	SNP	G	G	A	rs697221	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	12	28	0	0.521739	0	G|0.811;A|0.189	0.189	strong	.	DDIT3	29	.	NM_001195054	exon3	c.C99T	p.F33F	TGTCCCGAAGGAG	.	PASS	Atlas-SNP
TAB2	23118	hgsc.bcm.edu	37	6	149700491	149700491	+	Silent	SNP	G	G	A	rs3734296	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	47	68	0	0.618421	0	G|0.856;A|0.144	0.144	strong	.	TAB2	55	.	NM_015093	exon5	c.G1440A	p.V480V	AGGGGTGGTGTCC	.	PASS	Atlas-SNP
TOPBP1	11073	hgsc.bcm.edu	37	3	133368362	133368362	+	Missense_Mutation	SNP	T	T	G	rs3192149	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	203	203	151	0	1	0	T|0.283;G|0.717	0.717	strong	.	TOPBP1	218	.	NM_007027	exon10	c.A1369C	p.K457Q	CAGGCTTATGTGA	.	PASS	Atlas-SNP
BCORL1	63035	hgsc.bcm.edu	37	X	129147373	129147373	+	Missense_Mutation	SNP	G	G	A	rs5932715	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	67	56	0	0.985294	0	G|0.944;A|0.056	0.056	strong	.	BCORL1	213	.	NM_021946	exon3	c.G625A	p.G209S	GCTCCCGGTTCGG	.	PASS	Atlas-SNP
WWC2	80014	hgsc.bcm.edu	37	4	184192278	184192278	+	Missense_Mutation	SNP	G	G	T	rs11734376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	67	120	0	0.478571	0	G|0.902;T|0.098	0.098	strong	.	WWC2	78	.	NM_024949	exon16	c.G2446T	p.V816F	AGTGAGGTTTTCA	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	128900005	128900005	+	Missense_Mutation	SNP	G	G	A	rs1683723	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	62	160	1	0.430556	0.00625	G|0.536;A|0.464	0.464	strong	TMEM132C_ENST00000435159,colon,carcinoma,-2,1	TMEM132C	142	1	NM_001136103	exon2	c.G814A	p.V272I	GGCACCGTCGGCC	.	scavenged	Atlas-SNP
CAPN13	92291	hgsc.bcm.edu	37	2	30976058	30976058	+	Silent	SNP	C	C	T	rs2926304	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	32	67	0	0.507937	0	C|0.617;N|0.000	.	strong	CAPN13,NS,carcinoma,0,1	CAPN13	70	1	NM_144575	exon10	c.G948A	p.S316S	TTGACACGACATC	.	PASS	Atlas-SNP
KRT76	51350	hgsc.bcm.edu	37	12	53162528	53162528	+	Missense_Mutation	SNP	G	G	A	rs2280480	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	59	98	0	0.614583	0	G|0.811;A|0.189	0.189	strong	.	KRT76	72	.	NM_015848	exon9	c.C1886T	p.T629M	GAGCTCGTGGTCT	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	37	12	101732655	101732655	+	Silent	SNP	C	C	T	rs56265469	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	59	159	0	0.541284	0	C|0.766;T|0.234	0.234	strong	.	UTP20	222	.	NM_014503	exon31	c.C3933T	p.S1311S	TCTCAGCAAAACC	.	PASS	Atlas-SNP
BCLAF1	9774	hgsc.bcm.edu	37	6	136589431	136589431	+	Missense_Mutation	SNP	C	C	T	rs150210620	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	21	181	0	0.143836	0	C|0.996;T|0.004	0.004	strong	.	BCLAF1	203	.	NM_014739	exon10	c.G2266A	p.A756T	GTGATGCTGAAGA	.	PASS	Atlas-SNP
GATA6	2627	hgsc.bcm.edu	37	18	19762989	19762989	+	Silent	SNP	A	A	G	rs117646477	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	97	134	0	0.60625	0	A|0.999;G|0.001	0.001	strong	.	GATA6	35	.	NM_005257	exon6	c.A1605G	p.Q535Q	AACACAACCTACA	.	PASS	Atlas-SNP
TNFRSF13B	23495	hgsc.bcm.edu	37	17	16852206	16852206	+	Silent	SNP	A	A	C	rs35062843	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	84	171	0	0.531646	0	A|0.968;C|0.032	0.032	strong	.	TNFRSF13B	34	.	NM_012452	exon3	c.T291G	p.P97P	TTGCTTAGGGTGC	.	PASS	Atlas-SNP
GABRA6	2559	hgsc.bcm.edu	37	5	161117243	161117243	+	Missense_Mutation	SNP	A	A	G	rs76773579	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	65	112	0	0.496183	0	A|0.997;G|0.003	0.003	strong	.	GABRA6	139	.	NM_000811	exon7	c.A710G	p.Q237R	ACTTGCAAAGGAA	.	PASS	Atlas-SNP
AOX1	316	hgsc.bcm.edu	37	2	201534389	201534389	+	Missense_Mutation	SNP	A	A	G	rs3731722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	52	57	0	0.514852	0	A|0.937;G|0.063	0.063	strong	AOX1,NS,carcinoma,0,1	AOX1	152	1	NM_001159	exon34	c.A3890G	p.H1297R	GCCTGCATGGACC	.	PASS	Atlas-SNP
VPS8	23355	hgsc.bcm.edu	37	3	184766301	184766301	+	Missense_Mutation	SNP	T	T	C	rs3821750	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	59	90	0	0.526786	0	T|0.818;C|0.182	0.182	strong	.	VPS8	109	.	NM_001009921	exon46	c.T4091C	p.I1364T	AGCAAATCCAAGC	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112177171	112177171	+	Silent	SNP	G	G	A	rs465899	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	139	119	0	0.985816	0	G|0.332;A|0.668	0.668	strong	.	APC	4158	.	NM_001127510	exon17	c.G5880A	p.P1960P	TACTCCGGTTTGC	.	PASS	Atlas-SNP
HELB	92797	hgsc.bcm.edu	37	12	66731864	66731864	+	Silent	SNP	C	C	A	rs1168329	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	33	48	0	1	0	C|0.503;A|0.497	0.497	strong	.	HELB	90	.	NM_033647	exon13	c.C3246A	p.T1082T	GCCCACCGATAAT	.	PASS	Atlas-SNP
DAPL1	92196	hgsc.bcm.edu	37	2	159672252	159672252	+	Silent	SNP	G	G	A	rs61740878	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	50	107	0	0.617284	0	G|0.880;A|0.120	0.120	strong	.	DAPL1	11	.	NM_001017920	exon4	c.G243A	p.A81A	CATGGCGCATCAA	.	PASS	Atlas-SNP
C11orf24	53838	hgsc.bcm.edu	37	11	68029887	68029887	+	Silent	SNP	G	G	A	rs78911714	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	236	123	222	0	0.521186	0	G|0.992;A|0.008	0.008	strong	.	C11orf24	35	.	NM_022338	exon4	c.C576T	p.L192L	TTGTGCGAGGGCT	.	PASS	Atlas-SNP
MBTPS2	51360	hgsc.bcm.edu	37	X	21861434	21861434	+	Silent	SNP	A	A	G	rs3213451	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	61	79	0	1	0	A|0.567;G|0.433	0.433	strong	.	MBTPS2	52	.	NM_015884	exon2	c.A222G	p.Q74Q	TTACCAATGGTAT	.	PASS	Atlas-SNP
RNF175	285533	hgsc.bcm.edu	37	4	154631587	154631587	+	Missense_Mutation	SNP	C	C	G	rs1337	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	25	72	0	0.438596	0	C|0.896;G|0.104	0.104	strong	.	RNF175	40	.	NM_173662	exon9	c.G921C	p.L307F	GGCCACCAAATAA	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20296010	20296010	+	Missense_Mutation	SNP	G	G	C	rs17114261	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	348	61	275	0	0.175287	0	G|0.824;C|0.176	0.176	strong	.	OR4N2	125	.	NM_001004723	exon1	c.G403C	p.V135L	CCTACTGTCATGA	.	PASS	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	37	21	47423509	47423509	+	Missense_Mutation	SNP	C	C	T	rs13051496	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	44	86	0	0.52381	0	C|0.849;T|0.151	0.151	strong	COL6A1,NS,carcinoma,0,1	COL6A1	101	1	NM_001848	exon35	c.C2669T	p.S890L	GGGCGTCGCTGCA	.	PASS	Atlas-SNP
NEIL3	55247	hgsc.bcm.edu	37	4	178262784	178262784	+	Missense_Mutation	SNP	A	A	G	rs34193982	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	16	42	0	0.4	0	A|0.894;G|0.106	0.106	strong	.	NEIL3	89	.	NM_018248	exon6	c.A857G	p.H286R	CTCAACATGTTGA	.	PASS	Atlas-SNP
SERPINA10	51156	hgsc.bcm.edu	37	14	94756450	94756450	+	Missense_Mutation	SNP	T	T	A	rs2232700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	118	101	0	1	0	T|0.775;N|0.000	.	strong	.	SERPINA10	83	.	NM_001100607	exon2	c.A481T	p.T161S	CCTGTGTGAGGCC	.	PASS	Atlas-SNP
DDX60	55601	hgsc.bcm.edu	37	4	169227551	169227551	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	4	61	0	0.105263	0	.	.	none	.	DDX60	304	.	NM_017631	exon5	c.A585G	p.R195R	CTGGTGTCTGTAC	.	PASS	Atlas-SNP
ASAP1	50807	hgsc.bcm.edu	37	8	131124559	131124559	+	Missense_Mutation	SNP	T	T	C	rs966185	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	86	79	0	0.977273	0	T|0.556;C|0.444	0.444	strong	ASAP1,NS,carcinoma,0,1	ASAP1	133	1	NM_018482	exon24	c.A2182G	p.I728V	TCTTGATAGGGCT	.	PASS	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	37	22	26688388	26688388	+	Silent	SNP	A	A	C	rs35377445	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	21	36	0	0.368421	0	A|0.919;C|0.081	0.081	strong	SEZ6L,NS,carcinoma,+2,1	SEZ6L	174	1	NM_001184777	exon2	c.A111C	p.G37G	CGAGGGAGATGCT	.	PASS	Atlas-SNP
PYGL	5836	hgsc.bcm.edu	37	14	51376774	51376774	+	Silent	SNP	G	G	A	rs15669	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	127	119	0	0.984496	0	G|0.787;A|0.213	0.213	strong	.	PYGL	77	.	NM_002863	exon17	c.C2016T	p.T672T	GGCTTCGGTGCCT	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	37	10	105793750	105793750	+	Missense_Mutation	SNP	T	T	C	rs17116350	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	73	183	4	0.453416	0.0218579	C|0.269;N|0.000	0.269	strong	COL17A1,colon,carcinoma,0,1	COL17A1	149	1	NM_000494	exon52	c.A4109G	p.D1370G	TCCAGATCTCCAG	.	scavenged	Atlas-SNP
OR52E2	119678	hgsc.bcm.edu	37	11	5080844	5080844	+	Missense_Mutation	SNP	T	T	C	rs16909440	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	28	64	0	0.509091	0	C|0.306;N|0.000	0.306	strong	.	OR52E2	63	.	NM_001005164	exon1	c.A14G	p.N5S	GTGTCATTGGGAA	.	PASS	Atlas-SNP
HEXDC	284004	hgsc.bcm.edu	37	17	80391684	80391684	+	Missense_Mutation	SNP	A	A	G	rs4789773	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	207	104	202	1	0.502415	0.00495049	A|0.477;G|0.523	0.523	strong	.	HEXDC	43	.	NM_173620	exon5	c.A433G	p.I145V	CTGCACATCGGGT	.	PASS	Atlas-SNP
RCN3	57333	hgsc.bcm.edu	37	19	50045979	50045979	+	Missense_Mutation	SNP	C	C	A	rs146159696	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	24	56	0	0.615385	0	C|0.990;A|0.010	0.010	strong	.	RCN3	28	.	NM_020650	exon6	c.C849A	p.N283K	AGCCAACCACCTG	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38793989	38793989	+	Silent	SNP	G	G	A	rs7617919	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	31	58	0	0.348315	0	G|0.780;A|0.220	0.220	strong	.	SCN10A	359	.	NM_006514	exon11	c.C1476T	p.L492L	AGAGGCGAGGCCT	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116435768	116435768	+	Silent	SNP	C	C	T	rs41736	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	122	123	1	0.99187	0.00813008	C|0.624;T|0.376	0.376	strong	MET,NS,carcinoma,0,1	MET	412	1	NM_001127500	exon20	c.C3912T	p.D1304D	TCCTGACGTAAAC	.	PASS	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	37	1	46496709	46496709	+	Silent	SNP	A	A	G	rs925524	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	135	107	0	0.992647	0	A|0.307;C|0.013	.	strong	.	MAST2	136	.	NM_015112	exon23	c.A2739G	p.S913S	TGAGTCATCCCAC	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201183363	201183363	+	Silent	SNP	C	C	T	rs2282415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	32	39	0	0.551724	0	C|0.687;T|0.313	0.313	strong	.	IGFN1	220	.	NM_001164586	exon13	c.C8787T	p.A2929A	GGAGGCCGCCACA	.	PASS	Atlas-SNP
RGSL1	353299	hgsc.bcm.edu	37	1	182496829	182496829	+	Missense_Mutation	SNP	A	A	G	rs7535533	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	188	116	164	0	0.617021	0	A|0.661;G|0.339	0.339	strong	.	RGSL1	111	.	NM_001137669	exon11	c.A2047G	p.I683V	ATCAGTATAGAGA	.	PASS	Atlas-SNP
AOAH	313	hgsc.bcm.edu	37	7	36763672	36763672	+	Missense_Mutation	SNP	C	C	T	rs2228410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	41	25	0	0.672131	0	C|0.697;T|0.303	0.303	strong	.	AOAH	79	.	NM_001177507	exon1	c.G82A	p.D28N	GGTCATCGTTGGC	.	PASS	Atlas-SNP
KIF2C	11004	hgsc.bcm.edu	37	1	45218895	45218895	+	Silent	SNP	A	A	T	rs3795713	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	54	105	0	0.529412	0	A|0.741;T|0.259	0.259	strong	KIF2C,NS,carcinoma,+2,1	KIF2C	68	1	NM_006845	exon6	c.A531T	p.R177R	CATCCGAGGCAGC	.	PASS	Atlas-SNP
UGT2B11	10720	hgsc.bcm.edu	37	4	70071216	70071216	+	Missense_Mutation	SNP	G	G	A	rs72551397		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	18	61	0	0.327273	0	.	.	weak	.	UGT2B11	92	.	NM_001073	exon4	c.C1072T	p.P358S	TCTGGGGTATCCA	.	PASS	Atlas-SNP
DHRS4L2	317749	hgsc.bcm.edu	37	14	24458162	24458162	+	Missense_Mutation	SNP	G	G	C	rs2273946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	57	55	0	1	0	G|0.452;C|0.548	0.548	strong	.	DHRS4L2	29	.	NM_198083	exon1	c.G6C	p.Q2H	CATGCAGATGGCC	.	PASS	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023640	6023640	+	Missense_Mutation	SNP	T	T	C	rs11040249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	108	110	0	0.990826	0	T|0.797;C|0.203	0.203	strong	.	OR56A4	66	.	NM_001005179	exon1	c.A739G	p.I247V	AAGTGATGTCATC	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55755491	55755491	+	Missense_Mutation	SNP	C	C	T	rs2135720	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	33	63	1	0.44	0.015873	C|0.754;T|0.246	0.246	strong	PCDH15_ENST00000417177,NS,carcinoma,-1,4	PCDH15	1715	4	NM_001142763	exon22	c.G2801A	p.R934Q	TATATTCGTTTAC	.	scavenged	Atlas-SNP
NSD1	64324	hgsc.bcm.edu	37	5	176639105	176639105	+	Silent	SNP	T	T	C	rs28932181	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	34	88	0	0.453333	0	T|0.896;C|0.104	0.104	strong	.	NSD1	416	.	NM_022455	exon5	c.T3705C	p.N1235N	GTTAAATGTTTGT	.	PASS	Atlas-SNP
RHBDD3	25807	hgsc.bcm.edu	37	22	29656389	29656389	+	Silent	SNP	G	G	T	rs2231398	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	39	63	0	0.46988	0	G|0.749;T|0.251	0.251	strong	.	RHBDD3	17	.	NM_012265	exon6	c.C909A	p.A303A	AAGCGAGGCCTGG	.	PASS	Atlas-SNP
CBLN2	147381	hgsc.bcm.edu	37	18	70209321	70209321	+	Silent	SNP	C	C	A	rs7237888	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	3	3	0	0	1	.	C|0.390;A|0.610	0.610	strong	CBLN2,right_upper_lobe,carcinoma,-1,1	CBLN2	41	1	NM_182511	exon3	c.G75T	p.P25P	GCCGCCCGGCTCG	.	scavenged	Atlas-SNP
MS4A13	503497	hgsc.bcm.edu	37	11	60296879	60296879	+	Silent	SNP	C	C	T	rs11230364	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	60	88	0	0.540541	0	C|0.906;T|0.094	0.094	strong	.	MS4A13	27	.	NM_001012417	exon6	c.C348T	p.Y116Y	CTTCTACGGTTTG	.	PASS	Atlas-SNP
SCUBE1	80274	hgsc.bcm.edu	37	22	43623395	43623395	+	Missense_Mutation	SNP	C	C	G	rs129415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	43	57	0	0.955556	0	C|0.262;G|0.738	0.738	strong	.	SCUBE1	105	.	NM_173050	exon10	c.G1192C	p.G398R	CCTTCCCGTTCCA	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32189032	32189032	+	Silent	SNP	T	T	C	rs415929	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	46	88	0	0.516854	0	T|0.703;C|0.297	0.297	strong	.	NOTCH4	201	.	NM_004557	exon4	c.A522G	p.T174T	GGGGTATGTGGCC	.	PASS	Atlas-SNP
LRP5L	91355	hgsc.bcm.edu	37	22	25753321	25753321	+	Silent	SNP	G	G	A	rs9624807	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	49	111	0	0.404959	0	G|0.895;A|0.105	0.105	strong	.	LRP5L	23	.	NM_001135772	exon4	c.C339T	p.R113R	CAGCACGCGCAGC	.	PASS	Atlas-SNP
LNX2	222484	hgsc.bcm.edu	37	13	28143229	28143229	+	Missense_Mutation	SNP	A	A	G	rs8002697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	97	103	0	1	0	A|0.434;G|0.566	0.566	strong	.	LNX2	70	.	NM_153371	exon3	c.T592C	p.S198P	ATGTGGAAAGAGA	.	PASS	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	37	18	43523997	43523997	+	Missense_Mutation	SNP	T	T	C	rs61734402	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	42	75	0	0.466667	0	T|0.994;C|0.006	0.006	strong	.	EPG5	199	.	NM_020964	exon8	c.A1766G	p.Q589R	AGATGCTGAAAGA	.	PASS	Atlas-SNP
CAMSAP3	57662	hgsc.bcm.edu	37	19	7675369	7675369	+	Silent	SNP	C	C	T	rs62113420	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	35	41	0	1	0	C|0.897;T|0.103	0.103	strong	.	CAMSAP3	131	.	NM_001080429	exon8	c.C849T	p.C283C	GGTGTGCTTGAAG	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24921771	24921771	+	Missense_Mutation	SNP	G	G	C	rs1563102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	29	67	0	0.527273	0	G|0.744;C|0.256	0.256	strong	C15orf2,NS,carcinoma,0,2	.	.	2	NM_018958	exon1	c.G757C	p.G253R	CATCTTGGAAAGC	.	PASS	Atlas-SNP
SGSM2	9905	hgsc.bcm.edu	37	17	2268311	2268311	+	Missense_Mutation	SNP	G	G	A	rs2248821	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	60	37	0	1	0	G|0.492;A|0.508	0.508	strong	.	SGSM2	60	.	NM_001098509	exon10	c.G1121A	p.R374Q	TGCCTCGGGGACA	.	PASS	Atlas-SNP
ZNF500	26048	hgsc.bcm.edu	37	16	4802386	4802386	+	Silent	SNP	G	G	T	rs3747602	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	9	18	0	0.409091	0	G|0.445;T|0.555	0.555	strong	.	ZNF500	45	.	NM_021646	exon6	c.C1434A	p.A478A	GGCTTTGGCACCG	.	PASS	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	37	1	245704130	245704130	+	Missense_Mutation	SNP	G	G	C	rs61754898	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	81	207	3	0.437838	0.0144928	G|0.865;C|0.135	0.135	strong	KIF26B_ENST00000407071,NS,carcinoma,0,1	KIF26B	343	1	NM_018012	exon5	c.G1228C	p.A410P	TCTTCCGCTGCCG	.	scavenged	Atlas-SNP
THOC1	9984	hgsc.bcm.edu	37	18	264030	264030	+	Silent	SNP	A	A	G	rs371643145		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	61	162	0	0.335165	0	.	.	weak	.	THOC1	43	.	NM_005131	exon4	c.T252C	p.T84T	ACCTTCAGTTACT	.	PASS	Atlas-SNP
DDRGK1	65992	hgsc.bcm.edu	37	20	3171337	3171337	+	Missense_Mutation	SNP	C	C	T	rs11591	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	28	79	0	0.466667	0	C|0.885;T|0.115	0.115	strong	.	DDRGK1	21	.	NM_023935	exon9	c.G907A	p.A303T	CCCAGGCGATGAG	.	PASS	Atlas-SNP
ADH7	131	hgsc.bcm.edu	37	4	100341861	100341861	+	Silent	SNP	C	C	T	rs971074	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	60	121	0	0.47619	0	C|0.862;T|0.138	0.138	strong	.	ADH7	76	.	NM_001166504	exon6	c.G714A	p.R238R	AATGATCCTAGAT	.	PASS	Atlas-SNP
FKBP1A	2280	hgsc.bcm.edu	37	20	1350709	1350709	+	Silent	SNP	T	T	C	rs8392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	47	69	0	1	0	T|0.408;G|0.125;C|0.192;A|0.276	0.192	strong	.	FKBP1A	6	.	NM_001199786	exon4	c.A258G	p.P86P	CCTCCATGGCAGA	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87241847	87241847	+	Silent	SNP	G	G	A	rs7814198	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	39	63	0	0.590909	0	G|0.644;A|0.356	0.356	strong	.	SLC7A13	97	.	NM_138817	exon1	c.C660T	p.G220G	TGCCCCGCCTGAA	.	PASS	Atlas-SNP
ZNF337	26152	hgsc.bcm.edu	37	20	25666737	25666737	+	Missense_Mutation	SNP	C	C	T	rs926487	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	18	42	0	0.409091	0	C|0.838;T|0.162	0.162	strong	.	ZNF337	65	.	NM_015655	exon3	c.G49A	p.V17I	CAGTGACATCCCC	.	PASS	Atlas-SNP
PRR5	55615	hgsc.bcm.edu	37	22	45075738	45075738	+	Missense_Mutation	SNP	T	T	C	rs763213	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	55	110	0	0.52381	0	T|0.308;C|0.692	0.692	strong	.	PRR5	75	.	NM_001198721	exon2	c.T59C	p.M20T	AAAAGATGCCGGC	.	PASS	Atlas-SNP
MED16	10025	hgsc.bcm.edu	37	19	871987	871987	+	Silent	SNP	G	G	A	rs78047294	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	52	85	0	0.565217	0	G|0.771;A|0.229	0.229	strong	.	MED16	61	.	NM_005481	exon12	c.C2037T	p.T679T	ATCCGAGGTGGCC	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141759676	141759676	+	Silent	SNP	T	T	C	rs62477620	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	216	210	223	1	0.972222	0.00448431	T|0.812;C|0.188	0.188	strong	.	MGAM	767	.	NM_004668	exon33	c.T3969C	p.N1323N	TGGCAATGAGACA	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52478315	52478315	+	Silent	SNP	A	A	G	rs1051069	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	31	74	0	0.516667	0	A|0.354;G|0.646	0.646	strong	NID2,NS,carcinoma,-1,1	NID2	201	1	NM_007361	exon17	c.T3507C	p.A1169A	CAGACCAGCACGG	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64612858	64612858	+	Missense_Mutation	SNP	C	C	A	rs10151658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	82	173	1	0.503067	0.00578035	C|0.386;A|0.614	0.614	strong	SYNE2,NS,carcinoma,0,1	SYNE2	577	1	NM_182914	exon84	c.C15556A	p.L5186M	AACTGGCTGGAAG	.	scavenged	Atlas-SNP
UGT1A7	54577	hgsc.bcm.edu	37	2	234590616	234590616	+	Silent	SNP	C	C	A	rs7577677	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	47	84	0	0.5	0	C|0.686;A|0.314	0.314	strong	.	UGT1A7	74	.	NM_019077	exon1	c.C33A	p.P11P	CCTTCCCCTATAT	.	PASS	Atlas-SNP
PAK2	5062	hgsc.bcm.edu	37	3	196530022	196530022	+	Silent	SNP	C	C	T	rs115224945	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	13	46	2	0.141304	0.0434783	C|0.986;T|0.015	0.015	strong	PAK2_ENST00000327134,rectum,carcinoma,0,2	PAK2	113	2	NM_002577	exon4	c.C423T	p.S141S	TCTGAGCTTTACT	.	scavenged	Atlas-SNP
GSTZ1	2954	hgsc.bcm.edu	37	14	77793237	77793237	+	Missense_Mutation	SNP	G	G	A	rs7972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	22	38	0	0.407407	0	G|0.949;A|0.051	0.051	strong	.	GSTZ1	35	.	NM_145871	exon3	c.G124A	p.G42R	AAGGATGGGGGCC	.	PASS	Atlas-SNP
PTPLAD1	51495	hgsc.bcm.edu	37	15	65856653	65856653	+	Silent	SNP	G	G	A	rs11539008	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	114	108	0	1	0	G|0.872;A|0.128	0.128	strong	.	PTPLAD1	23	.	NM_016395	exon7	c.G633A	p.T211T	CACTACGTCACCG	.	PASS	Atlas-SNP
SLC12A9	56996	hgsc.bcm.edu	37	7	100463492	100463492	+	Silent	SNP	G	G	A	rs34433055	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	41	100	0	0.418367	0	G|0.991;A|0.009	0.009	strong	.	SLC12A9	81	.	NM_020246	exon14	c.G2010A	p.R670R	TCCCCGGGCTCCT	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79041057	79041057	+	Missense_Mutation	SNP	A	A	G	rs12514461	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	54	124	0	0.432	0	A|0.904;G|0.096	0.096	strong	.	CMYA5	643	.	NM_153610	exon4	c.A10747G	p.K3583E	TGTAGTAAAAATG	.	PASS	Atlas-SNP
OPA1	4976	hgsc.bcm.edu	37	3	193374964	193374964	+	Silent	SNP	T	T	C	rs9851685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	55	82	0	0.56701	0	T|0.517;C|0.483	0.483	strong	.	OPA1	79	.	NM_130837	exon23	c.T2274C	p.A758A	AGAGGCTGTTAAG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280736	152280736	+	Missense_Mutation	SNP	T	T	C	rs78974621	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	374	72	237	0	0.192513	0	T|0.865;C|0.135	0.135	strong	.	FLG	900	.	NM_002016	exon3	c.A6626G	p.H2209R	TGATGATGCGACC	.	PASS	Atlas-SNP
HIST1H2BA	255626	hgsc.bcm.edu	37	6	25727265	25727265	+	Silent	SNP	C	C	T	rs4712960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	54	83	0	0.574468	0	C|0.714;T|0.286	0.286	strong	.	HIST1H2BA	25	.	NM_170610	exon1	c.C129T	p.I43I	TTACATCTACAAA	.	PASS	Atlas-SNP
CYB5D1	124637	hgsc.bcm.edu	37	17	7761512	7761512	+	Missense_Mutation	SNP	C	C	A	rs12453250	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	37	76	0	0.468354	0	C|0.814;A|0.186	0.186	strong	.	CYB5D1	16	.	NM_144607	exon1	c.C60A	p.F20L	CTATTTCACGCCG	.	PASS	Atlas-SNP
EMC1	23065	hgsc.bcm.edu	37	1	19566881	19566881	+	Silent	SNP	C	C	T	rs12084825	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	119	0	0.511628	0	C|0.864;T|0.136	0.136	strong	.	.	.	.	NM_001271427	exon7	c.G696A	p.E232E	GACAGCCTCATCC	.	PASS	Atlas-SNP
SH3BP2	6452	hgsc.bcm.edu	37	4	2822467	2822467	+	Silent	SNP	G	G	T	rs231402	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	50	91	0	0.543478	0	G|0.647;T|0.353	0.353	strong	.	SH3BP2	43	.	NM_001145856	exon2	c.G294T	p.L98L	CCAGCTGCAGCTG	.	PASS	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	37	7	11509561	11509561	+	Missense_Mutation	SNP	G	G	C	rs2285744	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	71	88	0	0.617391	0	G|0.719;C|0.281	0.281	strong	.	THSD7A	219	.	NM_015204	exon9	c.C2313G	p.D771E	AATACAGTCCTTC	.	PASS	Atlas-SNP
MED16	10025	hgsc.bcm.edu	37	19	875389	875389	+	Silent	SNP	G	G	A	rs11546307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	17	39	0	0.404762	0	G|0.765;A|0.235	0.235	strong	.	MED16	61	.	NM_005481	exon10	c.C1626T	p.T542T	CACGCGGGTCACC	.	PASS	Atlas-SNP
C8orf74	203076	hgsc.bcm.edu	37	8	10532249	10532249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	2	129	0	0.018018	0	.	.	none	C8orf74,NS,carcinoma,-2,2	C8orf74	28	2	NM_001040032	exon2	c.C142T	p.L48F	GACACCCTCTACG	.	scavenged	Atlas-SNP
COL19A1	1310	hgsc.bcm.edu	37	6	70854818	70854818	+	Silent	SNP	G	G	A	rs34837646	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	29	55	0	0.467742	0	G|0.939;A|0.061	0.061	strong	.	COL19A1	232	.	NM_001858	exon25	c.G1689A	p.P563P	AGATCCGGGTGGG	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126241871	126241871	+	Silent	SNP	C	C	T	rs2710555	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	38	109	0	0.395833	0	C|0.301;T|0.699	0.699	strong	.	FAT4	1752	.	NM_024582	exon1	c.C4305T	p.I1435I	TCCCATCGGTACA	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201047111	201047111	+	Silent	SNP	A	A	G	rs9427714	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	192	191	152	1	0.994792	0.00657895	A|0.768;G|0.232	0.232	strong	.	CACNA1S	249	.	NM_000069	exon11	c.T1515C	p.C505C	ACCGCTACACACC	.	PASS	Atlas-SNP
DTX3L	151636	hgsc.bcm.edu	37	3	122290579	122290579	+	Silent	SNP	C	C	T	rs2036342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	129	103	0	0.992308	0	C|0.681;T|0.319	0.319	strong	.	DTX3L	59	.	NM_138287	exon5	c.C2208T	p.A736A	GAAAGCCAAAGGA	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324595	31324595	+	Silent	SNP	C	C	G	rs1050543	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	28	122	0	0.717949	0	G|0.381;C|0.619	0.381	strong	.	HLA-B	54	.	NM_005514	exon2	c.G213C	p.P71P	CGCCCGCGGCTCC	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73828538	73828538	+	Missense_Mutation	SNP	G	G	A	rs1052161	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	159	167	0	1	0	G|0.424;N|0.000	.	strong	.	ALMS1	384	.	NM_015120	exon19	c.G12086A	p.R4029K	TACTGAGGCCATT	.	PASS	Atlas-SNP
VSX1	30813	hgsc.bcm.edu	37	20	25060143	25060143	+	Missense_Mutation	SNP	G	G	C	rs140122268	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	20	29	0	0.512821	0	G|0.997;C|0.003	0.003	strong	.	VSX1	20	.	NM_014588	exon2	c.C432G	p.D144E	CTGGCTGTCCTCA	.	PASS	Atlas-SNP
TSPYL4	23270	hgsc.bcm.edu	37	6	116574977	116574977	+	Missense_Mutation	SNP	A	A	C	rs187133419	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	15	34	0	0.428571	0	A|0.998;C|0.002	0.002	strong	.	TSPYL4	18	.	NM_021648	exon1	c.T195G	p.D65E	GACAGGATCCTGG	.	PASS	Atlas-SNP
CHD9	80205	hgsc.bcm.edu	37	16	53283966	53283966	+	Silent	SNP	G	G	A	rs8052283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	26	74	0	0.5	0	G|0.692;A|0.308	0.308	strong	.	CHD9	203	.	NM_025134	exon17	c.G3849A	p.Q1283Q	TCCTCAGAATGAT	.	PASS	Atlas-SNP
MRTO4	51154	hgsc.bcm.edu	37	1	19585207	19585207	+	Silent	SNP	G	G	A	rs41367945	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	49	101	0	0.505155	0	G|1.000;|0.000	.	weak	MRTO4,colon,carcinoma,0,2	MRTO4	17	2	NM_016183	exon8	c.G603A	p.K201K	ATTCAAGGTGACC	.	PASS	Atlas-SNP
ZNF436	80818	hgsc.bcm.edu	37	1	23689083	23689083	+	Silent	SNP	G	G	A	rs3795308	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	25	59	0	0.403226	0	G|0.921;A|0.079	0.079	strong	ZNF436,NS,carcinoma,0,1	ZNF436	49	1	NM_001077195	exon4	c.C792T	p.H264H	AGCTAGGTGAGAG	.	PASS	Atlas-SNP
OR11L1	391189	hgsc.bcm.edu	37	1	248004296	248004296	+	Silent	SNP	A	A	G	rs6681483	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	64	140	0	0.474074	0	A|0.825;G|0.175	0.175	strong	OR11L1,right_lower_lobe,carcinoma,-2,1	OR11L1	108	1	NM_001001959	exon1	c.T903C	p.V301V	CTTTCTAACAGCT	.	PASS	Atlas-SNP
CD300E	342510	hgsc.bcm.edu	37	17	72610089	72610089	+	Missense_Mutation	SNP	C	C	T	rs1878061	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	40	80	0	0.481928	0	C|0.728;N|0.000	.	strong	CD300E,NS,carcinoma,0,1	CD300E	70	1	NM_181449	exon3	c.G472A	p.G158R	CCTCCCCGGTGCT	.	PASS	Atlas-SNP
HCN2	610	hgsc.bcm.edu	37	19	603832	603832	+	Silent	SNP	C	C	T	rs56180027	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	38	80	0	0.513514	0	C|0.922;T|0.078	0.078	strong	.	HCN2	36	.	NM_001194	exon2	c.C921T	p.I307I	CCTTATCGTGGAG	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998095	17998095	+	Missense_Mutation	SNP	C	C	T	rs35858730	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	84	70	1	1	0.0142857	C|0.602;T|0.398	0.398	strong	MSGN1,NS,carcinoma,0,1	MSGN1	39	1	NM_001105569	exon1	c.C310T	p.H104Y	CCCACCCACCTTC	.	scavenged	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22848028	22848028	+	Missense_Mutation	SNP	G	G	C	rs78240139		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	476	145	490	0	0.304622	0	G|0.500;C|0.500	0.500	weak	ZNF492_ENST00000456783,NS,carcinoma,0,1	ZNF492	129	1	NM_020855	exon4	c.G1557C	p.K519N	TGCAAAGATTTCC	.	scavenged	Atlas-SNP
FAM3D	131177	hgsc.bcm.edu	37	3	58639418	58639418	+	Missense_Mutation	SNP	C	C	T	rs13097314	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	17	35	0	0.435897	0	C|0.994;T|0.006	0.006	strong	FAM3D,colon,carcinoma,-1,1	FAM3D	29	1	NM_138805	exon3	c.G104A	p.R35H	GGCAGACGGATGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9077803	9077803	+	Missense_Mutation	SNP	T	T	C	rs2591597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	189	90	203	0	0.47619	0	T|0.751;C|0.249	0.249	strong	.	MUC16	4315	.	NM_024690	exon3	c.A9643G	p.S3215G	TGATGCTGGGTTC	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	37	10	116060427	116060427	+	Missense_Mutation	SNP	G	G	C	rs2781806	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	21	37	0	0.488372	0	G|0.949;C|0.051	0.051	strong	.	AFAP1L2	90	.	NM_032550	exon14	c.C1565G	p.T522S	ACAGGGGTGGCTT	.	PASS	Atlas-SNP
PRND	23627	hgsc.bcm.edu	37	20	4705718	4705718	+	Missense_Mutation	SNP	C	C	T	rs2245220	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	25	51	0	0.409836	0	C|0.492;T|0.508	0.508	strong	PRND,caecum,carcinoma,0,1	PRND	34	1	NM_012409	exon2	c.C521T	p.T174M	GGCTCACGGTGAA	.	PASS	Atlas-SNP
CD5L	922	hgsc.bcm.edu	37	1	157804260	157804260	+	Missense_Mutation	SNP	G	G	A	rs141546266	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	63	64	0	0.7	0	G|0.987;A|0.013	0.013	strong	.	CD5L	112	.	NM_005894	exon4	c.C655T	p.P219S	CAGAAGGGCAATC	.	PASS	Atlas-SNP
OR11A1	26531	hgsc.bcm.edu	37	6	29394926	29394926	+	Missense_Mutation	SNP	C	C	T	rs9257857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	44	78	0	0.473118	0	C|0.879;T|0.121	0.121	strong	.	OR11A1	30	.	NM_013937	exon1	c.G493A	p.A165T	GCTGGGCCACCAG	.	PASS	Atlas-SNP
OR4C15	81309	hgsc.bcm.edu	37	11	55322298	55322298	+	Silent	SNP	C	C	T	rs8181485	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	82	134	0	0.493976	0	C|0.884;T|0.116	0.116	strong	.	OR4C15	145	.	NM_001001920	exon1	c.C516T	p.A172A	CATGGCCTATGAT	.	PASS	Atlas-SNP
TRIM22	10346	hgsc.bcm.edu	37	11	5730343	5730343	+	Missense_Mutation	SNP	G	G	A	rs12364019	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	40	75	0	0.408163	0	G|0.976;A|0.024	0.024	strong	.	TRIM22	66	.	NM_006074	exon8	c.G962A	p.R321K	ATCAGAGACAAGT	.	PASS	Atlas-SNP
PSG11	5680	hgsc.bcm.edu	37	19	43519362	43519362	+	Silent	SNP	C	C	T	rs11083680	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	75	133	1	0.559702	0.0075188	C|0.424;T|0.576	0.576	strong	PSG11,right_lower_lobe,carcinoma,-2,1	PSG11	57	1	NM_002785	exon4	c.G870A	p.Q290Q	AGTAATCTGAGGG	.	scavenged	Atlas-SNP
MPZL2	10205	hgsc.bcm.edu	37	11	118134830	118134830	+	Silent	SNP	G	G	A	rs36040758	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	33	38	0	0.458333	0	G|0.993;A|0.007	0.007	strong	.	MPZL2	20	.	NM_005797	exon1	c.C39T	p.L13L	GCCAAGGAGAAGA	.	PASS	Atlas-SNP
ATP6V1B1	525	hgsc.bcm.edu	37	2	71163086	71163086	+	Missense_Mutation	SNP	T	T	C	rs11681642	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	84	182	0	0.474576	0	T|0.602;C|0.398	0.398	strong	.	ATP6V1B1	66	.	NM_001692	exon1	c.T2C	p.M1T	GCTCCATGGCCAT	.	PASS	Atlas-SNP
COL1A2	1278	hgsc.bcm.edu	37	7	94030899	94030899	+	Silent	SNP	T	T	C	rs1800222	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	40	126	0	0.384615	0	T|0.716;C|0.284	0.284	strong	.	COL1A2	240	.	NM_000089	exon6	c.T246C	p.D82D	GTATGATGGAAAA	.	PASS	Atlas-SNP
ALS2CL	259173	hgsc.bcm.edu	37	3	46717175	46717175	+	Missense_Mutation	SNP	C	C	T	rs142971127	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	15	33	0	0.340909	0	C|0.993;T|0.007	0.007	strong	.	ALS2CL	78	.	NM_001190707	exon20	c.G2188A	p.G730S	GCAGACCCCTGTG	.	PASS	Atlas-SNP
ANKRD18A	253650	hgsc.bcm.edu	37	9	38615698	38615698	+	Missense_Mutation	SNP	C	C	T	rs1832313	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	70	89	0	0.972222	0	C|0.550;T|0.450	0.450	strong	.	ANKRD18A	49	.	NM_147195	exon3	c.G388A	p.E130K	TATCCTCAATGTT	.	PASS	Atlas-SNP
FAM71B	153745	hgsc.bcm.edu	37	5	156590355	156590355	+	Silent	SNP	A	A	G	rs31220	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	28	70	0	0.622222	0	A|0.813;G|0.187	0.187	strong	.	FAM71B	145	.	NM_130899	exon2	c.T921C	p.G307G	CACTTGACCTGGG	.	PASS	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	37	1	16356289	16356289	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	241	7	191	0	0.0290456	0	.	.	none	CLCNKA,NS,lymphoid_neoplasm,0,1	CLCNKA	56	1	NM_004070	exon13	c.A1291G	p.I431V	ATCTTTATCCTTG	.	scavenged	Atlas-SNP
PIGT	51604	hgsc.bcm.edu	37	20	44054349	44054349	+	Silent	SNP	T	T	C	rs707577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	76	112	0	0.987013	0	T|0.259;C|0.741	0.741	strong	PIGT_ENST00000279036,NS,carcinoma,0,2	PIGT	85	2	NM_015937	exon12	c.T1620C	p.Y540Y	GTGCTATGGCTCC	.	PASS	Atlas-SNP
KRT6A	3853	hgsc.bcm.edu	37	12	52886490	52886490	+	Silent	SNP	A	A	G	rs711317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	278	138	271	1	0.496403	0.00369004	A|0.452;G|0.547	0.547	strong	KRT6A,NS,carcinoma,0,1	KRT6A	89	1	NM_005554	exon1	c.T483C	p.A161A	CTCCTCAGCCCGC	.	PASS	Atlas-SNP
P2RY12	64805	hgsc.bcm.edu	37	3	151056616	151056616	+	Silent	SNP	G	G	A	rs6785930	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	89	79	0	0.978022	0	G|0.736;A|0.264	0.264	strong	P2RY12,NS,malignant_melanoma,-1,1	P2RY12	36	1	NM_022788	exon3	c.C18T	p.N6N	GGTGAGGTTGTCG	.	PASS	Atlas-SNP
WASF3	10810	hgsc.bcm.edu	37	13	27250823	27250823	+	Silent	SNP	T	T	C	rs3764108	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	60	0	1	0	T|0.660;C|0.340	0.340	strong	.	WASF3	68	.	NM_006646	exon7	c.T678C	p.H226H	GTACCATGGAGCG	.	PASS	Atlas-SNP
OR6B2	389090	hgsc.bcm.edu	37	2	240969312	240969312	+	Missense_Mutation	SNP	A	A	G	rs61730690	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	208	276	0	0.83871	0	A|0.703;G|0.297	0.297	strong	.	OR6B2	30	.	NM_001005853	exon1	c.T535C	p.C179R	TGTCACAGAAGAA	.	PASS	Atlas-SNP
SIPA1L3	23094	hgsc.bcm.edu	37	19	38610504	38610504	+	Silent	SNP	G	G	A	rs59185302	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	15	16	0	0.535714	0	G|0.866;A|0.134	0.134	strong	.	SIPA1L3	150	.	NM_015073	exon9	c.G2850A	p.E950E	AAGGGAGATAGTG	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76922946	76922946	+	Silent	SNP	G	G	A	rs11237123	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	22	69	0	0.305556	0	G|0.785;A|0.215	0.215	strong	.	MYO7A	164	.	NM_000260	exon46	c.G6318A	p.K2106K	CTTCAAGTGGCCC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187510280	187510280	+	Silent	SNP	G	G	A	rs3775307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	42	73	0	0.512195	0	G|0.920;A|0.080	0.080	strong	.	FAT1	500	.	NM_005245	exon27	c.C13233T	p.P4411P	GTACAGGGGTGTC	.	PASS	Atlas-SNP
PADI3	51702	hgsc.bcm.edu	37	1	17597655	17597655	+	Silent	SNP	C	C	T	rs2293916	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	56	95	0	0.451613	0	C|0.923;T|0.077	0.077	strong	.	PADI3	81	.	NM_016233	exon9	c.C1029T	p.R343R	GAACCGCAACGAC	.	PASS	Atlas-SNP
TNFSF13B	10673	hgsc.bcm.edu	37	13	108955609	108955609	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	11	74	0	0.23913	0	.	.	none	.	TNFSF13B	25	.	NM_006573	exon4	c.A490G	p.T164A	TCTTACACATTTG	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155241572	155241572	+	Missense_Mutation	SNP	G	G	A	rs11935573	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	144	158	1	0.993103	0.00632911	G|0.746;A|0.254	0.254	strong	DCHS2,NS,carcinoma,0,2	DCHS2	594	2	NM_017639	exon14	c.C3614T	p.S1205L	TTTCCTGAGAGGA	.	PASS	Atlas-SNP
MPHOSPH10	10199	hgsc.bcm.edu	37	2	71360144	71360144	+	Missense_Mutation	SNP	A	A	C	rs10199088	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	71	115	0	0.461039	0	A|0.666;C|0.334	0.334	strong	.	MPHOSPH10	81	.	NM_005791	exon2	c.A206C	p.E69A	TGATAGAAAATTT	.	PASS	Atlas-SNP
MTMR6	9107	hgsc.bcm.edu	37	13	25831883	25831883	+	Silent	SNP	G	G	A	rs9511729	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	19	34	0	0.678571	0	G|0.991;A|0.009	0.009	strong	.	MTMR6	75	.	NM_004685	exon8	c.C960T	p.F320F	GGCCAAGAAGATT	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51771044	51771044	+	Silent	SNP	G	G	A	rs140065359	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	20	7	36	0	0.35	0	G|0.996;A|0.004	0.004	strong	PKHD1_ENST00000340994,NS,carcinoma,0,2	PKHD1	927	2	NM_170724	exon41	c.C6777T	p.F2259F	ATTGTAGAATACA	.	PASS	Atlas-SNP
DACT1	51339	hgsc.bcm.edu	37	14	59105188	59105188	+	Silent	SNP	C	C	T	rs2003021	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	15	8	0	1	0	C|0.454;T|0.546	0.546	strong	.	DACT1	119	.	NM_016651	exon1	c.C268T	p.L90L	GAGCTACTGGGGG	.	PASS	Atlas-SNP
COPG1	22820	hgsc.bcm.edu	37	3	128976451	128976451	+	Missense_Mutation	SNP	C	C	G	rs62266876	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	55	96	0	0.361842	0	C|0.924;G|0.076	0.076	strong	.	.	.	.	NM_016128	exon9	c.C718G	p.L240V	AAGCAGCTGGAAG	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201060865	201060865	+	Silent	SNP	G	G	A	rs2296383	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	164	135	0	1	0	G|0.684;A|0.316	0.316	strong	.	CACNA1S	249	.	NM_000069	exon5	c.C597T	p.I199I	CAGGGCGATGTGA	.	PASS	Atlas-SNP
GNAS	2778	hgsc.bcm.edu	37	20	57478807	57478807	+	Silent	SNP	C	C	T	rs7121	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	94	194	0	0.449761	0	C|0.395;T|0.605	0.605	strong	.	GNAS	867	.	NM_080425	exon5	c.C2322T	p.I774I	CTACATCCTGAGT	.	PASS	Atlas-SNP
HADHB	3032	hgsc.bcm.edu	37	2	26502875	26502875	+	Silent	SNP	T	T	C	rs1056389	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	88	212	1	0.475676	0.00471698	T|0.834;C|0.166	0.166	strong	.	HADHB	50	.	NM_000183	exon10	c.T825C	p.V275V	TACAGTTACCAAA	.	PASS	Atlas-SNP
MFSD6L	162387	hgsc.bcm.edu	37	17	8701799	8701799	+	Missense_Mutation	SNP	G	G	T	rs17854013	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	34	59	0	0.566667	0	G|0.783;T|0.217	0.217	strong	.	MFSD6L	46	.	NM_152599	exon1	c.C640A	p.P214T	CCCCAGGAAGCAA	.	PASS	Atlas-SNP
TBC1D2	55357	hgsc.bcm.edu	37	9	100995758	100995758	+	Missense_Mutation	SNP	G	G	T	rs879368	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	33	68	0	0.485294	0	G|0.769;T|0.231	0.231	strong	.	TBC1D2	70	.	NM_001267571	exon4	c.C721A	p.P241T	TCTGTGGAGAATC	.	PASS	Atlas-SNP
RSBN1	54665	hgsc.bcm.edu	37	1	114354942	114354942	+	Silent	SNP	T	T	G	rs3789604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	7	18	1	0.388889	0.0555556	T|0.851;G|0.149	0.149	strong	RSBN1,rectum,carcinoma,0,2	RSBN1	71	2	NM_018364	exon1	c.A93C	p.R31R	CGCGCATCGCGCA	.	scavenged	Atlas-SNP
ZNF718	255403	hgsc.bcm.edu	37	4	155411	155411	+	Silent	SNP	A	A	T	rs142742436	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	9	28	0	0.428571	0	A|0.992;T|0.008	0.008	strong	.	.	.	.	NM_001039127	exon4	c.A936T	p.S312S	CTTCTCATGCGAA	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5347749	5347749	+	Silent	SNP	G	G	A	rs9639976	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	116	59	0	0.725	0	G|0.833;A|0.167	0.167	strong	.	TNRC18	311	.	NM_001080495	exon30	c.C8895T	p.P2965P	GAGCACGGGCACG	.	PASS	Atlas-SNP
GRID2IP	392862	hgsc.bcm.edu	37	7	6547902	6547902	+	Missense_Mutation	SNP	G	G	A	rs112305062	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	128	71	0	0.739884	0	G|0.908;A|0.092	0.092	strong	.	GRID2IP	82	.	NM_001145118	exon13	c.C2258T	p.P753L	CTGAGCGGGGGTG	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4512669	4512669	+	Missense_Mutation	SNP	T	T	C	rs55901236	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	60	60	0	0.465116	0	T|0.494;C|0.506	0.506	strong	.	PLIN4	191	.	NM_001080400	exon3	c.A1261G	p.T421A	AGACGGTGTCCTT	.	PASS	Atlas-SNP
DGKG	1608	hgsc.bcm.edu	37	3	186006618	186006618	+	Missense_Mutation	SNP	G	G	C	rs1004588	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	141	84	0	1	0	G|0.460;C|0.540	0.540	strong	.	DGKG	98	.	NM_001346	exon6	c.C425G	p.T142S	AGGGGGGTCGCAG	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21011346	21011346	+	Silent	SNP	A	A	G	rs12028811	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	76	150	1	0.431818	0.00666667	A|0.831;G|0.169	0.169	strong	KIF17,caecum,carcinoma,-1,1	KIF17	130	1	NM_001122819	exon10	c.T2187C	p.T729T	GTCATCAGTCAGC	.	scavenged	Atlas-SNP
KANK4	163782	hgsc.bcm.edu	37	1	62740264	62740264	+	Missense_Mutation	SNP	T	T	C	rs41309173	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	16	47	0	0.516129	0	T|0.978;C|0.022	0.022	strong	.	KANK4	135	.	NM_181712	exon3	c.A512G	p.H171R	CTGCTGTGCAGCA	.	PASS	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7435721	7435721	+	Missense_Mutation	SNP	C	C	T	rs6850206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	34	39	0	0.666667	0	C|0.871;T|0.129	0.129	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.G886A	p.V296M	TGCACACCTCACA	.	PASS	Atlas-SNP
UBQLN3	50613	hgsc.bcm.edu	37	11	5529152	5529152	+	Missense_Mutation	SNP	A	A	G	rs2234455	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	36	87	0	0.439024	0	A|0.867;G|0.133	0.133	strong	UBQLN3,NS,carcinoma,+1,1	UBQLN3	107	1	NM_017481	exon2	c.T1637C	p.M546T	CAAGGCATGAACC	.	PASS	Atlas-SNP
TMEM92	162461	hgsc.bcm.edu	37	17	48356260	48356260	+	Missense_Mutation	SNP	G	G	C	rs6504642	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	26	52	0	0.448276	0	A|0.014;C|0.601;G|0.385	0.601	strong	.	TMEM92	13	.	NM_153229	exon4	c.G269C	p.S90T	CAGACAGCCCAGT	.	PASS	Atlas-SNP
IP6K3	117283	hgsc.bcm.edu	37	6	33703089	33703089	+	Silent	SNP	C	C	T	rs623813	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	31	77	0	0.43662	0	C|0.889;T|0.111	0.111	strong	.	IP6K3	52	.	NM_001142883	exon3	c.G165A	p.P55P	GGCCAGCGGCAGG	.	PASS	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37603744	37603744	+	Silent	SNP	C	C	T	rs86583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	39	78	0	0.40625	0	C|0.664;T|0.336	0.336	strong	SSTR3,NS,carcinoma,-1,1	SSTR3	42	1	NM_001051	exon2	c.G99A	p.A33A	TGGGCCCGCCGAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506990	195506990	+	Missense_Mutation	SNP	C	C	G	rs200783894	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	12	42	3	0.148148	0.0714286	C|0.746;G|0.253	0.253	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G11461C	p.D3821H	TGGTGTCACCTGT	.	scavenged	Atlas-SNP
PCDHA5	56143	hgsc.bcm.edu	37	5	140203463	140203463	+	Silent	SNP	C	C	A	rs142924665	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	76	154	0	0.477987	0	C|0.997;A|0.003	0.003	strong	.	PCDHA5	361	.	NM_018908	exon1	c.C2103A	p.I701I	GATCATCGCCATC	.	PASS	Atlas-SNP
UBAP2	55833	hgsc.bcm.edu	37	9	33941759	33941759	+	Missense_Mutation	SNP	T	T	C	rs307658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	170	169	152	0	0.994118	0	T|0.617;C|0.383	0.383	strong	UBAP2,NS,carcinoma,0,1	UBAP2	82	1	NM_018449	exon16	c.A1817G	p.N606S	GCAGAATTCAGTG	.	PASS	Atlas-SNP
CEP55	55165	hgsc.bcm.edu	37	10	95259979	95259979	+	Missense_Mutation	SNP	C	C	G	rs3740370	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	23	54	0	0.38983	0	C|0.756;G|0.244	0.244	strong	.	CEP55	35	.	NM_018131	exon2	c.C171G	p.H57Q	GAGACACAGACTT	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43804229	43804229	+	Silent	SNP	T	T	C	rs13021894	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	102	122	0	1	0	T|0.636;C|0.364	0.364	strong	.	THADA	131	.	NM_001083953	exon10	c.A969G	p.G323G	CATGCTTCCGTTC	.	PASS	Atlas-SNP
USP6NL	9712	hgsc.bcm.edu	37	10	11505175	11505175	+	Silent	SNP	A	A	G	rs3740204	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	14	21	0	0.482759	0	A|0.502;G|0.498	0.498	strong	.	USP6NL	57	.	NM_001080491	exon14	c.T1803C	p.P601P	CGGGCTAGGAGGG	.	PASS	Atlas-SNP
LPCAT1	79888	hgsc.bcm.edu	37	5	1467004	1467004	+	Missense_Mutation	SNP	A	A	G	rs35452723	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	21	59	0	0.328125	0	A|0.815;G|0.185;T|0.000	0.185	strong	.	LPCAT1	70	.	NM_024830	exon13	c.T1280C	p.M427T	CCGTACATCTGCA	.	PASS	Atlas-SNP
FPR1	2357	hgsc.bcm.edu	37	19	52249947	52249947	+	Missense_Mutation	SNP	C	C	G	rs2070745	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	35	106	0	0.448718	0	C|0.644;G|0.356	0.356	strong	FPR1,colon,carcinoma,0,2	FPR1	64	2	NM_001193306	exon3	c.G301C	p.V101L	TAAAGACGAATTT	.	PASS	Atlas-SNP
EIF5B	9669	hgsc.bcm.edu	37	2	99978048	99978048	+	Silent	SNP	G	G	A	rs12233086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	77	209	0	0.445087	0	G|0.842;A|0.158	0.158	strong	.	EIF5B	95	.	NM_015904	exon4	c.G684A	p.V228V	GACAGTGGCCCAA	.	PASS	Atlas-SNP
DAAM1	23002	hgsc.bcm.edu	37	14	59789727	59789727	+	Silent	SNP	G	G	A	rs8022614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	54	121	0	0.446281	0	G|0.684;A|0.316	0.316	strong	.	DAAM1	95	.	NM_001270520	exon6	c.G558A	p.K186K	TATAAAGGCGTTA	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140994407	140994407	+	Missense_Mutation	SNP	C	C	G	rs62611965	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	100	115	0	0.917431	0	C|0.933;G|0.067	0.067	strong	.	MAGEC1	317	.	NM_005462	exon4	c.C1217G	p.S406C	CCCAGTCTCCTCT	.	PASS	Atlas-SNP
TRAF3IP1	26146	hgsc.bcm.edu	37	2	239253224	239253224	+	Missense_Mutation	SNP	A	A	T	rs58277463	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	26	69	0	0.42623	0	A|0.882;T|0.118	0.118	strong	.	TRAF3IP1	58	.	NM_015650	exon9	c.A1246T	p.T416S	AACCCCACAGAGA	.	PASS	Atlas-SNP
CSNK2B	1460	hgsc.bcm.edu	37	6	31635710	31635710	+	Silent	SNP	T	T	C	rs14365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	35	60	0	0.486111	0	T|0.720;C|0.280	0.280	strong	.	CSNK2B	15	.	NM_001320	exon3	c.T138C	p.Y46Y	TCACTATCGACAA	.	PASS	Atlas-SNP
DHRS4	10901	hgsc.bcm.edu	37	14	24424367	24424367	+	Silent	SNP	G	G	A	rs12147221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	245	115	145	0	0.469388	0	G|0.796;A|0.204	0.204	strong	.	DHRS4	22	.	NM_021004	exon2	c.G252A	p.T84T	CGTGACGGGCACC	.	PASS	Atlas-SNP
GSX1	219409	hgsc.bcm.edu	37	13	28367061	28367061	+	Silent	SNP	A	A	G	rs1231058	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	10	0	0	1	.	A|0.104;G|0.896	0.896	strong	.	GSX1	20	.	NM_145657	exon1	c.A234G	p.L78L	GCCTCTACTCAAG	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88502482	88502482	+	Silent	SNP	C	C	T	rs3812953	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	61	70	0	1	0	C|0.551;T|0.449	0.449	strong	ZNF469,NS,carcinoma,0,1	ZNF469	121	1	NM_001127464	exon2	c.C8520T	p.R2840R	CGGTCGCTTGACT	.	PASS	Atlas-SNP
MGAT5B	146664	hgsc.bcm.edu	37	17	74944151	74944151	+	Silent	SNP	C	C	T	rs71384132	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	15	46	0	0.306122	0	C|0.913;T|0.087	0.087	strong	.	MGAT5B	98	.	NM_198955	exon15	c.C2190T	p.S730S	GAACAGCCAGGAC	.	PASS	Atlas-SNP
LRRC33	375387	hgsc.bcm.edu	37	3	196388099	196388099	+	Missense_Mutation	SNP	G	G	C	rs62623661	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	233	70	187	1	0.300429	0.00534759	G|0.915;C|0.085	0.085	strong	LRRC33,colon,carcinoma,-1,2	LRRC33	91	2	NM_198565	exon3	c.G1585C	p.A529P	TTTATGGCGTTGG	.	scavenged	Atlas-SNP
ARHGAP28	79822	hgsc.bcm.edu	37	18	6889973	6889973	+	Silent	SNP	A	A	G	rs4239328	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	51	76	0	0.542553	0	A|0.424;G|0.576	0.576	strong	.	ARHGAP28	181	.	NM_001010000	exon12	c.A1146G	p.P382P	GGCACCAAACCTT	.	PASS	Atlas-SNP
IGF2R	3482	hgsc.bcm.edu	37	6	160464289	160464289	+	Silent	SNP	G	G	A	rs894817	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	38	69	0	0.655172	0	G|0.650;A|0.350	0.350	strong	.	IGF2R	251	.	NM_000876	exon12	c.G1590A	p.G530G	ACGAGGGTGTCCC	.	PASS	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52193088	52193088	+	Missense_Mutation	SNP	C	C	T	rs6063966	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	85	93	2	0.977012	0.0215054	C|0.859;T|0.141	0.141	strong	ZNF217,NS,carcinoma,0,1	ZNF217	227	1	NM_006526	exon3	c.G2215A	p.V739I	TATGAACGTCAGG	.	scavenged	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72349040	72349040	+	Silent	SNP	C	C	T	rs9897137	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	27	54	0	0.519231	0	C|0.737;T|0.263	0.263	strong	.	KIF19	102	.	NM_153209	exon15	c.C2061T	p.S687S	ATTGAGCTCTGAT	.	PASS	Atlas-SNP
PKP3	11187	hgsc.bcm.edu	37	11	404317	404317	+	Silent	SNP	C	C	T	rs1134578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	43	69	0	0.518072	0	C|0.528;T|0.472	0.472	strong	.	PKP3	36	.	NM_007183	exon12	c.C2352T	p.F784F	TGACTTCCGGGCG	.	PASS	Atlas-SNP
TNIP1	10318	hgsc.bcm.edu	37	5	150410219	150410219	+	Missense_Mutation	SNP	C	C	A	rs2233311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	40	22	49	0	0.55	0	G|0.000;C|0.890;A|0.109	0.109	strong	.	TNIP1	51	.	NM_001252393	exon18	c.G1892T	p.R631I	GGCAATCTGAGAT	.	PASS	Atlas-SNP
PAPLN	89932	hgsc.bcm.edu	37	14	73735366	73735366	+	Missense_Mutation	SNP	C	C	T	rs4903104	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	31	55	0	0.449275	0	C|0.871;T|0.129	0.129	strong	.	PAPLN	180	.	NM_173462	exon25	c.C3521T	p.T1174M	CCTACACGTGCAG	.	PASS	Atlas-SNP
SLFN14	342618	hgsc.bcm.edu	37	17	33876083	33876083	+	Silent	SNP	G	G	A	rs1001441	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	53	107	0	0.576087	0	G|0.790;A|0.210	0.210	strong	.	SLFN14	43	.	NM_001129820	exon4	c.C1914T	p.T638T	GCAGGTGGTTTGT	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1256127	1256127	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	12	54	0	0.244898	0	.	.	none	.	CACNA1H	317	.	NM_021098	exon12	c.C2627T	p.A876V	GGCAGGCGGACGG	.	PASS	Atlas-SNP
ADRB2	154	hgsc.bcm.edu	37	5	148207447	148207447	+	Silent	SNP	G	G	C	rs1042719	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	34	74	0	0.485714	0	G|0.668;C|0.332	0.332	strong	.	ADRB2	42	.	NM_000024	exon1	c.G1053C	p.G351G	CTATGGGAATGGC	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177905469	177905469	+	Missense_Mutation	SNP	C	C	A	rs7522194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	92	202	0	0.37247	0	C|0.807;A|0.193	0.193	strong	.	SEC16B	92	.	NM_033127	exon20	c.G2535T	p.Q845H	AGGAGGCTGGGAA	.	PASS	Atlas-SNP
OR51B2	79345	hgsc.bcm.edu	37	11	5345128	5345128	+	Missense_Mutation	SNP	G	G	A	rs10837814	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	29	95	0	0.386667	0	G|0.512;A|0.488	0.488	strong	.	OR51B2	69	.	NM_033180	exon1	c.C400T	p.L134F	TGGTGAGAATGGA	.	PASS	Atlas-SNP
HHAT	55733	hgsc.bcm.edu	37	1	210577831	210577831	+	Silent	SNP	C	C	T	rs34772809	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	35	66	0	0.448718	0	C|0.875;T|0.125	0.125	strong	.	HHAT	66	.	NM_001170587	exon5	c.C495T	p.N165N	AGAAAACGAGTAC	.	PASS	Atlas-SNP
MEGF10	84466	hgsc.bcm.edu	37	5	126792974	126792974	+	Silent	SNP	T	T	A	rs3812052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	45	0	0.471698	0	T|0.531;A|0.469	0.469	strong	.	MEGF10	152	.	NM_032446	exon26	c.T3387A	p.G1129G	CAGTGGTGGTAGC	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78319963	78319963	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	2	110	0	0.0140845	0	.	.	none	RNF213_ENST00000411702,NS,carcinoma,-2,2	RNF213	766	2	NM_001256071	exon29	c.A7828G	p.N2610D	GATGAAAACGGGA	.	scavenged	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33568687	33568687	+	Silent	SNP	T	T	A	rs7032174	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	48	57	0	1	0	T|0.868;A|0.132	0.132	strong	.	ANKRD18B	46	.	NM_001244752	exon15	c.T2784A	p.A928A	AATAGCTGTGATC	.	PASS	Atlas-SNP
DFNB31	25861	hgsc.bcm.edu	37	9	117166246	117166246	+	Missense_Mutation	SNP	A	A	G	rs2274159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	21	47	0	0.42	0	A|0.575;G|0.425	0.425	strong	.	DFNB31	100	.	NM_015404	exon10	c.T2348C	p.V783A	GTGGACACCGACT	.	PASS	Atlas-SNP
MON2	23041	hgsc.bcm.edu	37	12	62959137	62959137	+	Missense_Mutation	SNP	A	A	G	rs11174549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	24	66	0	0.461538	0	A|0.924;G|0.076	0.076	strong	.	MON2	160	.	NM_015026	exon27	c.A4153G	p.I1385V	AAGCACATTGCAA	.	PASS	Atlas-SNP
LAMA4	3910	hgsc.bcm.edu	37	6	112480041	112480041	+	Silent	SNP	A	A	G	rs3752577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	78	167	0	0.52349	0	A|0.915;G|0.085	0.085	strong	.	LAMA4	227	.	NM_001105206	exon14	c.T1710C	p.S570S	TAGTTCACTTTTG	.	PASS	Atlas-SNP
PRTG	283659	hgsc.bcm.edu	37	15	55912875	55912875	+	Missense_Mutation	SNP	T	T	A	rs1438914	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	63	103	0	0.488372	0	T|0.504;A|0.496	0.496	strong	.	PRTG	110	.	NM_173814	exon19	c.A3184T	p.I1062L	CTTGTATCTTCTT	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5396866	5396866	+	Missense_Mutation	SNP	C	C	G	rs200950320	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	47	65	0	0.379032	0	.	.	weak	.	TNRC18	311	.	NM_001080495	exon16	c.G4875C	p.Q1625H	TGCCAACTGCTCC	.	PASS	Atlas-SNP
SNAP47	116841	hgsc.bcm.edu	37	1	227935444	227935444	+	Missense_Mutation	SNP	A	A	G	rs2236359	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	112	201	0	0.511416	0	A|0.578;G|0.422	0.422	strong	.	SNAP47	42	.	NM_053052	exon2	c.A142G	p.R48G	ATGAGCAGGGATG	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	215848935	215848935	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	3	114	0	0.0265487	0	.	.	none	USH2A,NS,carcinoma,-2,1	USH2A	1168	1	NM_206933	exon63	c.G12318A	p.G4106G	CAGGAACCCGTCA	.	scavenged	Atlas-SNP
ZNF385D	79750	hgsc.bcm.edu	37	3	21462787	21462787	+	Silent	SNP	G	G	A	rs427233	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	54	54	0	1	0	G|0.116;A|0.884	0.884	strong	.	ZNF385D	93	.	NM_024697	exon8	c.C1107T	p.S369S	AAGCGCGGAAGTC	.	PASS	Atlas-SNP
BST1	683	hgsc.bcm.edu	37	4	15713446	15713446	+	Silent	SNP	C	C	T	rs2302463	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	48	106	0	0.457143	0	C|0.946;T|0.054	0.054	strong	BST1,NS,carcinoma,0,1	BST1	30	1	NM_004334	exon4	c.C468T	p.S156S	CCAATCCTGCCCT	.	PASS	Atlas-SNP
SUPT5H	6829	hgsc.bcm.edu	37	19	39955533	39955533	+	Silent	SNP	G	G	A	rs2304217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	41	90	0	0.450549	0	G|0.846;A|0.154	0.154	strong	.	SUPT5H	119	.	NM_003169	exon10	c.G720A	p.E240E	CATTGAGGGGGTG	.	PASS	Atlas-SNP
TEX14	56155	hgsc.bcm.edu	37	17	56676368	56676368	+	Missense_Mutation	SNP	T	T	C	rs389389	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	80	158	0	0.544218	0	T|0.866;C|0.134	0.134	strong	.	TEX14	343	.	NM_001201457	exon14	c.A2356G	p.N786D	AGGCATTTGTAAA	.	PASS	Atlas-SNP
KIAA1549	57670	hgsc.bcm.edu	37	7	138603282	138603282	+	Missense_Mutation	SNP	T	T	C	rs59985563	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	27	76	0	0.415385	0	T|0.760;C|0.240	0.240	strong	KIAA1549_ENST00000422774,colon,carcinoma,0,3	KIAA1549	314	3	NM_020910	exon2	c.A1090G	p.T364A	GAGGAGTTGAAAG	.	PASS	Atlas-SNP
SURF6	6838	hgsc.bcm.edu	37	9	136199503	136199503	+	Missense_Mutation	SNP	G	G	A	rs886090	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	15	41	0	0.428571	0	G|0.745;A|0.255	0.255	strong	.	SURF6	32	.	NM_006753	exon4	c.C487T	p.R163W	TCGCCCGCAGCTC	.	PASS	Atlas-SNP
PLCE1	51196	hgsc.bcm.edu	37	10	96076495	96076495	+	Silent	SNP	C	C	G	rs942676	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	41	67	0	0.546667	0	C|0.924;G|0.076	0.076	strong	.	PLCE1	543	.	NM_016341	exon29	c.C6324G	p.V2108V	GATTGTCTTAAAA	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164773057	164773057	+	Silent	SNP	G	G	A	rs9290257	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	45	59	0	0.692308	0	G|0.403;A|0.597	0.597	strong	.	SI	500	.	NM_001041	exon13	c.C1437T	p.N479N	GTTTGGGTTAGTG	.	PASS	Atlas-SNP
SCEL	8796	hgsc.bcm.edu	37	13	78216915	78216915	+	Silent	SNP	C	C	T	rs2813739	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	46	70	0	0.528736	0	C|0.851;T|0.149	0.149	strong	.	SCEL	85	.	NM_144777	exon32	c.C2022T	p.H674H	AATACACTGTGAA	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124274474	124274474	+	Missense_Mutation	SNP	A	A	G	rs10846559	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	81	85	0	0.975904	0	A|0.235;G|0.765	0.765	strong	.	DNAH10	888	.	NM_207437	exon11	c.A1438G	p.I480V	GGACAGATTTTGG	.	PASS	Atlas-SNP
TEK	7010	hgsc.bcm.edu	37	9	27205021	27205021	+	Silent	SNP	G	G	A	rs542913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	59	155	0	0.41844	0	G|0.808;A|0.192	0.192	strong	.	TEK	250	.	NM_000459	exon14	c.G2322A	p.R774R	GAAGAGGGCAAAT	.	PASS	Atlas-SNP
SSC5D	284297	hgsc.bcm.edu	37	19	56029621	56029621	+	Silent	SNP	A	A	C	rs202012508	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	6	47	0	0.09375	0	.	.	weak	.	SSC5D	65	.	NM_001144950	exon14	c.A3978C	p.T1326T	CCCCACAACTCCT	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	37	3	58109162	58109162	+	Missense_Mutation	SNP	G	G	A	rs1131356	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	23	47	0	0.283951	0	G|0.596;A|0.404	0.404	strong	.	FLNB	430	.	NM_001457	exon21	c.G3469A	p.D1157N	AGCGTCGACTGCT	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76131644	76131644	+	Silent	SNP	C	C	T	rs141587206		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	5	107	0	0.037594	0	.	.	weak	DTX2,rectum,carcinoma,0,1	DTX2	64	1	NM_001102594	exon8	c.C1260T	p.S420S	GCTGTCCACAGCG	.	scavenged	Atlas-SNP
ZNF318	24149	hgsc.bcm.edu	37	6	43307861	43307861	+	Missense_Mutation	SNP	G	G	A	rs10948072	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	49	110	0	0.449541	0	G|0.847;A|0.153	0.153	strong	.	ZNF318	175	.	NM_014345	exon10	c.C3875T	p.T1292I	CTTGGGGTCACCA	.	PASS	Atlas-SNP
CCDC57	284001	hgsc.bcm.edu	37	17	80146154	80146154	+	Silent	SNP	G	G	C	rs201504809	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	23	50	0	0.418182	0	G|0.994;C|0.006	0.006	weak	.	CCDC57	102	.	NM_198082	exon7	c.C993G	p.L331L	CCTGCGGAGCTGC	.	PASS	Atlas-SNP
RFX4	5992	hgsc.bcm.edu	37	12	107090201	107090201	+	Silent	SNP	T	T	C	rs10778502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	38	77	0	0.447059	0	T|0.585;C|0.415	0.415	strong	.	RFX4	218	.	NM_001206691	exon8	c.T837C	p.T279T	GCCCACTGTGCTG	.	PASS	Atlas-SNP
COPZ1	22818	hgsc.bcm.edu	37	12	54734289	54734289	+	Missense_Mutation	SNP	A	A	G	rs11170877	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	40	102	0	0.434783	0	A|0.825;G|0.175	0.175	strong	.	COPZ1	10	.	NM_001271736	exon2	c.A1G	p.M1V	GTGGTGATGGGAG	.	PASS	Atlas-SNP
FAM101A	144347	hgsc.bcm.edu	37	12	124798801	124798801	+	Silent	SNP	C	C	T	rs12318072	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	72	117	1	0.541353	0.00854701	C|0.714;T|0.286	0.286	strong	FAM101A,NS,carcinoma,0,2	FAM101A	10	2	NM_181709	exon3	c.C138T	p.P46P	TGCGCCCGTACCC	.	scavenged	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117268	117268	+	Silent	SNP	C	C	T	rs144487093	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	12	30	0	0.48	0	C|0.973;T|0.027	0.027	strong	.	FOXD4	75	.	NM_207305	exon1	c.G852A	p.A284A	CAGGTCCGCGCCT	.	PASS	Atlas-SNP
MUC13	56667	hgsc.bcm.edu	37	3	124646837	124646837	+	Missense_Mutation	SNP	G	G	A	rs4679394	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	14	18	0	0.411765	0	G|0.895;A|0.105	0.105	strong	.	MUC13	57	.	NM_033049	exon2	c.C53T	p.A18V	TTGGTGGCTGGAG	.	PASS	Atlas-SNP
CLEC12B	387837	hgsc.bcm.edu	37	12	10163375	10163375	+	Missense_Mutation	SNP	C	C	A	rs1359082	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	24	64	0	0.45283	0	C|0.642;A|0.358	0.358	strong	.	CLEC12B	25	.	NM_001129998	exon1	c.C17A	p.T6N	AAGTGACCTACGC	.	PASS	Atlas-SNP
SRMS	6725	hgsc.bcm.edu	37	20	62173925	62173925	+	Silent	SNP	T	T	G	rs404613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	65	129	0	0.485075	0	T|0.680;G|0.320	0.320	strong	SRMS,NS,lymphoid_neoplasm,0,1	SRMS	48	1	NM_080823	exon4	c.A655C	p.R219R	CCTGCCTCGGGGC	.	PASS	Atlas-SNP
AMIGO2	347902	hgsc.bcm.edu	37	12	47471439	47471439	+	Silent	SNP	G	G	A	rs2269828	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	266	263	256	1	0.988722	0.00390625	G|0.750;A|0.250	0.250	strong	.	AMIGO2	50	.	NM_181847	exon2	c.C1347T	p.P449P	ACTAGCGGGGCCA	.	PASS	Atlas-SNP
PIGQ	9091	hgsc.bcm.edu	37	16	624713	624713	+	Silent	SNP	C	C	T	rs4984669	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	18	21	0	0.382979	0	C|0.521;T|0.479	0.479	strong	PIGQ,NS,carcinoma,0,1	PIGQ	43	1	NM_148920	exon2	c.C639T	p.C213C	CATTTGCCTGCTG	.	PASS	Atlas-SNP
ZNF302	55900	hgsc.bcm.edu	37	19	35175775	35175775	+	Missense_Mutation	SNP	C	C	T	rs11543232	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	31	62	0	0.516667	0	C|0.704;T|0.296	0.296	strong	.	ZNF302	27	.	NM_018443	exon5	c.C833T	p.T278I	AGAGCACTCACAC	.	PASS	Atlas-SNP
FAM172A	83989	hgsc.bcm.edu	37	5	93159971	93159971	+	Silent	SNP	T	T	C	rs141777861	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	66	162	0	0.515625	0	T|0.986;C|0.015	0.015	strong	.	FAM172A	38	.	NM_032042	exon8	c.A789G	p.E263E	ACCATTTTCCTAT	.	PASS	Atlas-SNP
PIGT	51604	hgsc.bcm.edu	37	20	44052992	44052992	+	Silent	SNP	G	G	A	rs13217	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	71	67	0	0.972603	0	G|0.654;A|0.346	0.346	strong	PIGT_ENST00000279036,caecum,carcinoma,0,3	PIGT	85	3	NM_015937	exon10	c.G1371A	p.T457T	GTACACGCCAGAT	.	PASS	Atlas-SNP
ANKS4B	257629	hgsc.bcm.edu	37	16	21261302	21261302	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	49	80	0	0.538462	0	.	.	none	.	ANKS4B	43	.	NM_145865	exon2	c.G415A	p.A139T	GAGCAGGCTCAGA	.	PASS	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43152573	43152573	+	Silent	SNP	A	A	G	rs9472022	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	12	24	0	0.461538	0	A|0.711;G|0.289	0.289	strong	.	CUL9	248	.	NM_015089	exon2	c.A525G	p.L175L	CATGTTATGCAAT	.	PASS	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91681784	91681784	+	Missense_Mutation	SNP	G	G	A	rs115874122	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	27	61	0	0.482143	0	G|0.998;A|0.002	0.002	strong	.	C14orf159	57	.	NM_001102368	exon13	c.G1600A	p.A534T	GCCTGCGCACTCT	.	PASS	Atlas-SNP
ALPP	250	hgsc.bcm.edu	37	2	233245982	233245982	+	Missense_Mutation	SNP	G	G	A	rs143205011	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	393	121	342	0	0.307888	0	G|0.999;A|0.001	0.001	strong	.	ALPP	53	.	NM_001632	exon10	c.G1214A	p.R405Q	AGGCCCGGGACAG	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9991163	9991163	+	Missense_Mutation	SNP	A	A	G	rs55847610	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	19	31	0	0.387755	0	A|0.673;G|0.327	0.327	strong	PRRT3,NS,carcinoma,0,1	PRRT3	35	1	NM_207351	exon2	c.T637C	p.S213P	AGTGGGAAACAAG	.	PASS	Atlas-SNP
ZNF543	125919	hgsc.bcm.edu	37	19	57840547	57840547	+	Missense_Mutation	SNP	A	A	G	rs10410649	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	41	76	0	0.532468	0	A|0.737;G|0.263	0.263	strong	.	ZNF543	61	.	NM_213598	exon4	c.A1717G	p.M573V	CCTTTTATGACTG	.	PASS	Atlas-SNP
SPACA3	124912	hgsc.bcm.edu	37	17	31323886	31323886	+	Silent	SNP	C	C	T	rs200596990	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	37	56	0	0.627119	0	C|0.998;T|0.002	0.002	strong	SPACA3,NS,carcinoma,+1,1	SPACA3	35	1	NM_173847	exon3	c.C369T	p.S123S	CACAAGCGGTTTC	.	PASS	Atlas-SNP
RORA	6095	hgsc.bcm.edu	37	15	60803741	60803741	+	Silent	SNP	C	C	T	rs61740274	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	80	161	0	0.571429	0	C|0.924;T|0.076	0.076	strong	.	RORA	114	.	NM_134260	exon6	c.G603A	p.Q201Q	GCGCTGCTGCTGC	.	PASS	Atlas-SNP
PRDM15	63977	hgsc.bcm.edu	37	21	43230669	43230669	+	Silent	SNP	C	C	T	rs146699277	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	19	41	0	0.365385	0	C|0.999;T|0.001	0.001	strong	.	PRDM15	110	.	NM_022115	exon28	c.G3591A	p.T1197T	GGAGCACGTCCAC	.	PASS	Atlas-SNP
CLPP	8192	hgsc.bcm.edu	37	19	6368688	6368688	+	Silent	SNP	G	G	A	rs112620134	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	26	58	0	0.472727	0	G|0.994;A|0.006	0.006	strong	.	CLPP	15	.	NM_006012	exon6	c.G801A	p.A267A	AGCAGCGCCGGCA	.	PASS	Atlas-SNP
KIAA1549L	25758	hgsc.bcm.edu	37	11	33581306	33581306	+	Silent	SNP	G	G	A	rs2281380	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	65	136	0	0.481481	0	G|0.613;A|0.387	0.387	strong	.	.	.	.	NM_012194	exon6	c.G2976A	p.T992T	GAGCACGTCCAAT	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56386118	56386118	+	Silent	SNP	A	A	G	rs2680689	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	46	69	2	0.469388	0.0289855	A|0.709;G|0.291	0.291	strong	BZRAP1_ENST00000355701,NS,carcinoma,0,4	BZRAP1	287	4	NM_004758	exon22	c.T4515C	p.D1505D	CTGCTCATCCTCC	.	scavenged	Atlas-SNP
CENPM	79019	hgsc.bcm.edu	37	22	42336172	42336172	+	Nonsense_Mutation	SNP	G	G	A	rs5758511	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	61	64	0	0.539823	0	G|0.752;A|0.248	0.248	strong	.	CENPM	8	.	NM_001110215	exon1	c.C7T	p.R3X	ACACTCGGCCCAT	.	PASS	Atlas-SNP
ADAM10	102	hgsc.bcm.edu	37	15	58957371	58957371	+	Missense_Mutation	SNP	C	C	G	rs61751103	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	33	74	0	0.445946	0	C|1.000;G|0.000	0.000	strong	.	ADAM10	59	.	NM_001110	exon5	c.G510C	p.Q170H	GCCCCCCTGAGGA	.	PASS	Atlas-SNP
OR2A5	393046	hgsc.bcm.edu	37	7	143748257	143748257	+	Missense_Mutation	SNP	G	G	A	rs6464574	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	41	110	0	0.372727	0	G|0.752;A|0.248	0.248	strong	OR2A5,NS,carcinoma,0,1	OR2A5	78	1	NM_012365	exon1	c.G763A	p.A255T	GGCAGCGCCATTG	.	PASS	Atlas-SNP
HS6ST1	9394	hgsc.bcm.edu	37	2	129075939	129075939	+	Nonsense_Mutation	SNP	T	T	A	rs202247387	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	31	61	0	0.492063	0	T|0.992;A|0.008	0.008	strong	HS6ST1,NS,carcinoma,0,1	HS6ST1	31	1	NM_004807	exon1	c.A199T	p.K67X	AGTACTTCTTCTC	.	scavenged	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085865	17085865	+	Missense_Mutation	SNP	A	A	G	rs1057378	by2hit2allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	15	164	5	0.0967742	0.0304878	A|1.000;|0.000	.	weak	Q13209_HUMAN,right_upper_lobe,carcinoma,0,8	.	.	8	NM_001271733	exon8	c.T956C	p.L319P	CCGTCGAGGTTCC	.	scavenged	Atlas-SNP
GXYLT1	283464	hgsc.bcm.edu	37	12	42481617	42481617	+	Missense_Mutation	SNP	G	G	C	rs75740340	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	3	72	1	0.0288462	0.0138889	G|0.998;C|0.002	0.002	weak	Q8IXV1_HUMAN,NS,carcinoma,+1,2	GXYLT1	47	2	NM_173601	exon8	c.C1294G	p.R432G	CATAACGATCTCT	.	scavenged	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156499969	156499969	+	Silent	SNP	T	T	C	rs1171566	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	90	72	0	0.978261	0	T|0.489;C|0.511	0.511	strong	IQGAP3,NS,carcinoma,0,1	IQGAP3	146	1	NM_178229	exon34	c.A4332G	p.L1444L	TCGGCGTAGGTTC	.	PASS	Atlas-SNP
SNX16	64089	hgsc.bcm.edu	37	8	82727569	82727569	+	Silent	SNP	T	T	C	rs16909651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	24	88	0	0.358209	0	T|0.855;C|0.145	0.145	strong	SNX16,caecum,carcinoma,0,1	SNX16	21	1	NM_152836	exon5	c.A672G	p.E224E	GCTTTCTTCTAGG	.	PASS	Atlas-SNP
ARHGEF19	128272	hgsc.bcm.edu	37	1	16535487	16535487	+	Missense_Mutation	SNP	G	G	C	rs143314517	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	35	62	0	0.486111	0	G|0.993;C|0.007	0.007	strong	.	ARHGEF19	49	.	NM_153213	exon2	c.C63G	p.H21Q	AGGGTGGTGGGCA	.	PASS	Atlas-SNP
CTDP1	9150	hgsc.bcm.edu	37	18	77478011	77478011	+	Silent	SNP	C	C	T	rs35456241	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	77	114	0	0.531034	0	C|0.967;T|0.033	0.033	strong	.	CTDP1	67	.	NM_004715	exon10	c.C2412T	p.S804S	CTCTTCCTTCAGG	.	PASS	Atlas-SNP
NES	10763	hgsc.bcm.edu	37	1	156640933	156640933	+	Missense_Mutation	SNP	C	C	T	rs2365718	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	40	75	0	0.434783	0	C|0.928;T|0.072	0.072	strong	.	NES	196	.	NM_006617	exon4	c.G3047A	p.S1016N	TCAGGGCTCTCTG	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998025	17998025	+	Missense_Mutation	SNP	A	A	T	rs34069439	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	57	68	0	0.919355	0	A|0.586;T|0.414	0.414	strong	.	MSGN1	39	.	NM_001105569	exon1	c.A240T	p.E80D	CAGCGAAGGCTGC	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37488689	37488689	+	Missense_Mutation	SNP	G	G	C	rs1209750	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	108	226	1	0.580645	0.00442478	A|0.002;C|0.510;G|0.489	0.510	strong	.	ANKRD30A	448	.	NM_052997	exon30	c.G2583C	p.K861N	AAAGAAGGTTGAA	.	PASS	Atlas-SNP
RPL5	6125	hgsc.bcm.edu	37	1	93303114	93303114	+	Missense_Mutation	SNP	A	A	G	rs11540832	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	27	41	0	0.574468	0	A|0.995;G|0.005	0.005	strong	.	RPL5	38	.	NM_000969	exon6	c.A629G	p.Y210C	TGCGCTACTTAAT	.	PASS	Atlas-SNP
C11orf83	790955	hgsc.bcm.edu	37	11	62439569	62439569	+	Missense_Mutation	SNP	G	G	A	rs13941	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	72	58	0	0.972973	0	G|0.263;A|0.737	0.737	strong	C11orf83,NS,carcinoma,0,2	C11orf83	13	2	NM_001085372	exon2	c.G265A	p.G89S	GGCGCCGGCGGGA	.	PASS	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	37	6	43020188	43020188	+	Silent	SNP	G	G	A	rs4711738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	41	68	0	0.66129	0	G|0.755;A|0.245	0.245	strong	.	CUL7	133	.	NM_001168370	exon2	c.C495T	p.D165D	CTTCACGTCGGTT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4577950	4577950	+	Silent	SNP	C	C	A	rs8081507	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	29	64	0	0.47541	0	C|0.939;A|0.061	0.061	strong	.	PELP1	102	.	NM_014389	exon13	c.G1437T	p.R479R	GCTCCCCCGCGGG	.	PASS	Atlas-SNP
ASPHD2	57168	hgsc.bcm.edu	37	22	26829914	26829914	+	Silent	SNP	T	T	C	rs3747128	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	32	34	0	0.551724	0	T|0.890;C|0.110	0.110	strong	.	ASPHD2	42	.	NM_020437	exon2	c.T333C	p.P111P	GTCCCCTGAGTGC	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55541226	55541226	+	Missense_Mutation	SNP	G	G	A	rs35084330	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	26	58	0	0.509804	0	G|0.969;A|0.031	0.031	strong	.	RP1	429	.	NM_006269	exon4	c.G4784A	p.R1595Q	ACTATCGGCCTGA	.	PASS	Atlas-SNP
PDLIM5	10611	hgsc.bcm.edu	37	4	95496882	95496882	+	Missense_Mutation	SNP	C	C	T	rs2452600	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	78	165	0	0.481481	0	C|0.737;T|0.263	0.263	strong	.	PDLIM5	76	.	NM_006457	exon5	c.C407T	p.S136F	CTGTGTCTTCACC	.	PASS	Atlas-SNP
P2RX7	5027	hgsc.bcm.edu	37	12	121615131	121615131	+	Missense_Mutation	SNP	C	C	G	rs2230911	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	60	127	0	0.472441	0	C|0.885;G|0.115	0.115	strong	.	P2RX7	53	.	NM_002562	exon11	c.C1070G	p.T357S	TCGACACTTACTC	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22847084	22847084	+	Missense_Mutation	SNP	G	G	T	rs71236901	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	205	68	231	0	0.331707	0	G|0.500;T|0.500	0.500	strong	ZNF492_ENST00000456783,NS,carcinoma,0,1	ZNF492	129	1	NM_020855	exon4	c.G613T	p.A205S	GGAAAAGCCTTTA	.	scavenged	Atlas-SNP
FLVCR1	28982	hgsc.bcm.edu	37	1	213031948	213031948	+	Missense_Mutation	SNP	G	G	C	rs11120047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	29	24	0	0.852941	0	G|0.542;C|0.458	0.458	strong	.	FLVCR1	31	.	NM_014053	exon1	c.G154C	p.A52P	AATGGGGCCCCCC	.	PASS	Atlas-SNP
ZNF486	90649	hgsc.bcm.edu	37	19	20308207	20308207	+	Missense_Mutation	SNP	A	A	T	rs148497901	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	27	25	0	0.75	0	A|0.986;T|0.014	0.014	strong	.	ZNF486	74	.	NM_052852	exon4	c.A688T	p.I230L	CATAAGATAACTC	.	PASS	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	37	2	215854156	215854156	+	Silent	SNP	C	C	T	rs71428357	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	46	96	0	0.46	0	C|0.925;T|0.075	0.075	strong	.	ABCA12	368	.	NM_173076	exon26	c.G3726A	p.P1242P	CTGAACCGGGGAG	.	PASS	Atlas-SNP
C22orf28	51493	hgsc.bcm.edu	37	22	32808078	32808078	+	Silent	SNP	G	G	A	rs11545749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	12	27	0	0.48	0	G|0.934;A|0.066	0.066	strong	.	C22orf28	43	.	NM_014306	exon1	c.C66T	p.I22I	CTTCTTGATCCTC	.	PASS	Atlas-SNP
SLFN5	162394	hgsc.bcm.edu	37	17	33592591	33592591	+	Missense_Mutation	SNP	C	C	T	rs11651240	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	41	108	0	0.5125	0	C|0.710;T|0.290	0.290	strong	.	SLFN5	92	.	NM_144975	exon5	c.C2360T	p.P787L	ATTCTCCGAAGGA	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79917864	79917864	+	Silent	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	3	145	1	0.0247934	0.00689655	.	.	none	VPS13A_ENST00000376634,NS,carcinoma,+2,3	VPS13A	735	3	NM_001018038	exon34	c.A3846G	p.V1282V	GGAAGTACTGGAT	.	scavenged	Atlas-SNP
BFSP1	631	hgsc.bcm.edu	37	20	17479617	17479617	+	Silent	SNP	G	G	A	rs11537702	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	81	156	0	0.509434	0	G|0.955;A|0.045	0.045	strong	.	BFSP1	55	.	NM_001195	exon6	c.C804T	p.N268N	CTGCTCGTTATAA	.	PASS	Atlas-SNP
OR1D5	8386	hgsc.bcm.edu	37	17	2966273	2966273	+	Missense_Mutation	SNP	G	G	A	rs61752195	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	285	74	198	0	0.259649	0	G|0.645;A|0.355	0.355	strong	.	OR1D5	33	.	NM_014566	exon1	c.C629T	p.P210L	CCTAAGGGGGTGA	.	PASS	Atlas-SNP
LRRC8B	23507	hgsc.bcm.edu	37	1	90048248	90048248	+	Silent	SNP	C	C	T	rs12130207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	65	155	2	0.532787	0.0129032	C|0.814;T|0.186	0.186	strong	LRRC8B,NS,neuroblastoma,+2,1	LRRC8B	49	1	NM_015350	exon5	c.C39T	p.A13A	AGATGCCCAGTCA	.	scavenged	Atlas-SNP
NBEAL1	65065	hgsc.bcm.edu	37	2	204073435	204073435	+	Missense_Mutation	SNP	G	G	A	rs182855092	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	52	113	0	0.45614	0	G|0.995;A|0.005	0.005	strong	NBEAL1_ENST00000449802,NS,carcinoma,0,2	NBEAL1	266	2	NM_001114132	exon51	c.G7495A	p.G2499S	AGTGTCGGCATCA	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46909426	46909426	+	Silent	SNP	G	G	A	rs61731167	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	62	89	0	0.568807	0	G|0.956;A|0.044	0.044	strong	.	COL18A1	129	.	NM_030582	exon18	c.G2490A	p.P830P	GCTGCCGGGGGCG	.	PASS	Atlas-SNP
UCP1	7350	hgsc.bcm.edu	37	4	141489068	141489068	+	Missense_Mutation	SNP	C	C	T	rs45539933	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	49	111	0	0.538462	0	C|0.920;T|0.080	0.080	strong	UCP1,NS,carcinoma,0,1	UCP1	33	1	NM_021833	exon2	c.G190A	p.A64T	CCACAGCGGTGAT	.	PASS	Atlas-SNP
NEU4	129807	hgsc.bcm.edu	37	2	242757820	242757820	+	Missense_Mutation	SNP	G	G	A	rs11545301	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	42	44	0	0.482759	0	G|0.725;A|0.275	0.275	strong	.	NEU4	39	.	NM_001167599	exon4	c.G940A	p.G314R	GGCCCCGGGAGTC	.	PASS	Atlas-SNP
POM121	9883	hgsc.bcm.edu	37	7	72413243	72413243	+	Missense_Mutation	SNP	A	A	C	rs437678	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	5	344	0	0.0201613	0	A|0.500;C|0.500	0.500	strong	POM121_ENST00000395270,NS,carcinoma,0,6	POM121	131	6	NM_172020	exon11	c.A1916C	p.H639P	CCCTGCACACTGC	.	scavenged	Atlas-SNP
LRRTM1	347730	hgsc.bcm.edu	37	2	80530062	80530062	+	Missense_Mutation	SNP	T	T	C	rs76300062	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	86	196	1	0.530864	0.00510204	T|0.979;C|0.021	0.021	strong	.	LRRTM1	251	.	NM_178839	exon2	c.A883G	p.I295V	GCTCGATGTAGGT	.	PASS	Atlas-SNP
PSCA	8000	hgsc.bcm.edu	37	8	143763490	143763490	+	Silent	SNP	T	T	C	rs2978982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	35	63	0	0.514706	0	T|0.576;C|0.424	0.424	strong	.	PSCA	9	.	NM_005672	exon3	c.T285C	p.A95A	GGCTGCTGCCATC	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95912388	95912388	+	Missense_Mutation	SNP	G	G	A	rs61749972	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	51	66	0	0.980769	0	G|0.929;A|0.071	0.071	strong	.	SYNE3	130	.	NM_152592	exon8	c.C1490T	p.T497M	AGCATCGTCAGCA	.	PASS	Atlas-SNP
FNDC3A	22862	hgsc.bcm.edu	37	13	49776080	49776080	+	Silent	SNP	A	A	G	rs9316430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	64	136	0	0.496124	0	A|0.949;G|0.051	0.051	strong	.	FNDC3A	93	.	NM_001079673	exon24	c.A3132G	p.K1044K	TCCAAAATCTGTC	.	PASS	Atlas-SNP
INMT	11185	hgsc.bcm.edu	37	7	30795288	30795288	+	Missense_Mutation	SNP	A	A	G	rs2302339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	63	72	0	0.7	0	A|0.750;G|0.250	0.250	strong	INMT,brain,glioma,0,1	INMT	38	1	NM_006774	exon3	c.A613G	p.M205V	TCCTACATGGTGG	.	PASS	Atlas-SNP
SLC2A4	6517	hgsc.bcm.edu	37	17	7188459	7188459	+	Missense_Mutation	SNP	C	C	T	rs8192702	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	31	36	0	0.54386	0	C|0.996;T|0.004	0.004	strong	.	SLC2A4	44	.	NM_001042	exon9	c.C1073T	p.A358V	GCCTGGCGGGCAT	.	PASS	Atlas-SNP
NUP54	53371	hgsc.bcm.edu	37	4	77057501	77057501	+	Silent	SNP	A	A	G	rs11558468	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	55	124	0	0.561224	0	A|0.865;G|0.135	0.135	strong	.	NUP54	48	.	NM_017426	exon4	c.T360C	p.T120T	ACTCGCAGTATTT	.	PASS	Atlas-SNP
TFCP2L1	29842	hgsc.bcm.edu	37	2	121981950	121981950	+	Silent	SNP	A	A	G	rs11890430	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	32	70	0	0.492308	0	A|0.666;G|0.334	0.334	strong	TFCP2L1,NS,carcinoma,0,1	TFCP2L1	54	1	NM_014553	exon15	c.T1407C	p.D469D	GTAGCCATCATTG	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50407502	50407502	+	Missense_Mutation	SNP	A	A	C	rs6126344	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	20	37	0	0.512821	0	A|0.697;C|0.303	0.303	strong	.	SALL4	168	.	NM_020436	exon2	c.T1520G	p.L507R	GGCTGCAGGTCAC	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122372176	122372176	+	Silent	SNP	C	C	T	rs78614343	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	37	50	0	1	0	C|0.951;T|0.049	0.049	strong	WDR66,caecum,carcinoma,0,1	WDR66	143	1	NM_001178003	exon5	c.C912T	p.C304C	CTCCTGCCTCTGC	.	PASS	Atlas-SNP
STIL	6491	hgsc.bcm.edu	37	1	47746678	47746678	+	Silent	SNP	G	G	C	rs10789505	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	69	183	0	0.428571	0	G|0.817;C|0.183	0.183	strong	.	STIL	91	.	NM_003035	exon12	c.C1452G	p.S484S	TCTCAAGGAAGGC	.	PASS	Atlas-SNP
SCARF1	8578	hgsc.bcm.edu	37	17	1538669	1538669	+	Missense_Mutation	SNP	C	C	T	rs36108564	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	32	63	0	0.450704	0	C|0.913;T|0.087	0.087	strong	.	SCARF1	46	.	NM_003693	exon11	c.G1876A	p.G626S	CAGGACCCGACTG	.	PASS	Atlas-SNP
FILIP1L	11259	hgsc.bcm.edu	37	3	99643176	99643176	+	Missense_Mutation	SNP	C	C	T	rs793440	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	328	327	283	0	0.996951	0	C|0.763;T|0.237	0.237	strong	.	FILIP1L	154	.	NM_182909	exon4	c.G503A	p.R168H	TGCCTACGGGATT	.	PASS	Atlas-SNP
PLD4	122618	hgsc.bcm.edu	37	14	105393556	105393556	+	Missense_Mutation	SNP	G	G	C	rs2841280	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	61	100	0	0.544643	0	G|0.554;C|0.446	0.446	strong	.	PLD4	46	.	NM_138790	exon2	c.G79C	p.E27Q	GACAGAGAGGCTG	.	PASS	Atlas-SNP
HIPK2	28996	hgsc.bcm.edu	37	7	139415775	139415775	+	Silent	SNP	G	G	C	rs7456421	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	71	161	0	0.47973	0	G|0.630;C|0.370	0.370	strong	.	HIPK2	192	.	NM_022740	exon2	c.C1059G	p.V353V	CTTGGAGACGTGG	.	PASS	Atlas-SNP
ANP32C	23520	hgsc.bcm.edu	37	4	165118796	165118796	+	Missense_Mutation	SNP	G	G	A	rs2288674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	72	111	0	0.5625	0	G|0.673;A|0.327	0.327	strong	.	ANP32C	59	.	NM_012403	exon1	c.C68T	p.A23V	TCCAGGGCAAGTT	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	37	3	184046470	184046470	+	Silent	SNP	C	C	T	rs2230571	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	40	84	0	0.384615	0	C|0.850;T|0.150	0.150	strong	EIF4G1,NS,adenoma,0,1	EIF4G1	151	1	NM_001194946	exon28	c.C4026T	p.H1342H	CCCCCACGTGTGG	.	PASS	Atlas-SNP
ITM2C	81618	hgsc.bcm.edu	37	2	231738263	231738263	+	Silent	SNP	C	C	T	rs2289234	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	61	104	0	0.476562	0	C|0.546;T|0.454	0.454	strong	.	ITM2C	17	.	NM_030926	exon2	c.C252T	p.F84F	CTTCTTCCTTGCG	.	PASS	Atlas-SNP
CALCOCO1	57658	hgsc.bcm.edu	37	12	54109733	54109733	+	Silent	SNP	A	A	G	rs3741658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	25	59	0	0.378788	0	A|0.644;G|0.356	0.356	strong	.	CALCOCO1	50	.	NM_020898	exon9	c.T1104C	p.S368S	TGCTGCACTGGCC	.	PASS	Atlas-SNP
NUP37	79023	hgsc.bcm.edu	37	12	102494849	102494849	+	Silent	SNP	T	T	C	rs17438178	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	66	164	0	0.507692	0	T|0.976;C|0.024	0.024	strong	.	NUP37	26	.	NM_024057	exon3	c.A315G	p.R105R	AAATAATCTAATT	.	PASS	Atlas-SNP
PAPL	0	hgsc.bcm.edu	37	19	39591829	39591829	+	Missense_Mutation	SNP	G	G	T	rs117752516	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	15	33	0	0.405405	0	G|0.988;T|0.012	0.012	strong	.	.	.	.	NM_001004318	exon9	c.G955T	p.D319Y	TTGGAGGATCTTT	.	PASS	Atlas-SNP
SELP	6403	hgsc.bcm.edu	37	1	169562904	169562904	+	Silent	SNP	C	C	T	rs6128	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	36	74	0	0.433735	0	C|0.687;T|0.313	0.313	strong	SELP,NS,carcinoma,-1,2	SELP	132	2	NM_003005	exon14	c.G2346A	p.T782T	ACCTATCGTAGAA	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84607758	84607758	+	Silent	SNP	T	T	A	rs10867826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	324	168	319	0	0.518519	0	T|0.426;A|0.574	0.574	strong	.	.	.	.	NM_001001670	exon4	c.T2373A	p.T791T	GGAGACTTCTTCA	.	PASS	Atlas-SNP
FAM71E2	284418	hgsc.bcm.edu	37	19	55870478	55870478	+	Silent	SNP	C	C	T	rs79366553	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	32	59	0	0.542373	0	C|0.934;T|0.066	0.066	strong	.	FAM71E2	41	.	NM_001145402	exon9	c.G1758A	p.P586P	CGGCTCCGGTTTC	.	PASS	Atlas-SNP
CXorf56	63932	hgsc.bcm.edu	37	X	118678364	118678364	+	Silent	SNP	G	G	A	rs5910611	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	51	51	0	0.980769	0	G|0.425;A|0.575	0.575	strong	.	CXorf56	26	.	NM_022101	exon4	c.C375T	p.G125G	CCCAAAGCCCTGG	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8053085	8053085	+	Silent	SNP	T	T	G	rs3027178	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	19	13	1	0.633333	0.0769231	T|0.699;G|0.301	0.301	strong	PER1,NS,carcinoma,0,1	PER1	104	1	NM_002616	exon5	c.A639C	p.T213T	CTGAAGTGTGTAC	.	scavenged	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20768013	20768013	+	Silent	SNP	G	G	A	rs10254317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	165	107	0	0.993976	0	G|0.421;A|0.579	0.579	strong	ABCB5,colon,carcinoma,+1,1	ABCB5	357	1	NM_001163941	exon23	c.G2802A	p.A934A	CTATGCGGCAGGG	.	PASS	Atlas-SNP
C9orf135	138255	hgsc.bcm.edu	37	9	72472831	72472831	+	Silent	SNP	C	C	T	rs10780682	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	16	72	0	0.372093	0	C|0.722;T|0.278	0.278	strong	.	C9orf135	25	.	NM_001010940	exon4	c.C387T	p.T129T	GGTCACCGGATTG	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56763328	56763328	+	Silent	SNP	T	T	C	rs1565377	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	210	208	153	1	0.990476	0.00653595	T|0.391;C|0.609	0.609	strong	.	ARHGEF3	128	.	NM_001128615	exon13	c.A1647G	p.G549G	GCTGTTTCCACAG	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85445365	85445365	+	Missense_Mutation	SNP	G	G	C	rs74718633	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	51	116	0	0.5	0	G|0.993;C|0.007	0.007	strong	.	SYTL2	231	.	NM_001162953	exon6	c.C1007G	p.S336C	ACTGCAGAGAATC	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453406	195453406	+	Silent	SNP	G	G	C	rs3210209	bycluster;byfrequency;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	47	83	1	0.443396	0.0120482	G|0.915;C|0.085	0.085	strong	MUC20_ENST00000381954,NS,carcinoma,0,2	MUC20	84	2	NM_152673	exon3	c.G1419C	p.T473T	GCCCACGACTGCC	.	scavenged	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861057	231861057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	8	66	2	0.170213	0.030303	.	.	none	SPATA3,NS,carcinoma,-2,4	SPATA3	52	4	NM_139073	exon1	c.C109T	p.P37S	TCCACACCACAGC	.	scavenged	Atlas-SNP
OR11H12	440153	hgsc.bcm.edu	37	14	19377859	19377859	+	Missense_Mutation	SNP	T	T	C	rs61969156		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	190	46	314	0	0.242105	0	.	.	weak	OR11H12,NS,carcinoma,0,2	OR11H12	58	2	NM_001013354	exon1	c.T266C	p.V89A	GGTATGTCTCTTC	.	scavenged	Atlas-SNP
PIGQ	9091	hgsc.bcm.edu	37	16	633354	633354	+	Missense_Mutation	SNP	G	G	A	rs710925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	38	63	0	0.575758	0	G|0.544;A|0.456	0.456	strong	PIGQ,NS,carcinoma,+1,1	PIGQ	43	1	NM_148920	exon10	c.G2003A	p.C668Y	CCCTGTGTACCCA	.	PASS	Atlas-SNP
HMGCS1	3157	hgsc.bcm.edu	37	5	43294192	43294192	+	Silent	SNP	C	C	T	rs56257144	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	41	125	0	0.359649	0	C|0.913;T|0.087	0.087	strong	.	HMGCS1	33	.	NM_001098272	exon8	c.G1149A	p.L383L	AGAGTACAGAGTG	.	PASS	Atlas-SNP
SLC8A3	6547	hgsc.bcm.edu	37	14	70634546	70634546	+	Silent	SNP	C	C	T	rs7161524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	48	93	0	0.421053	0	C|0.830;T|0.170	0.170	strong	.	SLC8A3	234	.	NM_183002	exon2	c.G594A	p.K198K	TAGATGCTTGATC	.	PASS	Atlas-SNP
QRFP	347148	hgsc.bcm.edu	37	9	133769169	133769169	+	Silent	SNP	G	G	A	rs3847193	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	53	108	0	0.5	0	G|0.629;A|0.371	0.371	strong	.	QRFP	14	.	NM_198180	exon1	c.C57T	p.F19F	TAGAGGGAAGCAG	.	PASS	Atlas-SNP
FCER2	2208	hgsc.bcm.edu	37	19	7755056	7755056	+	Silent	SNP	G	G	A	rs2228138	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	23	40	0	0.522727	0	G|0.634;A|0.366	0.366	strong	FCER2,colon,carcinoma,0,1	FCER2	19	1	NM_002002	exon10	c.C717T	p.H239H	GTCCACGTGGCTC	.	PASS	Atlas-SNP
BIN1	274	hgsc.bcm.edu	37	2	127809840	127809840	+	Silent	SNP	C	C	A	rs61748155	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	35	64	1	0.522388	0.015625	C|0.990;A|0.010	0.010	strong	BIN1,brain,glioma,0,1	BIN1	85	1	NM_139343	exon15	c.G1362T	p.G454G	GGCAGGCCCCGGC	.	scavenged	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40392631	40392631	+	Missense_Mutation	SNP	G	G	A	rs80068592	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	280	110	395	1	0.392857	0.00253165	G|0.772;A|0.228	0.228	strong	.	FCGBP	416	.	NM_003890	exon16	c.C7873T	p.P2625S	AGTCGGGCACCAC	.	PASS	Atlas-SNP
EPM2A	7957	hgsc.bcm.edu	37	6	146007332	146007332	+	Silent	SNP	C	C	T	rs35230590	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	106	127	0	0.990654	0	C|0.823;T|0.177	0.177	strong	.	EPM2A	21	.	NM_005670	exon2	c.G402A	p.G134G	GGTGTGCCCAGTG	.	PASS	Atlas-SNP
CEP68	23177	hgsc.bcm.edu	37	2	65298839	65298839	+	Silent	SNP	A	A	G	rs17849707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	28	45	0	0.509091	0	A|0.773;G|0.227	0.227	strong	.	CEP68	69	.	NM_015147	exon3	c.A609G	p.T203T	CTCCACAGGCAGC	.	PASS	Atlas-SNP
P4HB	5034	hgsc.bcm.edu	37	17	79818260	79818260	+	Silent	SNP	G	G	T	rs11558886	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	14	16	0	0.518519	0	G|0.867;T|0.133	0.133	strong	P4HB,NS,NS,0,1	P4HB	43	1	NM_000918	exon1	c.C88A	p.R30R	TTTTCCGCAGCAC	.	PASS	Atlas-SNP
EPB41L4A	64097	hgsc.bcm.edu	37	5	111504479	111504479	+	Missense_Mutation	SNP	C	C	T	rs7703522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	164	143	0	1	0	C|0.141;T|0.859	0.859	strong	.	EPB41L4A	130	.	NM_022140	exon22	c.G1889A	p.R630H	GAAGAACGGGTCA	.	PASS	Atlas-SNP
BCHE	590	hgsc.bcm.edu	37	3	165491280	165491280	+	Missense_Mutation	SNP	C	C	T	rs1803274	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	48	106	0	0.4	0	C|0.822;T|0.178	0.178	strong	.	BCHE	136	.	NM_000055	exon4	c.G1699A	p.A567T	ATTCTGCTTCATC	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	37	22	32754230	32754230	+	Missense_Mutation	SNP	A	A	G	rs57676160	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	220	99	208	0	0.45	0	A|0.920;G|0.080	0.080	strong	.	RFPL3	91	.	NM_001098535	exon1	c.A172G	p.T58A	GGATGCACCGTCT	.	PASS	Atlas-SNP
TMEM55A	55529	hgsc.bcm.edu	37	8	92033502	92033502	+	Silent	SNP	T	T	C	rs34503257	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	23	45	0	0.410714	0	T|0.896;C|0.104	0.104	strong	.	TMEM55A	34	.	NM_018710	exon2	c.A237G	p.T79T	GCAAACTGTGCAC	.	PASS	Atlas-SNP
SFXN1	94081	hgsc.bcm.edu	37	5	174936102	174936102	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	204	9	166	0	0.0441176	0	.	.	none	.	SFXN1	23	.	NM_022754	exon3	c.G232T	p.A78S	GATTCAGCTTTTC	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924812	70924812	+	Missense_Mutation	SNP	C	C	T	rs370238293		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	186	2	153	1	0.0107527	0.00653595	.	.	weak	ADAM21_ENST00000267499,NS,carcinoma,0,6	ADAM21	181	6	NM_003813	exon2	c.C596T	p.S199F	CAAAATCTGCTGG	.	scavenged	Atlas-SNP
C16orf55	124045	hgsc.bcm.edu	37	16	89724755	89724755	+	Missense_Mutation	SNP	C	C	T	rs13329897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	28	64	0	0.405797	0	C|0.987;T|0.013	0.013	strong	.	C16orf55	6	.	NM_001271910	exon2	c.C137T	p.S46L	GGGAGTCGGAGAA	.	PASS	Atlas-SNP
ARHGEF39	84904	hgsc.bcm.edu	37	9	35662251	35662251	+	Missense_Mutation	SNP	T	T	C	rs2297879	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	57	114	0	0.5	0	T|0.720;C|0.280	0.280	strong	.	.	.	.	NM_032818	exon8	c.A917G	p.H306R	TTCTCATGAGGGA	.	PASS	Atlas-SNP
PADI6	353238	hgsc.bcm.edu	37	1	17707601	17707601	+	Silent	SNP	T	T	C	rs6669650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	55	87	0	0.491071	0	T|0.832;C|0.168	0.168	strong	.	PADI6	51	.	NM_207421	exon5	c.T495C	p.P165P	CAACCCTGCTGAT	.	PASS	Atlas-SNP
OR52N1	79473	hgsc.bcm.edu	37	11	5809746	5809746	+	Missense_Mutation	SNP	C	C	T	rs10742787	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	75	101	0	0.986842	0	C|0.675;T|0.325	0.325	strong	.	OR52N1	70	.	NM_001001913	exon1	c.G301A	p.A101T	TCTGGGCGAGGCA	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42145904	42145904	+	Missense_Mutation	SNP	G	G	A	rs188061762	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	10	17	0	0.4	0	G|0.997;A|0.003	0.003	strong	SPTBN5,NS,carcinoma,0,1	SPTBN5	171	1	NM_016642	exon58	c.C9751T	p.P3251S	CCCCCGGAGCTGC	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	990281	990281	+	Missense_Mutation	SNP	G	G	A	rs2158367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	51	48	0	0.980769	0	G|0.082;A|0.918	0.918	strong	.	WDR18	20	.	NM_024100	exon4	c.G514A	p.A172T	CACCACGCGCTCC	.	PASS	Atlas-SNP
NLRP7	199713	hgsc.bcm.edu	37	19	55451613	55451613	+	Missense_Mutation	SNP	T	T	G	rs104895529	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	56	125	0	0.518519	0	T|0.998;G|0.002	0.002	strong	.	NLRP7	411	.	NM_001127255	exon4	c.A574C	p.M192L	CCAGCATACACTT	.	PASS	Atlas-SNP
HSPH1	10808	hgsc.bcm.edu	37	13	31729729	31729729	+	Silent	SNP	A	A	G	rs1047086	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	75	93	0	0.531915	0	A|0.651;G|0.349	0.349	strong	.	HSPH1	65	.	NM_006644	exon3	c.T228C	p.N76N	GGGGTCATTGAAT	.	PASS	Atlas-SNP
ABCF2	10061	hgsc.bcm.edu	37	7	150912786	150912786	+	Silent	SNP	T	T	C	rs7786151	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	67	112	0	1	0	T|0.901;C|0.099	0.099	strong	.	ABCF2	54	.	NM_007189	exon13	c.A1434G	p.S478S	CAAAGGTGAGAGA	.	PASS	Atlas-SNP
ITM2C	81618	hgsc.bcm.edu	37	2	231738269	231738269	+	Silent	SNP	G	G	A	rs2289233	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	59	96	0	0.472	0	G|0.534;A|0.466	0.466	strong	.	ITM2C	17	.	NM_030926	exon2	c.G258A	p.A86A	CCTTGCGCAGGTG	.	PASS	Atlas-SNP
PLB1	151056	hgsc.bcm.edu	37	2	28865760	28865760	+	Silent	SNP	T	T	C	rs2272387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	38	88	0	0.422222	0	T|0.595;C|0.405	0.405	strong	.	PLB1	255	.	NM_153021	exon58	c.T4210C	p.L1404L	AGCCGATTGCTCC	.	PASS	Atlas-SNP
PRSS45	377047	hgsc.bcm.edu	37	3	46784532	46784532	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	45	60	0	0.576923	0	.	.	none	.	PRSS45	12	.	NM_199183	exon3	c.G324A	p.E108E	CTCAGCCTCCTGC	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112868693	112868693	+	Silent	SNP	C	C	A	rs6594732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	31	80	0	0.352273	0	C|0.678;A|0.322	0.322	strong	.	YTHDC2	118	.	NM_022828	exon5	c.C793A	p.R265R	GAGAGACGGGAAA	.	PASS	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	37	16	84209634	84209634	+	Silent	SNP	C	C	G	rs2288019	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	75	110	0	0.986842	0	C|0.475;G|0.525	0.525	strong	DNAAF1,NS,carcinoma,0,1	DNAAF1	81	1	NM_178452	exon11	c.C1794G	p.L598L	AAACCTCCCCACA	.	PASS	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	37	22	26702015	26702015	+	Silent	SNP	A	A	C	rs1210894	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	27	67	0	0.435484	0	A|0.555;C|0.445	0.445	strong	SEZ6L,NS,carcinoma,0,1	SEZ6L	174	1	NM_001184777	exon6	c.A1419C	p.T473T	AAACACAAATGGG	.	PASS	Atlas-SNP
FUT5	2527	hgsc.bcm.edu	37	19	5867191	5867191	+	Silent	SNP	G	G	A	rs61744948	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	55	94	0	0.514019	0	G|0.912;A|0.088	0.088	strong	.	FUT5	29	.	NM_002034	exon2	c.C546T	p.Y182Y	CCAGCCGTAGGGC	.	PASS	Atlas-SNP
ZNF835	90485	hgsc.bcm.edu	37	19	57175484	57175484	+	Silent	SNP	A	A	G	rs7250003	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	27	59	0	0.435484	0	A|0.575;G|0.425	0.425	strong	ZNF835,NS,carcinoma,0,2	ZNF835	106	2	NM_001005850	exon2	c.T1083C	p.P361P	GGGGTAAGGCCGC	.	PASS	Atlas-SNP
SPATA31A6	389730	hgsc.bcm.edu	37	9	43626820	43626820	+	Missense_Mutation	SNP	G	G	C	rs138779714	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	11	16	0	0.314286	0	G|0.760;C|0.240	0.240	strong	FAM75A6,NS,carcinoma,0,2	.	.	2	NM_001145196	exon4	c.C1867G	p.R623G	CGTCCCGAAGCTG	.	scavenged	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46761497	46761497	+	Missense_Mutation	SNP	C	C	G	rs12165943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	31	70	0	0.553571	0	C|0.641;G|0.359	0.359	strong	.	CELSR1	242	.	NM_014246	exon31	c.G8390C	p.C2797S	TCCTTGCAGCTCC	.	PASS	Atlas-SNP
C10orf129	142827	hgsc.bcm.edu	37	10	96971638	96971638	+	Silent	SNP	G	G	A	rs75252129	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	57	150	0	0.44186	0	G|0.931;A|0.069	0.069	strong	C10orf129_ENST00000341686,NS,carcinoma,0,2	C10orf129	52	2	NM_207321	exon6	c.G759A	p.R253R	TAGACGGTGGATG	.	PASS	Atlas-SNP
TBX2	6909	hgsc.bcm.edu	37	17	59480547	59480547	+	Silent	SNP	C	C	T	rs140013823	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	24	38	0	0.545455	0	C|0.999;T|0.001	0.001	strong	.	TBX2	30	.	NM_005994	exon3	c.C789T	p.V263V	CGCCGTCACTGCC	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33641379	33641379	+	Silent	SNP	T	T	C	rs1803831	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	227	121	209	0	0.53304	0	A|0.000;C|0.461;T|0.538	0.461	strong	.	ITPR3	409	.	NM_002224	exon23	c.T2940C	p.N980N	CCTCAATGTCCGC	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	712137	712137	+	Silent	SNP	G	G	C	rs912175	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	22	48	0	0.536585	0	G|0.771;C|0.229	0.229	strong	KANK1,NS,carcinoma,0,1	KANK1	231	1	NM_001256876	exon7	c.G1371C	p.L457L	TGAGCTGCAACAG	.	PASS	Atlas-SNP
ZNF695	57116	hgsc.bcm.edu	37	1	247162658	247162658	+	Missense_Mutation	SNP	C	C	T	rs2642973	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	86	81	0	1	0	C|0.133;T|0.867	0.867	strong	.	ZNF695	55	.	NM_001204221	exon3	c.G251A	p.R84K	GAGTGTCTGGCTG	.	PASS	Atlas-SNP
CHML	1122	hgsc.bcm.edu	37	1	241798443	241798443	+	Missense_Mutation	SNP	G	G	A	rs41269377	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	38	83	0	0.463415	0	G|0.980;A|0.020	0.020	strong	.	CHML	82	.	NM_001821	exon1	c.C626T	p.A209V	TCATCGGCCTTAT	.	PASS	Atlas-SNP
PRPF18	8559	hgsc.bcm.edu	37	10	13653653	13653653	+	Silent	SNP	A	A	G	rs1135102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	19	52	0	0.558824	0	A|0.659;G|0.341	0.341	strong	.	PRPF18	32	.	NM_003675	exon6	c.A549G	p.K183K	TCATAAAGACATG	.	PASS	Atlas-SNP
CPA1	1357	hgsc.bcm.edu	37	7	130023539	130023539	+	Silent	SNP	C	C	T	rs12706927	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	51	93	0	0.481132	0	C|0.903;T|0.097	0.097	strong	.	CPA1	73	.	NM_001868	exon6	c.C600T	p.Y200Y	AGACTACGGGCAG	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152469204	152469204	+	Missense_Mutation	SNP	G	G	A	rs141716975	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	15	38	0	0.6	0	G|0.997;A|0.003	0.003	strong	.	SYNE1	3227	.	NM_182961	exon137	c.C24952T	p.L8318F	CCCGGAGGTAGAA	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3155353	3155353	+	Silent	SNP	C	C	T	rs3816699	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	18	75	0	0.346154	0	C|0.848;T|0.152	0.152	strong	.	PFKP	182	.	NM_002627	exon12	c.C1197T	p.I399I	TGCCATCAAGCTG	.	PASS	Atlas-SNP
SPATA7	55812	hgsc.bcm.edu	37	14	88852166	88852166	+	Missense_Mutation	SNP	G	G	A	rs4904448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	51	0	0.479167	0	G|0.775;A|0.225	0.225	strong	SPATA7,NS,carcinoma,0,1	SPATA7	58	1	NM_018418	exon1	c.G4A	p.D2N	AGCATGGATGGCA	.	PASS	Atlas-SNP
CDPF1	150383	hgsc.bcm.edu	37	22	46644168	46644168	+	Missense_Mutation	SNP	A	A	G	rs9627281	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	28	58	0	0.411765	0	A|0.682;G|0.318	0.318	strong	.	.	.	.	NM_207327	exon2	c.T14C	p.V5A	CACTCTACATGGG	.	PASS	Atlas-SNP
KRTAP15-1	254950	hgsc.bcm.edu	37	21	31812772	31812772	+	Missense_Mutation	SNP	C	C	A	rs2832873	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	35	77	0	0.5	0	C|0.432;A|0.568	0.568	strong	KRTAP15-1,rectum,carcinoma,-2,1	KRTAP15-1	35	1	NM_181623	exon1	c.C127A	p.L43M	TGCCAACTGGGCT	.	PASS	Atlas-SNP
CPNE1	8904	hgsc.bcm.edu	37	20	34219496	34219496	+	Missense_Mutation	SNP	T	T	C	rs6579255	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	37	54	0	0.973684	0	T|0.753;C|0.247	0.247	strong	.	CPNE1	44	.	NM_003915	exon8	c.A647G	p.Q216R	GAGCATTGCACCT	.	PASS	Atlas-SNP
APOL3	80833	hgsc.bcm.edu	37	22	36537500	36537500	+	Silent	SNP	A	A	T	rs132618	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	66	70	0	0.985075	0	A|0.630;T|0.370	0.370	strong	APOL3,NS,carcinoma,0,1	APOL3	60	1	NM_145640	exon3	c.T957A	p.G319G	TTGACCACCACTT	.	PASS	Atlas-SNP
TNFAIP6	7130	hgsc.bcm.edu	37	2	152226570	152226570	+	Missense_Mutation	SNP	A	A	G	rs1046668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	21	48	0	0.636364	0	A|0.810;G|0.190	0.190	strong	.	TNFAIP6	98	.	NM_007115	exon4	c.A431G	p.Q144R	CAAAGCAAATTTT	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81209325	81209325	+	Missense_Mutation	SNP	G	G	A	rs145948343	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	36	89	0	0.493151	0	G|0.999;A|0.001	0.001	strong	.	PKD1L2	361	.	NM_001076780	exon15	c.C2468T	p.A823V	GGGAGGGCAGGTT	.	PASS	Atlas-SNP
TMEM244	253582	hgsc.bcm.edu	37	6	130152520	130152520	+	Missense_Mutation	SNP	A	A	C	rs7776426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	159	70	193	0	0.440252	0	A|0.663;C|0.337	0.337	strong	.	.	.	.	NM_001010876	exon5	c.T331G	p.F111V	AGGGGAATTCCAA	.	PASS	Atlas-SNP
PTGER4	5734	hgsc.bcm.edu	37	5	40681254	40681254	+	Silent	SNP	C	C	T	rs2228058	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	59	103	0	0.526786	0	C|0.924;T|0.076	0.076	strong	.	PTGER4	49	.	NM_000958	exon2	c.C159T	p.T53T	GACGACCTTCTAC	.	PASS	Atlas-SNP
CRYGD	1421	hgsc.bcm.edu	37	2	208989037	208989037	+	Silent	SNP	A	A	G	rs2242074	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	44	80	0	0.382609	0	A|0.398;G|0.602	0.602	strong	.	CRYGD	18	.	NM_006891	exon2	c.T51C	p.Y17Y	GCATTCATAGTGG	.	PASS	Atlas-SNP
HTR6	3362	hgsc.bcm.edu	37	1	19992513	19992513	+	Silent	SNP	C	C	T	rs1805054	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	68	67	0	0.62963	0	C|0.839;T|0.161	0.161	strong	.	HTR6	38	.	NM_000871	exon1	c.C267T	p.Y89Y	GCTGTACGGGCGC	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	124048764	124048764	+	Silent	SNP	C	C	T	rs2276740	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	34	58	0	0.43038	0	C|0.888;T|0.112	0.112	strong	.	KALRN	556	.	NM_003947	exon8	c.C1335T	p.S445S	GCCATCCGAGATG	.	PASS	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	37	12	94543506	94543506	+	Silent	SNP	C	C	T	rs2230754	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	9	18	0	0.409091	0	C|0.560;T|0.440	0.440	strong	PLXNC1,rectum,carcinoma,0,1	PLXNC1	135	1	NM_005761	exon1	c.C759T	p.Y253Y	CAACTACACGAGC	.	PASS	Atlas-SNP
MYO10	4651	hgsc.bcm.edu	37	5	16701796	16701796	+	Missense_Mutation	SNP	A	A	G	rs112696559	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	62	131	0	0.466165	0	A|0.994;G|0.006;T|0.000	0.006	strong	.	MYO10	198	.	NM_012334	exon25	c.T2708C	p.M903T	TCCTTCATGCGCT	.	PASS	Atlas-SNP
OR2A25	392138	hgsc.bcm.edu	37	7	143771536	143771536	+	Missense_Mutation	SNP	G	G	A	rs6951485	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	58	114	0	0.517857	0	G|0.399;A|0.601	0.601	strong	.	OR2A25	66	.	NM_001004488	exon1	c.G224A	p.S75N	CTTGCAGCACGGT	.	PASS	Atlas-SNP
C15orf53	400359	hgsc.bcm.edu	37	15	38988815	38988815	+	Missense_Mutation	SNP	C	C	G	rs7165988	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	35	80	0	0.411765	0	C|0.752;G|0.248	0.248	strong	C15orf53,NS,carcinoma,0,1	C15orf53	12	1	NM_207444	exon1	c.C7G	p.L3V	ATGGAGCTACAAG	.	PASS	Atlas-SNP
FAM71E2	284418	hgsc.bcm.edu	37	19	55872591	55872591	+	Missense_Mutation	SNP	C	C	T	rs2124920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	37	57	0	0.552239	0	C|0.859;T|0.141	0.141	strong	.	FAM71E2	41	.	NM_001145402	exon5	c.G605A	p.R202H	AAGTTGCGCTCAG	.	PASS	Atlas-SNP
AKR1C4	1109	hgsc.bcm.edu	37	10	5242164	5242164	+	Silent	SNP	A	A	G	rs17306779	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	85	149	1	0.53125	0.00671141	A|0.824;G|0.176	0.176	strong	AKR1C4,NS,carcinoma,0,1	AKR1C4	57	1	NM_001818	exon2	c.A105G	p.V35V	AGCTGTAGAGGTC	.	scavenged	Atlas-SNP
KDM6B	23135	hgsc.bcm.edu	37	17	7749972	7749972	+	Missense_Mutation	SNP	G	G	T	rs148641957	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	28	62	0	0.411765	0	G|0.997;T|0.003	0.003	strong	.	KDM6B	95	.	NM_001080424	exon8	c.G625T	p.V209L	CAGCCTGTGCCTC	.	PASS	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	37	22	21991072	21991072	+	Missense_Mutation	SNP	T	T	C	rs861852	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	29	46	0	0.591837	0	T|0.681;C|0.319	0.319	strong	.	CCDC116	56	.	NM_152612	exon5	c.T1555C	p.C519R	TCCCACTGCAGCA	.	PASS	Atlas-SNP
FBXO36	130888	hgsc.bcm.edu	37	2	230861519	230861519	+	Missense_Mutation	SNP	G	G	T	rs1035834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	72	196	0	0.48	0	G|0.789;T|0.211	0.211	strong	FBXO36_ENST00000283946,NS,carcinoma,0,1	FBXO36	22	1	NM_174899	exon3	c.G258T	p.L86F	CAATTTGTGCAAA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276889	152276889	+	Silent	SNP	A	A	G	rs3126067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	213	124	178	0	0.58216	0	A|0.637;G|0.363	0.363	strong	.	FLG	900	.	NM_002016	exon3	c.T10473C	p.N3491N	TTCGTCATTACGA	.	PASS	Atlas-SNP
SLC5A1	6523	hgsc.bcm.edu	37	22	32487700	32487700	+	Missense_Mutation	SNP	G	G	A	rs17683430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	20	53	0	0.425532	0	G|0.955;A|0.045	0.045	strong	.	SLC5A1	80	.	NM_000343	exon11	c.G1231A	p.A411T	ATCTACGCCAAGG	.	PASS	Atlas-SNP
OR2A25	392138	hgsc.bcm.edu	37	7	143771937	143771937	+	Missense_Mutation	SNP	G	G	C	rs2961135	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	74	156	0	0.40884	0	G|0.409;C|0.590	0.590	strong	.	OR2A25	66	.	NM_001004488	exon1	c.G625C	p.A209P	GTGGGAGCCTTCT	.	PASS	Atlas-SNP
A4GNT	51146	hgsc.bcm.edu	37	3	137843476	137843476	+	Missense_Mutation	SNP	G	G	T	rs2246945	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	103	132	1	0.990385	0.00757576	G|0.339;T|0.661	0.661	strong	.	A4GNT	42	.	NM_016161	exon3	c.C653A	p.A218D	CAAATGGCTGAAT	.	PASS	Atlas-SNP
ANKK1	255239	hgsc.bcm.edu	37	11	113268059	113268059	+	Missense_Mutation	SNP	G	G	A	rs11604671	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	49	43	0	0.98	0	G|0.718;A|0.282	0.282	strong	.	ANKK1	83	.	NM_178510	exon6	c.G952A	p.G318R	CAGCCCGGGGAGG	.	PASS	Atlas-SNP
TTLL13	440307	hgsc.bcm.edu	37	15	90800408	90800408	+	Silent	SNP	C	C	G	rs2063742	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	59	146	0	0.5	0	C|0.716;G|0.284	0.284	strong	.	TTLL13	44	.	NM_001029964	exon7	c.C744G	p.V248V	GCGAGTCTACGTC	.	PASS	Atlas-SNP
SMARCA5	8467	hgsc.bcm.edu	37	4	144442611	144442611	+	Silent	SNP	T	T	C	rs11100790	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	32	112	0	0.405063	0	A|0.000;C|0.252;T|0.748	0.252	strong	.	SMARCA5	73	.	NM_003601	exon3	c.T282C	p.Y94Y	CGAGTATTTATTA	.	PASS	Atlas-SNP
OR10X1	128367	hgsc.bcm.edu	37	1	158549492	158549492	+	Nonsense_Mutation	SNP	C	C	T	rs863362	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	45	107	0	0.316901	0	C|0.488;N|0.000	.	strong	.	OR10X1	96	.	NM_001004477	exon1	c.G198A	p.W66X	GTCCACCCAAGTT	.	PASS	Atlas-SNP
UGDH	7358	hgsc.bcm.edu	37	4	39510264	39510264	+	Silent	SNP	A	A	G	rs1129052	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	27	31	0	0.55102	0	A|0.746;G|0.254	0.254	strong	.	UGDH	52	.	NM_003359	exon7	c.T828C	p.C276C	TTGGAAACAGCTC	.	PASS	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	37	12	121454148	121454148	+	Missense_Mutation	SNP	C	C	T	rs11537857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	21	42	0	0.617647	0	T|0.040;C|0.960	0.040	strong	.	C12orf43	30	.	NM_022895	exon1	c.G130A	p.G44R	GCTTCCCTGCCAC	.	PASS	Atlas-SNP
ART4	420	hgsc.bcm.edu	37	12	14982352	14982352	+	Missense_Mutation	SNP	G	G	C	rs3088190	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	46	86	0	0.40708	0	G|0.894;C|0.106	0.106	strong	ART4,NS,carcinoma,0,1	ART4	27	1	NM_021071	exon3	c.C898G	p.L300V	AGGAGAGAGATGC	.	PASS	Atlas-SNP
RAB11FIP2	22841	hgsc.bcm.edu	37	10	119774598	119774598	+	Missense_Mutation	SNP	T	T	A	rs58533443	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	25	80	0	0.260417	0	T|0.967;A|0.033	0.033	strong	.	RAB11FIP2	39	.	NM_014904	exon4	c.A1289T	p.N430I	TCTTCATTGCTTG	.	PASS	Atlas-SNP
AMOT	154796	hgsc.bcm.edu	37	X	112053138	112053138	+	Silent	SNP	C	C	T	rs57201849	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	31	36	0	1	0	C|0.980;T|0.020	0.020	strong	.	AMOT	204	.	NM_001113490	exon4	c.G1614A	p.S538S	GAGCTGCGAGATG	.	PASS	Atlas-SNP
STK31	56164	hgsc.bcm.edu	37	7	23775454	23775454	+	Missense_Mutation	SNP	G	G	A	rs10264952	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	56	45	0	0.658824	0	G|0.873;A|0.127	0.127	strong	.	STK31	175	.	NM_031414	exon7	c.G781A	p.E261K	TTAAGTGAGAAAA	.	PASS	Atlas-SNP
BST1	683	hgsc.bcm.edu	37	4	15733454	15733454	+	Silent	SNP	A	A	C	rs1058212	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	69	132	0	0.475862	0	A|0.883;C|0.117	0.117	strong	BST1,colon,carcinoma,0,3	BST1	30	3	NM_004334	exon9	c.A943C	p.R315R	GCTTCCAGGACTC	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33636907	33636907	+	Silent	SNP	C	C	T	rs2077163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	38	54	0	0.506667	0	C|0.521;T|0.479	0.479	strong	.	ITPR3	409	.	NM_002224	exon18	c.C2163T	p.H721H	CGCCCACGACGAG	.	PASS	Atlas-SNP
UGGT1	56886	hgsc.bcm.edu	37	2	128934400	128934400	+	Silent	SNP	T	T	C	rs2290111	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	87	104	0	1	0	T|0.323;C|0.677	0.677	strong	.	UGGT1	126	.	NM_020120	exon32	c.T3552C	p.T1184T	TGGCACTGATTCT	.	PASS	Atlas-SNP
OR4K13	390433	hgsc.bcm.edu	37	14	20502120	20502120	+	Silent	SNP	C	C	T	rs17277032	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	30	55	0	0.555556	0	C|0.636;T|0.364	0.364	strong	.	OR4K13	68	.	NM_001004714	exon1	c.G798A	p.S266S	ATCTACCGAGTAT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9072313	9072313	+	Missense_Mutation	SNP	A	A	G	rs2121133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	28	95	0	0.4375	0	A|0.771;G|0.229	0.229	strong	.	MUC16	4315	.	NM_024690	exon3	c.T15133C	p.S5045P	GTGAGGACAGAAA	.	PASS	Atlas-SNP
L3HYPDH	112849	hgsc.bcm.edu	37	14	59939804	59939804	+	Missense_Mutation	SNP	G	G	A	rs1046701	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	39	109	0	0.393939	0	G|0.960;A|0.040	0.040	strong	.	.	.	.	NM_144581	exon5	c.C944T	p.A315V	CATTTCGCTTCCT	.	PASS	Atlas-SNP
ZNF805	390980	hgsc.bcm.edu	37	19	57760057	57760057	+	Missense_Mutation	SNP	G	G	A	rs3746231	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	80	81	0	1	0	G|0.643;A|0.357	0.357	strong	.	ZNF805	30	.	NM_001023563	exon3	c.G242A	p.G81D	CCCAAGGCACCTG	.	PASS	Atlas-SNP
GALM	130589	hgsc.bcm.edu	37	2	38916970	38916970	+	Missense_Mutation	SNP	A	A	T	rs6741892	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	72	143	0	0.553846	0	A|0.849;T|0.151	0.151	strong	.	GALM	20	.	NM_138801	exon4	c.A568T	p.N190Y	AATATAAATGACC	.	PASS	Atlas-SNP
COLEC12	81035	hgsc.bcm.edu	37	18	334742	334742	+	Missense_Mutation	SNP	C	C	T	rs2305027	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	26	90	0	0.276596	0	C|0.591;T|0.409	0.409	strong	.	COLEC12	121	.	NM_130386	exon6	c.G1816A	p.G606S	ACTTACCATTGTC	.	PASS	Atlas-SNP
IL17RB	55540	hgsc.bcm.edu	37	3	53886912	53886912	+	Silent	SNP	C	C	T	rs3733075	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	72	152	0	0.365482	0	C|0.603;T|0.397	0.397	strong	.	IL17RB	27	.	NM_018725	exon5	c.C369T	p.Y123Y	TTCCTACATCGGC	.	PASS	Atlas-SNP
SLITRK6	84189	hgsc.bcm.edu	37	13	86370571	86370571	+	Missense_Mutation	SNP	G	G	A	rs12863734	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	55	100	0	0.533981	0	G|0.982;A|0.018	0.018	strong	.	SLITRK6	150	.	NM_032229	exon2	c.C73T	p.L25F	ATGAGAGCACTGG	.	PASS	Atlas-SNP
OR52I1	390037	hgsc.bcm.edu	37	11	4615857	4615857	+	Missense_Mutation	SNP	G	G	A	rs62622512	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	70	123	0	0.564516	0	G|0.956;A|0.044	0.044	strong	.	OR52I1	29	.	NM_001005169	exon1	c.G589A	p.V197M	GACCCCGTGCCCA	.	PASS	Atlas-SNP
ASIC2	40	hgsc.bcm.edu	37	17	32483237	32483237	+	Silent	SNP	A	A	G	rs2228990	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	57	73	0	0.982759	0	A|0.761;G|0.239	0.239	strong	.	.	.	.	NM_001094	exon1	c.T315C	p.N105N	CAGGTCATTGGTG	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	7010233	7010233	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	254	52	211	0	0.204724	0	.	.	none	.	LAMA1	458	.	NM_005559	exon26	c.G3839A	p.G1280E	CTCACTCCATTCT	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7735063	7735063	+	Missense_Mutation	SNP	T	T	G	rs57985356	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	60	105	0	0.454545	0	T|0.921;G|0.079	0.079	strong	.	DNAH2	498	.	NM_020877	exon81	c.T12696G	p.F4232L	CATCTTTGATGCC	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82544987	82544987	+	Silent	SNP	A	A	G	rs17156844	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	66	165	0	0.5	0	A|0.591;G|0.409	0.409	strong	.	PCLO	1506	.	NM_014510	exon7	c.T12315C	p.H4105H	ATAACTATGCAAT	.	PASS	Atlas-SNP
EXD3	54932	hgsc.bcm.edu	37	9	140267490	140267490	+	Missense_Mutation	SNP	G	G	A	rs143312119	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	16	50	0	0.444444	0	G|0.982;A|0.018	0.018	strong	.	EXD3	86	.	NM_017820	exon5	c.C329T	p.A110V	TTGACCGCTCGGG	.	PASS	Atlas-SNP
COL9A2	1298	hgsc.bcm.edu	37	1	40773123	40773123	+	Missense_Mutation	SNP	G	G	C	rs2228567	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	31	102	1	0.402597	0.00980392	G|0.909;C|0.091	0.091	strong	COL9A2,NS,lymphoid_neoplasm,0,1	COL9A2	63	1	NM_001852	exon19	c.C1003G	p.L335V	CCGCTAGGCCCTG	.	scavenged	Atlas-SNP
EIF2B5	8893	hgsc.bcm.edu	37	3	183861243	183861243	+	Missense_Mutation	SNP	A	A	G	rs843358	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	73	102	0	0.55303	0	T|0.002;G|0.345	0.345	strong	.	EIF2B5	62	.	NM_003907	exon13	c.A1759G	p.I587V	TATAACATAAGTC	.	PASS	Atlas-SNP
KIR3DL1	3811	hgsc.bcm.edu	37	19	55331419	55331419	+	Missense_Mutation	SNP	C	C	T	rs2273731	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	46	3	0	0.365079	0	C|0.250;T|0.750	0.750	weak	KIR3DL1_ENST00000402254,NS,neuroblastoma,0,2	KIR3DL1	174	2	NM_013289	exon4	c.C607T	p.P203S	CACACCCCCTATC	.	PASS	Atlas-SNP
ADNP2	22850	hgsc.bcm.edu	37	18	77895192	77895192	+	Silent	SNP	G	G	A	rs3744878	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	48	73	0	0.564706	0	G|0.871;A|0.129	0.129	strong	.	ADNP2	102	.	NM_014913	exon4	c.G1896A	p.A632A	CCTTGCGACTGTC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187539217	187539217	+	Silent	SNP	G	G	A	rs3733405	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	49	121	0	0.382812	0	G|0.923;A|0.077	0.077	strong	.	FAT1	500	.	NM_005245	exon10	c.C8523T	p.N2841N	TTGGCCGTTGGTT	.	PASS	Atlas-SNP
IFNAR2	3455	hgsc.bcm.edu	37	21	34614250	34614250	+	Missense_Mutation	SNP	T	T	C	rs2229207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	39	92	0	0.4875	0	T|0.904;C|0.096	0.096	strong	.	IFNAR2	44	.	NM_207585	exon2	c.T23C	p.F8S	ATGCCTTCATCTT	.	PASS	Atlas-SNP
OR9K2	441639	hgsc.bcm.edu	37	12	55524314	55524314	+	Silent	SNP	T	T	C	rs7137261	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	50	93	0	0.537634	0	T|0.674;C|0.326	0.326	strong	.	OR9K2	63	.	NM_001005243	exon1	c.T762C	p.H254H	GATACATTCTACT	.	PASS	Atlas-SNP
SUN1	23353	hgsc.bcm.edu	37	7	881668	881668	+	Missense_Mutation	SNP	C	C	T	rs6461378	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	84	84	0	0.724138	0	C|0.476;T|0.524	0.524	strong	.	SUN1	157	.	NM_001171945	exon5	c.C415T	p.H139Y	GTCAGCCACGGCG	.	PASS	Atlas-SNP
BMP2	650	hgsc.bcm.edu	37	20	6759706	6759706	+	Silent	SNP	C	C	T	rs13037675	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	17	38	0	0.377778	0	C|0.943;T|0.057	0.057	strong	.	BMP2	45	.	NM_001200	exon3	c.C1161T	p.D387D	TCAGGACATGGTT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470148	10470148	+	Missense_Mutation	SNP	G	G	A	rs74400517	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	17	40	0	0.414634	0	G|0.934;A|0.066	0.066	strong	.	RP1L1	453	.	NM_178857	exon4	c.C1460T	p.A487V	ATCTGGGCAGAGG	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24658063	24658063	+	Missense_Mutation	SNP	C	C	G	rs2486668	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	71	153	1	0.525926	0.00653595	C|0.823;G|0.177	0.177	strong	GRHL3,NS,carcinoma,0,1	GRHL3	69	1	NM_021180	exon2	c.C180G	p.D60E	TGATGACAGTGTT	.	scavenged	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99126513	99126513	+	Silent	SNP	C	C	T	rs45527941	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	18	43	0	0.486486	0	C|0.962;T|0.038	0.038	strong	.	RRP12	97	.	NM_015179	exon27	c.G3201A	p.Q1067Q	TTTGCCCTGGGCG	.	PASS	Atlas-SNP
IGDCC3	9543	hgsc.bcm.edu	37	15	65621441	65621441	+	Missense_Mutation	SNP	C	C	A	rs12907128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	104	97	0	0.990476	0	C|0.461;A|0.539	0.539	strong	IGDCC3,NS,carcinoma,0,1	IGDCC3	82	1	NM_004884	exon14	c.G2251T	p.V751L	GCAGCACGGAGAG	.	PASS	Atlas-SNP
OSBPL5	114879	hgsc.bcm.edu	37	11	3141744	3141744	+	Silent	SNP	C	C	T	rs34950527	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	46	77	0	0.469388	0	C|0.870;T|0.130	0.130	strong	OSBPL5,NS,carcinoma,0,1	OSBPL5	78	1	NM_020896	exon6	c.G513A	p.L171L	GCAGTGCAGCAGC	.	PASS	Atlas-SNP
DDOST	1650	hgsc.bcm.edu	37	1	20980799	20980799	+	Silent	SNP	G	G	A	rs34189097	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	31	104	0	0.292453	0	G|0.999;A|0.001	0.001	strong	DDOST,caecum,carcinoma,-1,1	DDOST	30	1	NM_005216	exon7	c.C762T	p.R254R	GATGACGCGGGCA	.	PASS	Atlas-SNP
SBDS	51119	hgsc.bcm.edu	37	7	66459256	66459256	+	Silent	SNP	T	T	C	rs1061695	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	33	81	0	0.464789	0	T|0.923;C|0.077	0.077	strong	.	SBDS	20	.	NM_016038	exon2	c.A201G	p.K67K	TTCCTTTTTGGCA	.	PASS	Atlas-SNP
SLIT3	6586	hgsc.bcm.edu	37	5	168176517	168176517	+	Silent	SNP	A	A	G	rs2304035	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	44	68	0	0.564103	0	A|0.541;G|0.459	0.459	strong	.	SLIT3	224	.	NM_001271946	exon19	c.T2097C	p.I699I	GATGGGAATCTCC	.	PASS	Atlas-SNP
DNM2	1785	hgsc.bcm.edu	37	19	10939884	10939884	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	44	76	0	0.556962	0	.	.	none	.	DNM2	175	.	NM_001005361	exon19	c.T2231C	p.V744A	GCACTGTGTCCAC	.	PASS	Atlas-SNP
CPNE1	8904	hgsc.bcm.edu	37	20	34220755	34220755	+	Missense_Mutation	SNP	C	C	T	rs11543244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	40	89	0	0.416667	0	T|0.057;C|0.943	0.057	strong	.	CPNE1	44	.	NM_003915	exon2	c.G106A	p.V36I	AAAGGACGCAGAG	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2165395	2165395	+	Missense_Mutation	SNP	G	G	A	rs138575342	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	21	80	0	0.3	0	.	.	weak	PKD1,NS,carcinoma,0,1	PKD1	184	1	NM_000296	exon10	c.C2081T	p.P694L	GCGGGGGGCCCCG	.	scavenged	Atlas-SNP
ENTPD3	956	hgsc.bcm.edu	37	3	40468896	40468896	+	Missense_Mutation	SNP	C	C	T	rs1047855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	180	123	140	1	0.683333	0.00714286	C|0.754;T|0.246	0.246	strong	ENTPD3,NS,carcinoma,-1,1	ENTPD3	48	1	NM_001248	exon11	c.C1487T	p.A496V	TCACAGCGGCAGC	.	scavenged	Atlas-SNP
UEVLD	55293	hgsc.bcm.edu	37	11	18555901	18555901	+	Silent	SNP	C	C	G	rs56151250	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	21	38	0	0.403846	0	C|0.794;G|0.206	0.206	strong	.	UEVLD	58	.	NM_001040697	exon11	c.G1224C	p.V408V	AGAATGCACTTTC	.	PASS	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	37	4	8603117	8603117	+	Missense_Mutation	SNP	A	A	T	rs35993494	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	12	5	2	0	0.416667	0	A|0.884;T|0.116	0.116	strong	.	CPZ	95	.	NM_001014447	exon3	c.A389T	p.Q130L	TCTGCCAGCCCGC	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	37	17	80899349	80899349	+	Missense_Mutation	SNP	T	T	C	rs2292969	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	12	31	0	0.48	0	T|0.994;C|0.006	0.006	strong	.	TBCD	94	.	NM_005993	exon38	c.T3554C	p.L1185P	CCCAGCTGGTGCC	.	PASS	Atlas-SNP
MAP3K19	80122	hgsc.bcm.edu	37	2	135745129	135745129	+	Missense_Mutation	SNP	G	G	A	rs16831235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	76	180	0	0.517007	0	G|0.865;A|0.135	0.135	strong	.	.	.	.	NM_025052	exon7	c.C1313T	p.T438I	AGTACAGTACACT	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39914748	39914748	+	Missense_Mutation	SNP	G	G	A	rs31726	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	118	104	0	1	0	G|0.463;A|0.537	0.537	strong	.	PLEKHG2	329	.	NM_022835	exon19	c.G2975A	p.R992K	AGCATAGAAGTCA	.	PASS	Atlas-SNP
ODC1	4953	hgsc.bcm.edu	37	2	10580967	10580967	+	Silent	SNP	G	G	A	rs1049500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	33	61	0	0.485294	0	G|0.827;A|0.173	0.173	strong	.	ODC1	40	.	NM_002539	exon12	c.C1269T	p.P423P	GAAGTCGGGGTTC	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39137387	39137387	+	Missense_Mutation	SNP	C	C	T	rs2010027	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	30	84	0	0.447761	0	C|0.658;T|0.342	0.342	strong	.	KRT40	27	.	NM_182497	exon6	c.G704A	p.R235H	TGTTCACGAAGCA	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72832135	72832135	+	Silent	SNP	T	T	A	rs740178	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	171	153	0	1	0	T|0.159;A|0.841	0.841	strong	.	ZFHX3	404	.	NM_006885	exon9	c.A4446T	p.A1482A	GTCCTCTGCCAGA	.	PASS	Atlas-SNP
DIP2A	23181	hgsc.bcm.edu	37	21	47985655	47985655	+	Silent	SNP	C	C	T	rs2248636	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	50	77	0	0.568182	0	C|0.861;T|0.139	0.139	strong	.	DIP2A	332	.	NM_015151	exon36	c.C4194T	p.T1398T	TGCCACCGGGTAC	.	PASS	Atlas-SNP
INMT	11185	hgsc.bcm.edu	37	7	30791848	30791848	+	Missense_Mutation	SNP	G	G	A	rs4723010	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	105	63	0	1	0	G|0.696;A|0.304	0.304	strong	.	INMT	38	.	NM_001199219	exon1	c.G82A	p.D28N	AGCTTCGATGGCA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152283283	152283283	+	Missense_Mutation	SNP	C	C	T	rs11586631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	92	127	0	0.582278	0	C|0.851;T|0.149	0.149	strong	.	FLG	900	.	NM_002016	exon3	c.G4079A	p.R1360H	TGGTGGCGGGATC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9075635	9075635	+	Silent	SNP	G	G	A	rs2547070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	237	127	196	1	0.535865	0.00510204	G|0.788;A|0.212	0.212	strong	.	MUC16	4315	.	NM_024690	exon3	c.C11811T	p.S3937S	TGTGGTGGACTCA	.	PASS	Atlas-SNP
PIF1	80119	hgsc.bcm.edu	37	15	65108504	65108504	+	Missense_Mutation	SNP	A	A	T	rs17802279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	39	73	0	0.47561	0	A|0.627;N|0.001	.	strong	.	PIF1	43	.	NM_025049	exon13	c.T1919A	p.I640N	CAGAGGATTGGGT	.	PASS	Atlas-SNP
HIST1H2AC	8334	hgsc.bcm.edu	37	6	26124634	26124634	+	Silent	SNP	C	C	T	rs4645	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	110	123	0	1	0	C|0.857;T|0.143	0.143	strong	HIST1H2AC,NS,carcinoma,+1,1	HIST1H2AC	29	1	NM_003512	exon1	c.C174T	p.Y58Y	AGAGTACCTGACC	.	PASS	Atlas-SNP
TTC38	55020	hgsc.bcm.edu	37	22	46685380	46685380	+	Silent	SNP	C	C	T	rs11705624	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	31	84	0	0.397436	0	C|0.932;T|0.068	0.068	strong	.	TTC38	40	.	NM_017931	exon12	c.C1164T	p.D388D	TGAGGACGGGAAC	.	PASS	Atlas-SNP
TOPBP1	11073	hgsc.bcm.edu	37	3	133327457	133327457	+	Silent	SNP	T	T	C	rs1051772	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	87	106	0	0.587838	0	T|0.900;C|0.100	0.100	strong	.	TOPBP1	218	.	NM_007027	exon27	c.A4347G	p.S1449S	AACTCCTGAGTCA	.	PASS	Atlas-SNP
OXCT2	64064	hgsc.bcm.edu	37	1	40235448	40235448	+	Missense_Mutation	SNP	C	C	T	rs783834	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	449	88	398	0	0.195991	0	C|0.800;T|0.200	0.200	strong	.	OXCT2	12	.	NM_022120	exon1	c.G1480A	p.D494N	TGATGTCGTCCAC	.	PASS	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140237158	140237158	+	Missense_Mutation	SNP	G	G	A	rs142356019	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	79	73	0	0.49375	0	G|0.957;A|0.043	0.043	strong	.	PCDHA10	358	.	NM_031859	exon1	c.G1525A	p.V509M	GTGTCGGTGCACG	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	37	12	78530979	78530979	+	Silent	SNP	G	G	A	rs1852464	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	50	124	0	0.45045	0	G|0.382;A|0.618	0.618	strong	.	NAV3	506	.	NM_014903	exon19	c.G4464A	p.Q1488Q	GTCTCAGTTTAAC	.	PASS	Atlas-SNP
ALG11	440138	hgsc.bcm.edu	37	13	52598799	52598799	+	Silent	SNP	G	G	A	rs61958802	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	81	127	0	0.632812	0	G|0.967;A|0.033	0.033	strong	.	ALG11	39	.	NM_001004127	exon3	c.G933A	p.P311P	TAGGCCGGAAAAG	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14816829	14816829	+	Missense_Mutation	SNP	G	G	C	rs7041710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	11	47	0	0.297297	0	G|0.856;C|0.144	0.144	strong	.	FREM1	261	.	NM_144966	exon16	c.C2587G	p.L863V	CCAAGAGTAGGTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179611809	179611809	+	Silent	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	12	168	0	0.0731707	0	.	.	none	.	TTN	18412	.	NM_133379	exon46	c.T15318C	p.Y5106Y	TGTGGAATATCGC	.	PASS	Atlas-SNP
KRT38	8687	hgsc.bcm.edu	37	17	39595484	39595484	+	Nonsense_Mutation	SNP	G	G	A	rs148768443	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	9	46	0	0.1	0	G|0.975;A|0.025	0.025	strong	KRT38,NS,carcinoma,0,7	KRT38	63	7	NM_006771	exon3	c.C703T	p.Q235X	AGAGCTGCTCCTC	.	PASS	Atlas-SNP
POTEG	404785	hgsc.bcm.edu	37	14	19553556	19553556	+	Missense_Mutation	SNP	G	G	A	rs79489020	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	636	92	712	1	0.144654	0.00140449	G|0.968;A|0.032	0.032	strong	POTEG,NS,malignant_melanoma,+1,1	POTEG	118	1	NM_001005356	exon1	c.G140A	p.G47E	CTTCTGGAGACCA	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97852229	97852229	+	Missense_Mutation	SNP	T	T	A	rs9849637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	235	126	208	0	0.53617	0	T|0.779;A|0.221	0.221	strong	.	OR5H1	71	.	NM_001005338	exon1	c.T688A	p.S230T	AAGAAATCTGATA	.	PASS	Atlas-SNP
FBXO7	25793	hgsc.bcm.edu	37	22	32887150	32887150	+	Silent	SNP	C	C	T	rs9726	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	43	110	0	0.421569	0	C|0.583;T|0.417	0.417	strong	FBXO7_ENST00000266087,NS,carcinoma,0,1	FBXO7	131	1	NM_012179	exon6	c.C949T	p.L317L	CCTCTTCTGGCTT	.	PASS	Atlas-SNP
GART	2618	hgsc.bcm.edu	37	21	34883618	34883618	+	Missense_Mutation	SNP	T	T	C	rs8971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	174	67	162	0	0.385057	0	T|0.835;C|0.165	0.165	strong	.	GART	81	.	NM_001136005	exon17	c.A2255G	p.D752G	TGGATATCCCTCA	.	PASS	Atlas-SNP
PDIK1L	149420	hgsc.bcm.edu	37	1	26448447	26448447	+	Silent	SNP	A	A	G	rs17257107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	70	135	0	0.510949	0	A|0.835;G|0.165	0.165	strong	.	PDIK1L	19	.	NM_001243532	exon3	c.A405G	p.K135K	CAGGAAACCCAAT	.	PASS	Atlas-SNP
PLEKHA7	144100	hgsc.bcm.edu	37	11	16837788	16837788	+	Silent	SNP	G	G	A	rs217750	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	32	66	0	0.5	0	G|0.854;A|0.146	0.146	strong	.	PLEKHA7	120	.	NM_175058	exon12	c.C1890T	p.R630R	CATGGAGCGTCGG	.	PASS	Atlas-SNP
IPO5	3843	hgsc.bcm.edu	37	13	98645253	98645253	+	Silent	SNP	A	A	G	rs626716	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	41	61	0	0.539474	0	A|0.901;G|0.099	0.099	strong	.	IPO5	90	.	NM_002271	exon10	c.A831G	p.L277L	AACTCTACAGCTA	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	6986464	6986464	+	Missense_Mutation	SNP	G	G	C	rs35826653	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	60	106	0	0.487805	0	G|0.923;C|0.077	0.077	strong	.	KDM4C	186	.	NM_001146696	exon11	c.G1541C	p.S514T	TGTCTAGTGGCTA	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	37	4	85630087	85630087	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	3	235	0	0.0148515	0	.	.	none	WDFY3,NS,carcinoma,+1,1	WDFY3	314	1	NM_014991	exon53	c.G8192A	p.W2731X	AGGATCCAGGGGA	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280788	152280788	+	Missense_Mutation	SNP	T	T	G	rs66954353	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	358	125	234	0	0.349162	0	T|0.500;G|0.500	0.500	strong	.	FLG	900	.	NM_002016	exon3	c.A6574C	p.K2192Q	ATGTTTTTCTGCT	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37438725	37438725	+	Missense_Mutation	SNP	C	C	G	rs200260827	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	18	182	0	0.0913706	0	C|0.993;G|0.007	0.007	strong	ANKRD30A,trunk,malignant_melanoma,0,1	ANKRD30A	448	1	NM_052997	exon11	c.C1425G	p.N475K	GCAAAACTCTGTT	.	PASS	Atlas-SNP
NDUFB10	4716	hgsc.bcm.edu	37	16	2009697	2009697	+	Silent	SNP	C	C	T	rs2302175	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	57	106	0	0.495652	0	C|0.906;T|0.094	0.094	strong	.	NDUFB10	17	.	NM_004548	exon1	c.C72T	p.I24I	TCCCATCGTCTAC	.	PASS	Atlas-SNP
SHROOM2	357	hgsc.bcm.edu	37	X	9863112	9863112	+	Silent	SNP	A	A	G	rs6530341	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	31	42	0	0.96875	0	A|0.805;0|0.004	.	strong	.	SHROOM2	139	.	NM_001649	exon4	c.A1164G	p.P388P	CTGCCCACAGGAG	.	PASS	Atlas-SNP
HIVEP2	3097	hgsc.bcm.edu	37	6	143081035	143081035	+	Silent	SNP	A	A	G	rs9496457	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	85	135	0	0.537975	0	A|0.844;G|0.156	0.156	strong	.	HIVEP2	225	.	NM_006734	exon9	c.T6390C	p.S2130S	TCTAGGAGAGAGG	.	PASS	Atlas-SNP
ADAM15	8751	hgsc.bcm.edu	37	1	155033308	155033308	+	Silent	SNP	G	G	A	rs11589479	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	38	29	0	0.974359	0	G|0.889;A|0.111	0.111	strong	.	ADAM15	92	.	NM_001261464	exon19	c.G2307A	p.K769K	CACTAAGGTGAGT	.	PASS	Atlas-SNP
ZNF778	197320	hgsc.bcm.edu	37	16	89294798	89294798	+	Missense_Mutation	SNP	A	A	G	rs118093429	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	22	53	0	0.407407	0	A|0.964;G|0.036	0.036	strong	.	ZNF778	67	.	NM_001201407	exon7	c.A2102G	p.Y701C	AACCCTATAAATG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169521853	169521853	+	Missense_Mutation	SNP	A	A	G	rs6033	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	254	85	160	0	0.334646	0	A|0.946;G|0.054	0.054	strong	F5,larynx,carcinoma,-1,1	F5	301	1	NM_000130	exon8	c.T1238C	p.M413T	TCTTTCATATTGG	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32363955	32363955	+	Silent	SNP	T	T	C	rs2076529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	52	91	0	0.477064	0	T|0.636;C|0.364	0.364	strong	.	BTNL2	50	.	NM_019602	exon5	c.A939G	p.V313V	CACCAGTACAGTC	.	PASS	Atlas-SNP
MOCOS	55034	hgsc.bcm.edu	37	18	33831189	33831189	+	Missense_Mutation	SNP	C	C	A	rs594445	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	37	44	0	0.560606	0	C|0.776;A|0.224	0.224	strong	.	MOCOS	84	.	NM_017947	exon11	c.C2107A	p.H703N	CCTTGTCATTTGA	.	PASS	Atlas-SNP
PNP	4860	hgsc.bcm.edu	37	14	20940606	20940606	+	Missense_Mutation	SNP	G	G	A	rs1049564	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	55	86	0	0.639535	0	G|0.786;A|0.214	0.214	strong	PNP,NS,carcinoma,0,1	PNP	21	1	NM_000270	exon2	c.G151A	p.G51S	GACTACGGTGAAA	.	PASS	Atlas-SNP
NANOS3	342977	hgsc.bcm.edu	37	19	13988416	13988416	+	Silent	SNP	A	A	G	rs2016163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	48	51	0	0.96	0	A|0.677;G|0.323	0.323	strong	NANOS3,NS,carcinoma,0,1	NANOS3	19	1	NM_001098622	exon1	c.A354G	p.T118T	CGCCACACGTGAG	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77675505	77675505	+	Missense_Mutation	SNP	C	C	T	rs3733242	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	71	124	0	0.537879	0	C|0.508;T|0.492	0.492	strong	.	SHROOM3	134	.	NM_020859	exon7	c.C3869T	p.P1290L	TGCTGCCGCTCTT	.	PASS	Atlas-SNP
FRRS1	391059	hgsc.bcm.edu	37	1	100203648	100203648	+	Silent	SNP	C	C	T	rs7537296	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	166	76	179	0	0.457831	0	C|0.486;T|0.514	0.514	strong	.	FRRS1	50	.	NM_001013660	exon7	c.G753A	p.Q251Q	CATCCACTGATCA	.	PASS	Atlas-SNP
LMOD2	442721	hgsc.bcm.edu	37	7	123301940	123301940	+	Silent	SNP	A	A	G	rs7809453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	23	56	0	0.365079	0	A|0.535;G|0.465	0.465	strong	.	LMOD2	62	.	NM_207163	exon2	c.A300G	p.E100E	AAGTGAAGAAGAG	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	124157798	124157798	+	Silent	SNP	C	C	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	72	95	0	0.549618	0	.	.	none	KALRN_ENST00000360013,caecum,carcinoma,0,2	KALRN	556	2	NM_003947	exon18	c.C3106A	p.R1036R	GGTGGACGAGATA	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88789709	88789709	+	Missense_Mutation	SNP	C	C	T	rs191656121	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	18	19	0	0.473684	0	C|0.999;T|0.001	0.001	strong	.	PIEZO1	79	.	NM_001142864	exon32	c.G4363A	p.A1455T	CCTGGGCGTTGGT	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42143118	42143118	+	Missense_Mutation	SNP	T	T	C	rs78489122	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	48	122	0	0.48	0	T|0.980;C|0.020	0.020	strong	.	SPTBN5	171	.	NM_016642	exon66	c.A10750G	p.I3584V	ACAGGATCTCTGC	.	PASS	Atlas-SNP
CRELD2	79174	hgsc.bcm.edu	37	22	50320943	50320943	+	Silent	SNP	C	C	T	rs1608	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	68	173	0	0.43871	0	C|0.875;T|0.125	0.125	strong	.	CRELD2	57	.	NM_001135101	exon11	c.C1197T	p.R399R	CTCCCGCGAAGAC	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88783100	88783100	+	Missense_Mutation	SNP	T	T	C	rs1803382	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	24	46	0	0.444444	0	T|0.811;C|0.189	0.189	strong	.	PIEZO1	79	.	NM_001142864	exon47	c.A6793G	p.I2265V	TGACGATGTCCTC	.	PASS	Atlas-SNP
GC	2638	hgsc.bcm.edu	37	4	72618334	72618334	+	Missense_Mutation	SNP	A	A	C	rs7041	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	117	140	0	0.991525	0	A|0.597;C|0.403	0.403	strong	GC,NS,carcinoma,0,1	GC	132	1	NM_001204307	exon12	c.T1353G	p.D451E	TGTGGCATCAGGC	.	PASS	Atlas-SNP
ANGPTL7	10218	hgsc.bcm.edu	37	1	11255008	11255008	+	Silent	SNP	T	T	C	rs2076658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	53	97	0	0.407692	0	T|0.937;C|0.063	0.063	strong	ANGPTL7,NS,carcinoma,0,1	ANGPTL7	23	1	NM_021146	exon5	c.T969C	p.Y323Y	CTGGTATGGCTGG	.	PASS	Atlas-SNP
HPS1	3257	hgsc.bcm.edu	37	10	100195130	100195130	+	Silent	SNP	G	G	A	rs11539873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	40	62	0	0.5	0	G|0.942;A|0.058	0.058	strong	.	HPS1	65	.	NM_000195	exon5	c.C297T	p.T99T	GCTCTCGGTGTGG	.	PASS	Atlas-SNP
DYTN	391475	hgsc.bcm.edu	37	2	207564537	207564537	+	Silent	SNP	C	C	T	rs113447424	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	71	125	1	0.486301	0.008	C|0.997;T|0.003	0.003	strong	DYTN,medulla,primitive_neuroectodermal_tumour-medulloblastoma,-1,1	DYTN	168	1	NM_001093730	exon7	c.G633A	p.P211P	GCAGGTCGGGAGC	.	scavenged	Atlas-SNP
MRPS9	64965	hgsc.bcm.edu	37	2	105713697	105713697	+	Silent	SNP	A	A	G	rs15567	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	19	59	0	0.327586	0	T|0.000;G|0.203;C|0.000;A|0.797	0.203	strong	.	MRPS9	32	.	NM_182640	exon10	c.A1014G	p.S338S	GAGGTCAGCGCAG	.	PASS	Atlas-SNP
R3HDML	140902	hgsc.bcm.edu	37	20	42973935	42973935	+	Silent	SNP	T	T	C	rs11697359	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	36	61	0	0.4	0	T|0.901;C|0.099	0.099	strong	R3HDML,NS,carcinoma,0,1	R3HDML	33	1	NM_178491	exon4	c.T546C	p.C182C	GGGCTGTGCCATC	.	PASS	Atlas-SNP
KIR3DL3	115653	hgsc.bcm.edu	37	19	55247306	55247306	+	Silent	SNP	A	A	G	rs78728155		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	33	27	0	0.634615	0	.	.	weak	KIR3DL3,NS,carcinoma,0,2	KIR3DL3	46	2	NM_153443	exon7	c.A1074G	p.Q358Q	GGACCAAGAGCCT	.	PASS	Atlas-SNP
DTX1	1840	hgsc.bcm.edu	37	12	113532617	113532617	+	Silent	SNP	A	A	G	rs12427377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	64	109	0	0.438356	0	A|0.898;G|0.102	0.102	strong	DTX1,NS,carcinoma,0,1	DTX1	83	1	NM_004416	exon6	c.A1251G	p.R417R	GGAGCGACTGGTC	.	PASS	Atlas-SNP
KCNK17	89822	hgsc.bcm.edu	37	6	39267230	39267230	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	43	82	0	0.597222	0	.	.	none	.	KCNK17	61	.	NM_031460	exon5	c.C972T	p.H324H	TGCAGCGTGAGCA	.	PASS	Atlas-SNP
HEXDC	284004	hgsc.bcm.edu	37	17	80393704	80393704	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	15	30	0	0.357143	0	.	.	none	.	HEXDC	43	.	NM_173620	exon6	c.T587C	p.V196A	CCCTGGTGTGGGA	.	PASS	Atlas-SNP
NUDT7	283927	hgsc.bcm.edu	37	16	77769834	77769834	+	Missense_Mutation	SNP	G	G	A	rs308925	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	72	136	0	0.483221	0	G|0.801;N|0.001	.	strong	.	NUDT7	47	.	NM_001243657	exon3	c.G299A	p.R100H	GTCTCCGTCCTCA	.	PASS	Atlas-SNP
OR7C1	26664	hgsc.bcm.edu	37	19	14910210	14910210	+	Missense_Mutation	SNP	C	C	G	rs73004304	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	28	85	0	0.394366	0	C|0.801;G|0.199	0.199	strong	.	OR7C1	58	.	NM_198944	exon1	c.G739C	p.V247L	TGACCACTGAGAG	.	PASS	Atlas-SNP
CACNA2D1	781	hgsc.bcm.edu	37	7	81588636	81588636	+	Silent	SNP	G	G	A	rs1229502	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	31	72	0	0.449275	0	G|0.750;A|0.250	0.250	strong	CACNA2D1,NS,carcinoma,0,1	CACNA2D1	191	1	NM_000722	exon38	c.C3114T	p.P1038P	GTATCTGGGTTGC	.	PASS	Atlas-SNP
PPP1R15B	84919	hgsc.bcm.edu	37	1	204379452	204379452	+	Missense_Mutation	SNP	T	T	C	rs2089891	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	42	75	0	0.403846	0	T|0.945;C|0.055	0.055	strong	.	PPP1R15B	67	.	NM_032833	exon1	c.A1088G	p.E363G	ATTTTTTCTTCAG	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39135214	39135214	+	Silent	SNP	T	T	C	rs8068970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	49	74	0	0.538462	0	T|0.653;C|0.347	0.347	strong	.	KRT40	27	.	NM_182497	exon8	c.A1038G	p.Q346Q	CTGAATTTGGGCC	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177902387	177902387	+	Missense_Mutation	SNP	C	C	A	rs61745560	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	35	62	0	0.460526	0	C|0.774;A|0.226	0.226	strong	.	SEC16B	92	.	NM_033127	exon22	c.G2785T	p.A929S	CTCCAGCGGGGGA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281007	152281007	+	Missense_Mutation	SNP	A	A	G	rs7512553	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	423	175	248	1	0.413712	0.00403226	A|0.030;G|0.970	0.970	strong	FLG,brain,glioma,+2,1	FLG	900	1	NM_002016	exon3	c.T6355C	p.Y2119H	GATCATAATGGGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506569	195506569	+	Missense_Mutation	SNP	A	A	G	rs201891747	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	19	38	28	0.703704	0.736842	.	.	weak	MUC4_ENST00000463781,NS,lymphoid_neoplasm,0,1	MUC4	1505	1	NM_018406	exon2	c.T11882C	p.V3961A	GTGGATACTGAGG	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9083124	9083124	+	Silent	SNP	G	G	A	rs12608495	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	87	127	0	0.47541	0	G|0.840;A|0.160	0.160	strong	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon1	c.C8691T	p.V2897V	ACTTGGGACCTCA	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1270349	1270349	+	Silent	SNP	T	T	C	rs4247094	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	5	5	2	0	1	0	T|0.102;C|0.898	0.898	strong	.	CACNA1H	317	.	NM_021098	exon35	c.T6417C	p.D2139D	CGTGGATGCTCAG	.	PASS	Atlas-SNP
G6PC2	57818	hgsc.bcm.edu	37	2	169764176	169764176	+	Missense_Mutation	SNP	G	G	C	rs492594	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	255	254	285	0	0.996078	0	G|0.584;C|0.416	0.416	strong	G6PC2,NS,carcinoma,0,1	G6PC2	44	1	NM_021176	exon5	c.G655C	p.V219L	TTTGCAGTTGGCT	.	PASS	Atlas-SNP
KLK4	9622	hgsc.bcm.edu	37	19	51412668	51412668	+	Missense_Mutation	SNP	A	A	C	rs1654551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	45	100	0	0.473684	0	A|0.875;C|0.125	0.125	strong	KLK4,colon,carcinoma,+2,2	KLK4	46	2	NM_004917	exon2	c.T64G	p.S22A	CGAGCGATCCTGA	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228547901	228547901	+	Silent	SNP	C	C	T	rs12035900	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	33	54	1	0.611111	0.0185185	C|0.727;T|0.273	0.273	strong	OBSCN_ENST00000284548,NS,carcinoma,0,1	OBSCN	2142	1	NM_052843	exon81	c.C19308T	p.D6436D	CGGAGACGCCTTT	.	scavenged	Atlas-SNP
KIAA0368	23392	hgsc.bcm.edu	37	9	114195587	114195587	+	Silent	SNP	G	G	A	rs2297530	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	38	76	0	0.469136	0	G|0.908;A|0.092	0.092	strong	.	KIAA0368	144	.	NM_001080398	exon9	c.C1308T	p.H436H	CACCAAGTGGAGA	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	37	3	10085536	10085536	+	Silent	SNP	A	A	G	rs34046352	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	37	69	0	0.321739	0	A|0.876;G|0.124	0.124	strong	.	FANCD2	253	.	NM_001018115	exon14	c.A1122G	p.V374V	CTCAGTATCTGAA	.	PASS	Atlas-SNP
LCA5	167691	hgsc.bcm.edu	37	6	80228535	80228535	+	Missense_Mutation	SNP	T	T	G	rs34068461	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	207	105	157	0	0.507246	0	T|0.843;G|0.157	0.157	strong	.	LCA5	71	.	NM_001122769	exon2	c.A77C	p.D26A	TCAAAATCAGATA	.	PASS	Atlas-SNP
KRT27	342574	hgsc.bcm.edu	37	17	38935876	38935876	+	Missense_Mutation	SNP	C	C	T	rs17558532	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	38	41	0	0.567164	0	C|0.849;T|0.151	0.151	strong	.	KRT27	41	.	NM_181537	exon5	c.G850A	p.A284T	GCGAGGCGCTCTG	.	PASS	Atlas-SNP
CTAGE4	100128553	hgsc.bcm.edu	37	7	143882673	143882673	+	Missense_Mutation	SNP	C	C	T	rs62484795		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	200	92	131	1	0.46	0.00763359	.	.	weak	CTAGE4,NS,carcinoma,0,1	CTAGE4	10	1	NM_198495	exon1	c.C2077T	p.L693F	CCTGGCCTTATTC	.	scavenged	Atlas-SNP
ZNF302	55900	hgsc.bcm.edu	37	19	35175208	35175208	+	Missense_Mutation	SNP	A	A	G	rs2290652	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	110	203	0	0.558376	0	A|0.726;G|0.274	0.274	strong	.	ZNF302	27	.	NM_018443	exon5	c.A266G	p.Y89C	ATATTTATGATGA	.	PASS	Atlas-SNP
C22orf43	51233	hgsc.bcm.edu	37	22	23974200	23974200	+	Missense_Mutation	SNP	A	A	G	rs3827318	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	50	141	0	0.442478	0	A|0.842;G|0.156	0.156	strong	.	C22orf43	18	.	NM_016449	exon1	c.T11C	p.I4T	GTCAGTATATTCC	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31379115	31379115	+	Missense_Mutation	SNP	G	G	A	rs1131896	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	39	71	0	0.506494	0	G|0.689;A|0.311	0.311	strong	.	MICA	21	.	NM_001177519	exon3	c.G592A	p.G198S	GAATCCGGCGTAG	.	PASS	Atlas-SNP
ZDHHC7	55625	hgsc.bcm.edu	37	16	85015541	85015541	+	Silent	SNP	G	G	A	rs16975086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	201	99	200	0	0.492537	0	G|0.870;A|0.129	0.129	strong	.	ZDHHC7	55	.	NM_001145548	exon5	c.C486T	p.P162P	TTCCCCGGGCTTC	.	PASS	Atlas-SNP
ZNF354A	6940	hgsc.bcm.edu	37	5	178140090	178140090	+	Silent	SNP	C	C	T	rs1132336	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	32	82	0	0.516129	0	C|0.762;T|0.238	0.238	strong	ZNF354A,NS,carcinoma,0,1	ZNF354A	74	1	NM_005649	exon5	c.G789A	p.T263T	AGTATGCGTTATT	.	PASS	Atlas-SNP
MMP2	4313	hgsc.bcm.edu	37	16	55536763	55536763	+	Silent	SNP	C	C	G	rs11541998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	20	54	0	0.512821	0	C|0.933;G|0.067	0.067	strong	.	MMP2	119	.	NM_004530	exon12	c.C1842G	p.P614P	CATCCCCGATAAC	.	PASS	Atlas-SNP
CCDC138	165055	hgsc.bcm.edu	37	2	109408159	109408159	+	Missense_Mutation	SNP	G	G	T	rs35794776	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	30	56	0	0.491803	0	G|0.942;T|0.058	0.058	strong	.	CCDC138	49	.	NM_144978	exon4	c.G295T	p.D99Y	TTCCATGATTTGA	.	PASS	Atlas-SNP
OPRD1	4985	hgsc.bcm.edu	37	1	29189597	29189597	+	Silent	SNP	C	C	T	rs2234918	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	63	0	1	0	C|0.504;T|0.496	0.496	strong	OPRD1,rectum,carcinoma,0,1	OPRD1	36	1	NM_000911	exon3	c.C921T	p.G307G	GCTGGGCTACGCC	.	PASS	Atlas-SNP
HTR3C	170572	hgsc.bcm.edu	37	3	183777328	183777328	+	Silent	SNP	C	C	T	rs138181384	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	44	122	0	0.328358	0	C|0.999;T|0.001	0.001	strong	.	HTR3C	65	.	NM_130770	exon7	c.C825T	p.S275S	AGAGAGCGAGAAT	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50728062	50728062	+	Missense_Mutation	SNP	T	T	C	rs28379706	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	33	43	0	0.540984	0	T|0.543;C|0.457	0.457	strong	.	PLXNB2	172	.	NM_012401	exon3	c.A952G	p.K318E	GCACCTTGTCCAG	.	PASS	Atlas-SNP
SAMM50	25813	hgsc.bcm.edu	37	22	44360335	44360335	+	Missense_Mutation	SNP	G	G	A	rs143095808	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	221	87	196	0	0.393665	0	G|0.997;A|0.003	0.003	strong	.	SAMM50	30	.	NM_015380	exon3	c.G136A	p.V46I	TAGGTGGTTGTTC	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887603	52887603	+	Missense_Mutation	SNP	G	G	A	rs78052167	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	13	40	0	0.288889	0	G|0.978;A|0.022	0.022	strong	ZNF880,colon,carcinoma,+1,1	ZNF880	45	1	NM_001145434	exon4	c.G770A	p.R257Q	TTGCACGACATCA	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46786315	46786315	+	Missense_Mutation	SNP	T	T	C	rs4044210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	19	65	0	0.404255	0	T|0.693;C|0.307	0.307	strong	.	CELSR1	242	.	NM_014246	exon17	c.A6319G	p.I2107V	AGGAGATGGTGGT	.	PASS	Atlas-SNP
EPS8L1	54869	hgsc.bcm.edu	37	19	55598724	55598724	+	Missense_Mutation	SNP	A	A	G	rs1054940	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	46	37	0	1	0	A|0.559;G|0.441	0.441	strong	EPS8L1_ENST00000245618,NS,carcinoma,0,2	EPS8L1	122	2	NM_133180	exon19	c.A2006G	p.K669R	TGCAGAAGGAGGA	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195452987	195452987	+	Missense_Mutation	SNP	G	G	A	rs9866681	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	397	106	316	0	0.267003	0	G|0.891;A|0.109	0.109	strong	.	MUC20	84	.	NM_152673	exon3	c.G1000A	p.A334T	AACAGCGCCACAG	.	PASS	Atlas-SNP
GAL3ST2	64090	hgsc.bcm.edu	37	2	242743357	242743357	+	Missense_Mutation	SNP	G	G	A	rs78253117	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	17	40	0	0.515152	0	G|0.962;A|0.038	0.038	strong	.	GAL3ST2	34	.	NM_022134	exon4	c.G973A	p.G325S	CAGGACGGCGGCG	.	PASS	Atlas-SNP
VWA5B1	127731	hgsc.bcm.edu	37	1	20680718	20680718	+	Missense_Mutation	SNP	G	G	A	rs2072751	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	83	178	0	0.471591	0	G|0.772;A|0.228	0.228	strong	.	VWA5B1	44	.	NM_001039500	exon22	c.G3610A	p.E1204K	AATCTCGAGTTCA	.	PASS	Atlas-SNP
HPS4	89781	hgsc.bcm.edu	37	22	26860269	26860269	+	Missense_Mutation	SNP	G	G	C	rs2014410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	20	52	0	0.444444	0	G|0.640;C|0.360	0.360	strong	.	HPS4	123	.	NM_022081	exon11	c.C1327G	p.L443V	CTTCGAGCTGCTC	.	PASS	Atlas-SNP
RSBN1	54665	hgsc.bcm.edu	37	1	114354654	114354654	+	Silent	SNP	T	T	C	rs3195954	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	9	12	0	0.310345	0	T|0.861;C|0.139	0.139	strong	RSBN1,colon,carcinoma,0,2	RSBN1	71	2	NM_018364	exon1	c.A381G	p.P127P	ATTCGTTGGCGGC	.	PASS	Atlas-SNP
PAPL	0	hgsc.bcm.edu	37	19	39592138	39592138	+	Silent	SNP	C	C	T	rs1313617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	15	40	0	0.441176	0	C|0.765;T|0.235	0.235	strong	.	.	.	.	NM_001004318	exon11	c.C1074T	p.T358T	CTACACCAACCCG	.	PASS	Atlas-SNP
MPC1	51660	hgsc.bcm.edu	37	6	166779464	166779464	+	Silent	SNP	G	G	A	rs12205572	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	19	52	0	0.372549	0	G|0.962;A|0.038	0.038	strong	.	.	.	.	NM_001270879	exon4	c.C174T	p.H58H	TTACTCGTGTTTG	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42523528	42523528	+	Missense_Mutation	SNP	C	C	T	rs1058172	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	252	119	123	0	0.472222	0	C|0.908;T|0.092	0.092	strong	CYP2D6_ENST00000360608,NS,carcinoma,0,2	CYP2D6	104	2	NM_000106	exon7	c.G1094A	p.R365H	CCAAAGCGCTGCA	.	PASS	Atlas-SNP
OR52E4	390081	hgsc.bcm.edu	37	11	5906205	5906205	+	Missense_Mutation	SNP	G	G	A	rs4757987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	92	223	0	0.440191	0	G|0.588;A|0.412	0.412	strong	.	OR52E4	65	.	NM_001005165	exon1	c.G683A	p.R228H	TTTTTCGCCTTCC	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207755284	207755284	+	Silent	SNP	C	C	T	rs199697417	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	368	4	356	0	0.0108696	0	C|0.999;T|0.001	0.001	strong	CR1_ENST00000367049,NS,carcinoma,+1,2	CR1	354	2	NM_000651	exon32	c.C5238T	p.S1746S	CAGTTCCGTTAGT	.	scavenged	Atlas-SNP
ZBTB7B	51043	hgsc.bcm.edu	37	1	154987363	154987363	+	Missense_Mutation	SNP	G	G	T	rs145349387	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	30	50	0	0.38961	0	G|0.999;T|0.001	0.001	strong	.	ZBTB7B	69	.	NM_001252406	exon4	c.G329T	p.G110V	CCGGGGGTAGCGG	.	PASS	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5841926	5841926	+	Missense_Mutation	SNP	G	G	A	rs73394377	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	73	158	0	0.483444	0	G|0.939;A|0.061	0.061	strong	.	OR52N2	58	.	NM_001005174	exon1	c.G361A	p.A121T	CTCATGGCCCTGG	.	PASS	Atlas-SNP
SESTD1	91404	hgsc.bcm.edu	37	2	180047908	180047908	+	Silent	SNP	T	T	C	rs6757681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	56	72	0	0.504505	0	T|0.191;C|0.809	0.809	strong	.	SESTD1	66	.	NM_178123	exon3	c.A63G	p.K21K	TCTGTCTTTTCCT	.	PASS	Atlas-SNP
PCDHB13	56123	hgsc.bcm.edu	37	5	140595375	140595375	+	Silent	SNP	C	C	T	rs77651135		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	28	44	0	0.595745	0	.	.	weak	PCDHB13,NS,carcinoma,0,1	PCDHB13	142	1	NM_018933	exon1	c.C1680T	p.F560F	GCCCTTCGTGCTG	.	PASS	Atlas-SNP
ASTN2	23245	hgsc.bcm.edu	37	9	119739015	119739015	+	Silent	SNP	G	G	A	rs10983437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	40	49	0	0.506329	0	G|0.856;A|0.144	0.144	strong	.	ASTN2	307	.	NM_014010	exon7	c.C1488T	p.H496H	ACACAGGTGTCTG	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71236216	71236216	+	Silent	SNP	C	C	T	rs7740873	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	59	141	0	0.393333	0	C|0.734;T|0.266	0.266	strong	.	FAM135A	181	.	NM_001162529	exon13	c.C3429T	p.N1143N	TATAAACATGCCT	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	37	9	32481339	32481339	+	Missense_Mutation	SNP	C	C	T	rs61752945	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	38	88	1	0.487179	0.0113636	C|0.987;T|0.013	0.013	strong	DDX58,colon,carcinoma,-1,1	DDX58	82	1	NM_014314	exon11	c.G1637A	p.R546Q	CGTACCCGCAAAT	.	scavenged	Atlas-SNP
TICRR	90381	hgsc.bcm.edu	37	15	90169192	90169192	+	Silent	SNP	C	C	T	rs75843552	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	19	45	0	0.5	0	C|0.990;T|0.010	0.010	strong	.	.	.	.	NM_152259	exon21	c.C5502T	p.A1834A	CTGTGCCGTGCGG	.	PASS	Atlas-SNP
MRPS9	64965	hgsc.bcm.edu	37	2	105705507	105705507	+	Silent	SNP	C	C	T	rs11538198	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	14	4	48	0	0.285714	0	C|0.797;T|0.203	0.203	strong	.	MRPS9	32	.	NM_182640	exon6	c.C555T	p.L185L	TCTGCTCCCAGAA	.	PASS	Atlas-SNP
SOX7	83595	hgsc.bcm.edu	37	8	10583506	10583506	+	Silent	SNP	A	A	G	rs4841432	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	53	100	0	0.56383	0	A|0.526;G|0.474	0.474	strong	.	SOX7	50	.	NM_031439	exon2	c.T909C	p.L303L	CGGGGAAAGCTGG	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32487265	32487265	+	Missense_Mutation	SNP	C	C	G	rs139485758	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	15	150	7	0.0980392	0.0466667	A|0.003;C|0.930;G|0.067	0.067	strong	HLA-DRB5,NS,NS,0,1	HLA-DRB5	31	1	NM_002125	exon3	c.G534C	p.Q178H	TCCATTCTGAATC	.	scavenged	Atlas-SNP
C11orf24	53838	hgsc.bcm.edu	37	11	68030015	68030015	+	Missense_Mutation	SNP	C	C	T	rs901827	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	59	105	0	0.546296	0	C|0.589;A|0.002	.	strong	.	C11orf24	35	.	NM_022338	exon4	c.G448A	p.A150T	AGGCTGCAGTCGT	.	PASS	Atlas-SNP
SH2D4B	387694	hgsc.bcm.edu	37	10	82369219	82369219	+	Missense_Mutation	SNP	T	T	A	rs17107368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	32	78	0	0.450704	0	T|0.847;A|0.153	0.153	strong	SH2D4B,colon,carcinoma,+2,1	SH2D4B	44	1	NM_207372	exon6	c.T897A	p.D299E	CAGAGATGTCATC	.	PASS	Atlas-SNP
EDNRA	1909	hgsc.bcm.edu	37	4	148461073	148461073	+	Silent	SNP	G	G	A	rs5334	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	48	115	0	0.444444	0	G|0.644;A|0.356	0.356	strong	EDNRA,NS,carcinoma,+1,2	EDNRA	48	2	NM_001957	exon6	c.G1005A	p.E335E	TAACGAGATGGAC	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84778697	84778697	+	Missense_Mutation	SNP	G	G	C	rs1812061	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	41	93	0	0.445652	0	G|0.896;C|0.104	0.104	strong	.	USP10	51	.	NM_001272075	exon5	c.G622C	p.V208L	CCGTCAGTTACGC	.	PASS	Atlas-SNP
EEA1	8411	hgsc.bcm.edu	37	12	93258665	93258665	+	Silent	SNP	A	A	G	rs17194451	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	57	77	0	0.6	0	A|0.756;G|0.244	0.244	strong	.	EEA1	104	.	NM_003566	exon3	c.T216C	p.H72H	TCCTCCATGACCT	.	PASS	Atlas-SNP
JAG2	3714	hgsc.bcm.edu	37	14	105615514	105615514	+	Silent	SNP	G	G	A	rs368778866		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	53	52	0	0.514563	0	.	.	weak	.	JAG2	69	.	NM_002226	exon13	c.C1746T	p.A582A	TCTGCAGGCCCCG	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609855	32609855	+	Silent	SNP	A	A	C	rs1048173	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	36	238	0	0.318584	0	A|0.726;C|0.274	0.274	strong	.	HLA-DQA1	52	.	NM_002122	exon3	c.A438C	p.T146T	CATCACATGGCTG	.	PASS	Atlas-SNP
NIPSNAP3A	25934	hgsc.bcm.edu	37	9	107515214	107515214	+	Missense_Mutation	SNP	G	G	A	rs2274870	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	150	205	0	0.993378	0	G|0.331;A|0.669	0.669	strong	.	NIPSNAP3A	18	.	NM_015469	exon3	c.G299A	p.R100Q	AAGTTCGGAAAGC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97790211	97790211	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	5	165	5	0.0247525	0.030303	.	.	none	ANKRD36_ENST00000420699,extremity,malignant_melanoma,0,2	ANKRD36	170	2	NM_001164315	exon5	c.A608T	p.H203L	TCATACATGCTGT	.	scavenged	Atlas-SNP
HELB	92797	hgsc.bcm.edu	37	12	66725202	66725202	+	Missense_Mutation	SNP	C	C	T	rs1168312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	31	53	0	0.469697	0	C|0.844;T|0.156	0.156	strong	.	HELB	90	.	NM_033647	exon12	c.C2939T	p.T980I	CCAGCACACCGTC	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1255773	1255773	+	Silent	SNP	C	C	T	rs7116614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	62	122	0	0.53913	0	C|0.647;T|0.353	0.353	strong	MUC5B,NS,carcinoma,0,2	MUC5B	473	2	NM_002458	exon21	c.C2493T	p.C831C	ACACTGCGTGTCC	.	PASS	Atlas-SNP
INPP5B	3633	hgsc.bcm.edu	37	1	38411445	38411445	+	Silent	SNP	G	G	A	rs871524	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	119	61	137	0	0.512605	0	G|0.734;A|0.266	0.266	strong	.	INPP5B	76	.	NM_005540	exon3	c.C135T	p.H45H	GCCGCCGTGCTCC	.	PASS	Atlas-SNP
KLHL25	64410	hgsc.bcm.edu	37	15	86312681	86312681	+	Silent	SNP	G	G	A	rs11073537	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	20	64	0	0.434783	0	G|0.803;A|0.197	0.197	strong	.	KLHL25	58	.	NM_022480	exon2	c.C361T	p.L121L	CCTCCAGCAGTGA	.	PASS	Atlas-SNP
NEUROG1	4762	hgsc.bcm.edu	37	5	134870913	134870913	+	Silent	SNP	G	G	A	rs8192559	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	46	64	0	0.613333	0	G|0.941;A|0.059	0.059	strong	.	NEUROG1	18	.	NM_006161	exon1	c.C468T	p.P156P	GCCTCCGGGCAGC	.	PASS	Atlas-SNP
MLIP	90523	hgsc.bcm.edu	37	6	53883843	53883843	+	Missense_Mutation	SNP	G	G	A	rs17625497	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	74	86	0	0.973684	0	G|0.784;A|0.216	0.216	strong	.	MLIP	84	.	NM_138569	exon1	c.G17A	p.R6H	AAAAGCGTGAAAA	.	PASS	Atlas-SNP
GLRX5	51218	hgsc.bcm.edu	37	14	96010424	96010424	+	Missense_Mutation	SNP	G	G	A	rs11628901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	32	65	0	0.463768	0	G|0.897;A|0.103	0.103	strong	.	GLRX5	7	.	NM_016417	exon2	c.G436A	p.A146T	CACTCCGCCCTTT	.	PASS	Atlas-SNP
ZNF418	147686	hgsc.bcm.edu	37	19	58437773	58437773	+	Silent	SNP	T	T	C	rs184676943	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	8	83	0	0.166667	0	T|0.988;C|0.012	0.012	strong	.	ZNF418	76	.	NM_133460	exon4	c.A1776G	p.E592E	CCTGCATTCATAA	.	PASS	Atlas-SNP
CAMTA1	23261	hgsc.bcm.edu	37	1	7723534	7723534	+	Silent	SNP	G	G	A	rs3737907	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	59	96	0	0.546296	0	G|0.883;A|0.117	0.117	strong	CAMTA1,NS,carcinoma,+1,1	CAMTA1	226	1	NM_015215	exon9	c.G927A	p.S309S	CGTGTCGGAGGGC	.	PASS	Atlas-SNP
PRDM10	56980	hgsc.bcm.edu	37	11	129801043	129801043	+	Silent	SNP	C	C	T	rs2277033	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	182	181	155	1	0.994505	0.00645161	C|0.395;T|0.605	0.605	strong	.	PRDM10	120	.	NM_020228	exon11	c.G1398A	p.Q466Q	GGTTTCCTGTGGC	.	PASS	Atlas-SNP
OR2B6	26212	hgsc.bcm.edu	37	6	27925827	27925827	+	Missense_Mutation	SNP	A	A	G	rs9380030	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	31	82	0	0.442857	0	A|0.962;G|0.038	0.038	strong	.	OR2B6	48	.	NM_012367	exon1	c.A809G	p.Q270R	AGGACCAAGGAAA	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	37	3	10138069	10138069	+	Silent	SNP	T	T	G	rs2272125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	34	61	0	0.365591	0	T|0.743;G|0.257	0.257	strong	.	FANCD2	253	.	NM_001018115	exon42	c.T4098G	p.L1366L	GGAACTTTTAGTT	.	PASS	Atlas-SNP
RNPEP	6051	hgsc.bcm.edu	37	1	201969082	201969082	+	Silent	SNP	G	G	A	rs1130790	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	70	95	0	0.416667	0	G|0.652;A|0.348	0.348	strong	RNPEP,NS,carcinoma,0,2	RNPEP	39	2	NM_020216	exon6	c.G1143A	p.Q381Q	GCGTCAGCACATG	.	PASS	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4790204	4790204	+	Missense_Mutation	SNP	C	C	G	rs61731839	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	32	63	0	0.64	0	C|0.973;G|0.027	0.027	strong	.	C16orf71	46	.	NM_139170	exon4	c.C327G	p.N109K	ACAGAACACAAGG	.	PASS	Atlas-SNP
LMO2	4005	hgsc.bcm.edu	37	11	33886294	33886294	+	Silent	SNP	A	A	G	rs2038602	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	79	0	1	0	A|0.546;G|0.454	0.454	strong	.	LMO2	21	.	NM_005574	exon5	c.T318C	p.I106I	GTCCCCAATGTTC	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8191184	8191184	+	Missense_Mutation	SNP	C	C	T	rs35025963	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	42	87	0	0.442105	0	C|0.760;T|0.240	0.240	strong	.	FBN3	300	.	NM_032447	exon20	c.G2602A	p.D868N	TACCATCGCAGGT	.	PASS	Atlas-SNP
SEC14L6	730005	hgsc.bcm.edu	37	22	30927975	30927975	+	Missense_Mutation	SNP	C	C	T	rs5749118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	19	52	0	0.395833	0	C|0.135;T|0.865	0.865	strong	.	SEC14L6	6	.	NM_001193336	exon6	c.G434A	p.R145K	TCCACCCTCTTCC	.	PASS	Atlas-SNP
ARHGAP28	79822	hgsc.bcm.edu	37	18	6890434	6890434	+	Silent	SNP	A	A	G	rs1116757	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	323	186	236	0	0.575851	0	A|0.426;G|0.574	0.574	strong	.	ARHGAP28	181	.	NM_001010000	exon13	c.A1263G	p.P421P	GGTTCCATCTTTC	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141752213	141752213	+	Silent	SNP	C	C	A	rs2961085	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	23	54	0	0.45098	0	C|0.723;A|0.277	0.277	strong	MGAM_ENST00000549489,NS,carcinoma,0,4	MGAM	767	4	NM_004668	exon25	c.C2925A	p.A975A	TTCTGCCGAAAAC	.	PASS	Atlas-SNP
HK2	3099	hgsc.bcm.edu	37	2	75101454	75101454	+	Silent	SNP	T	T	C	rs2229622	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	207	108	231	0	0.521739	0	T|0.680;C|0.320	0.320	strong	.	HK2	85	.	NM_000189	exon7	c.T753C	p.D251D	AGGCGATGAGGGG	.	PASS	Atlas-SNP
HSPB9	94086	hgsc.bcm.edu	37	17	40274873	40274873	+	Missense_Mutation	SNP	A	A	C	rs1122326	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	17	36	0	0.53125	0	A|0.661;C|0.339	0.339	strong	.	HSPB9	11	.	NM_033194	exon1	c.A5C	p.Q2P	GGATGCAGAGAGT	.	PASS	Atlas-SNP
KCNK12	56660	hgsc.bcm.edu	37	2	47748388	47748388	+	Silent	SNP	G	G	A	rs115862926	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	12	16	0	0.631579	0	G|0.998;A|0.002	0.002	strong	.	KCNK12	11	.	NM_022055	exon2	c.C951T	p.C317C	CGCGCAGCAGCGG	.	PASS	Atlas-SNP
CLCNKB	1188	hgsc.bcm.edu	37	1	16377999	16377999	+	Silent	SNP	C	C	T	rs6650118	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	228	99	212	0	0.434211	0	C|0.884;T|0.116	0.116	strong	.	CLCNKB	50	.	NM_000085	exon13	c.C1254T	p.T418T	CACCACCATCCCC	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	141461185	141461185	+	Silent	SNP	A	A	G	rs3735802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	18	36	0	0.367347	0	A|0.436;G|0.564	0.564	strong	.	TRAPPC9	114	.	NM_031466	exon2	c.T582C	p.F194F	CTTCTCAAAGGTC	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26749831	26749831	+	Silent	SNP	G	G	A	rs2230377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	26	76	0	0.371429	0	G|0.780;A|0.220	0.220	strong	.	ITPR2	270	.	NM_002223	exon31	c.C4239T	p.D1413D	GCAGTCGTCATGG	.	PASS	Atlas-SNP
ATP13A5	344905	hgsc.bcm.edu	37	3	192994543	192994543	+	Missense_Mutation	SNP	A	A	G	rs2271791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	171	66	119	0	0.385965	0	A|0.649;G|0.351	0.351	strong	.	ATP13A5	171	.	NM_198505	exon29	c.T3392C	p.V1131A	ACCTCTACAAAGA	.	PASS	Atlas-SNP
LGALS9	3965	hgsc.bcm.edu	37	17	25970633	25970633	+	Missense_Mutation	SNP	G	G	A	rs61732238	byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	318	149	309	0	0.468553	0	G|0.833;A|0.167	0.167	strong	.	LGALS9	29	.	NM_009587	exon5	c.G527A	p.G176E	CCAGGGGGCGCAG	.	PASS	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	37	10	50678317	50678317	+	Missense_Mutation	SNP	C	C	G	rs4253211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	367	159	356	1	0.433242	0.00280899	C|0.930;G|0.070	0.070	strong	ERCC6,NS,carcinoma,0,1	ERCC6	162	1	NM_000124	exon18	c.A3689C	p.K1230T	TGGTAACGCCTTT	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155485554	155485554	+	Silent	SNP	G	G	A	rs1032141	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	29	0	1	0	G|0.435;A|0.565	0.565	strong	.	TIAM2	161	.	NM_012454	exon7	c.G2034A	p.Q678Q	GATCCAGCAATGG	.	PASS	Atlas-SNP
CHSY1	22856	hgsc.bcm.edu	37	15	101717888	101717888	+	Missense_Mutation	SNP	C	C	T	rs62621399	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	57	114	0	0.537736	0	C|0.907;G|0.000;T|0.093	0.093	strong	CHSY1,colon,carcinoma,-1,1	CHSY1	60	1	NM_014918	exon3	c.G2114A	p.R705Q	CCCACTCGGACAA	.	PASS	Atlas-SNP
PRRG2	5639	hgsc.bcm.edu	37	19	50091763	50091763	+	Missense_Mutation	SNP	G	G	A	rs117225796	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	37	58	0	0.596774	0	G|0.995;A|0.005	0.005	strong	.	PRRG2	13	.	NM_000951	exon5	c.G311A	p.R104Q	GTGGACGAGTGGA	.	PASS	Atlas-SNP
DNAJB8	165721	hgsc.bcm.edu	37	3	128181537	128181537	+	Silent	SNP	C	C	T	rs2953129	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	149	87	0	1	0	C|0.820;T|0.180	0.180	strong	.	DNAJB8	34	.	NM_153330	exon3	c.G552A	p.S184S	GGTGGACGACATC	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373006	5373006	+	Missense_Mutation	SNP	T	T	C	rs7483122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	53	132	0	0.424	0	T|0.768;C|0.232	0.232	strong	.	OR51B6	53	.	NM_001004750	exon1	c.T269C	p.I90T	GGGAGATTGGCCA	.	PASS	Atlas-SNP
NCAM2	4685	hgsc.bcm.edu	37	21	22746187	22746187	+	Missense_Mutation	SNP	T	T	C	rs232518	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	37	53	0	1	0	C|0.391;N|0.000	0.391	strong	.	NCAM2	220	.	NM_004540	exon9	c.T1049C	p.L350P	AGAGCCTGGACGG	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95234392	95234392	+	Silent	SNP	A	A	C	rs3777202	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	254	105	273	0	0.413386	0	A|0.674;C|0.326	0.326	strong	ELL2,NS,carcinoma,-1,1	ELL2	63	1	NM_012081	exon8	c.T1077G	p.S359S	TGCAGCAGATTTT	.	PASS	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	37	19	53856702	53856702	+	Missense_Mutation	SNP	G	G	A	rs200114728		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	3	62	0	0.038961	0	.	.	weak	ZNF845,NS,carcinoma,0,6	ZNF845	101	6	NM_138374	exon4	c.G2774A	p.R925H	CCTTCCGTCACAA	.	scavenged	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167034814	167034814	+	Silent	SNP	T	T	C	rs13068132	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	216	108	189	0	0.5	0	T|0.678;C|0.322	0.322	strong	ZBBX_ENST00000455345,NS,carcinoma,0,2	ZBBX	299	2	NM_024687	exon14	c.A1173G	p.L391L	TATCTTTAGAGAT	.	PASS	Atlas-SNP
KIAA0020	9933	hgsc.bcm.edu	37	9	2838470	2838470	+	Missense_Mutation	SNP	C	C	T	rs10968457	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	68	151	0	0.447368	0	C|0.958;T|0.042	0.042	strong	.	KIAA0020	56	.	NM_014878	exon2	c.G38A	p.S13N	TTTGTACTCTTTC	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229772693	229772693	+	Missense_Mutation	SNP	T	T	G	rs3811473	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	69	142	0	0.475862	0	T|0.464;G|0.536	0.536	strong	.	URB2	152	.	NM_014777	exon4	c.T2333G	p.V778G	AGGAAGTCTCAAT	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33036950	33036950	+	Silent	SNP	C	C	T	rs2308931	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	24	61	0	0.358209	0	C|0.869;T|0.131	0.131	strong	.	HLA-DPA1	20	.	NM_033554	exon3	c.G474A	p.L158L	AGTGACCAGCTCC	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	37	4	860192	860192	+	Silent	SNP	A	A	G	rs1064207	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	85	110	0	1	0	A|0.389;G|0.611	0.611	strong	.	GAK	104	.	NM_005255	exon22	c.T3003C	p.S1001S	CGGAGCACTGTGG	.	PASS	Atlas-SNP
ITPR1	3708	hgsc.bcm.edu	37	3	4856234	4856234	+	Silent	SNP	G	G	A	rs901854	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	97	82	0	1	0	G|0.382;A|0.618	0.618	strong	.	ITPR1	659	.	NM_001168272	exon57	c.G7644A	p.K2548K	CAGGAAGCCGTCC	.	PASS	Atlas-SNP
A2ML1	144568	hgsc.bcm.edu	37	12	9013755	9013755	+	Missense_Mutation	SNP	C	C	T	rs1860967	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	75	139	0	0.5	0	C|0.568;T|0.432	0.432	strong	A2ML1,NS,lymphoid_neoplasm,-2,1	A2ML1	199	1	NM_144670	exon28	c.C3364T	p.R1122W	GGTCTACGGTGTC	.	PASS	Atlas-SNP
PNPLA7	375775	hgsc.bcm.edu	37	9	140356721	140356721	+	Silent	SNP	C	C	T	rs78453847	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	132	60	115	0	0.454545	0	C|0.987;T|0.013	0.013	strong	.	PNPLA7	124	.	NM_001098537	exon31	c.G3555A	p.E1185E	CACCACCTCCAGC	.	PASS	Atlas-SNP
SASH1	23328	hgsc.bcm.edu	37	6	148792617	148792617	+	Silent	SNP	A	A	G	rs1883625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	207	107	190	0	0.516908	0	A|0.811;G|0.189	0.189	strong	.	SASH1	123	.	NM_015278	exon6	c.A492G	p.G164G	GAAAGGAATAATG	.	PASS	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	37	5	56161787	56161787	+	Silent	SNP	G	G	A	rs832575	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	73	150	0	0.565891	0	G|0.196;A|0.803	0.803	strong	.	MAP3K1	355	.	NM_005921	exon6	c.G1284A	p.T428T	TTCTACGTCTAGT	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144995964	144995964	+	Silent	SNP	G	G	A	rs35139934	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	37	43	0	0.468354	0	G|0.948;A|0.052	0.052	strong	.	PLEC	1144	.	NM_201380	exon32	c.C8436T	p.G2812G	GGTGTGGCCCTGC	.	PASS	Atlas-SNP
MACC1	346389	hgsc.bcm.edu	37	7	20198440	20198440	+	Missense_Mutation	SNP	G	G	A	rs975263	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	44	76	0	0.349206	0	G|0.652;N|0.000	.	strong	.	MACC1	99	.	NM_182762	exon5	c.C1544T	p.S515L	AGATTCGAGAGTC	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78910241	78910241	+	Missense_Mutation	SNP	A	A	C	rs2842480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	73	163	0	0.506944	0	A|0.770;C|0.230	0.230	strong	.	PCSK5	329	.	NM_001190482	exon26	c.A3236C	p.E1079A	GTGAGGAAGTGGA	.	PASS	Atlas-SNP
CRAMP1L	57585	hgsc.bcm.edu	37	16	1682281	1682281	+	Silent	SNP	A	A	G	rs3169425	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	31	67	0	0.329787	0	A|0.586;G|0.414	0.414	strong	CRAMP1L,NS,carcinoma,+1,2	CRAMP1L	60	2	NM_020825	exon3	c.A609G	p.A203A	GCCAGCAAGCATG	.	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	37	14	23899027	23899027	+	Silent	SNP	C	C	T	rs735711	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	36	34	0	0.521739	0	T|0.131;G|0.000;C|0.869	0.131	strong	.	MYH7	349	.	NM_000257	exon12	c.G1095A	p.K365K	CTTCAGCTTGAAC	.	PASS	Atlas-SNP
OR2H2	7932	hgsc.bcm.edu	37	6	29555864	29555864	+	Missense_Mutation	SNP	C	C	T	rs1233387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	63	125	0	0.425676	0	C|0.722;T|0.278	0.278	strong	OR2H2,NS,carcinoma,0,1	OR2H2	29	1	NM_007160	exon1	c.C143T	p.A48V	TGTCTGCGCTGGA	.	PASS	Atlas-SNP
MYRIP	25924	hgsc.bcm.edu	37	3	40286017	40286017	+	Silent	SNP	T	T	C	rs4618168	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	230	228	199	0	0.991304	0	T|0.418;C|0.582	0.582	strong	.	MYRIP	98	.	NM_015460	exon13	c.T2181C	p.S727S	CCACAGTGGCACT	.	PASS	Atlas-SNP
KRT16	3868	hgsc.bcm.edu	37	17	39767731	39767731	+	Missense_Mutation	SNP	G	G	A	rs148173278	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	147	70	128	0	0.47619	0	G|0.997;A|0.003	0.003	strong	.	KRT16	45	.	NM_005557	exon3	c.C637T	p.R213W	TCTGCCGCAGGGC	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62675664	62675664	+	Silent	SNP	G	G	A	rs200931139		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	15	104	0	0.192308	0	.	.	weak	.	L1TD1	114	.	NM_001164835	exon5	c.G1218A	p.E406E	GGAGGAGGAGGAA	.	PASS	Atlas-SNP
CLEC4C	170482	hgsc.bcm.edu	37	12	7894056	7894056	+	Missense_Mutation	SNP	G	G	A	rs73056605	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	61	101	0	0.535088	0	G|0.766;A|0.234	0.234	strong	CLEC4C,NS,carcinoma,+2,2	CLEC4C	44	2	NM_130441	exon4	c.C196T	p.P66S	GGCTTGGATGATA	.	PASS	Atlas-SNP
ITM2C	81618	hgsc.bcm.edu	37	2	231738168	231738168	+	Missense_Mutation	SNP	G	G	A	rs2289235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	54	114	0	0.457627	0	G|0.531;A|0.469	0.469	strong	.	ITM2C	17	.	NM_030926	exon2	c.G157A	p.G53S	AGGGGGGGCTCAG	.	PASS	Atlas-SNP
MED22	6837	hgsc.bcm.edu	37	9	136208442	136208442	+	Silent	SNP	C	C	T	rs78711238	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	62	120	0	0.466165	0	C|0.988;T|0.012	0.012	strong	.	MED22	13	.	NM_133640	exon5	c.G516A	p.A172A	CGGGGACGCCAGC	.	PASS	Atlas-SNP
STK31	56164	hgsc.bcm.edu	37	7	23811795	23811795	+	Missense_Mutation	SNP	T	T	G	rs10263079	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	100	113	0	0.641026	0	T|0.843;G|0.157	0.157	strong	.	STK31	175	.	NM_031414	exon15	c.T1863G	p.N621K	TTTAAATAAGAGT	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57180473	57180473	+	Missense_Mutation	SNP	C	C	A	rs6823339	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	61	61	51	0	1	0	C|0.703;A|0.297	0.297	strong	.	KIAA1211	178	.	NM_020722	exon8	c.C805A	p.L269I	CAGGAGCTCTTGG	.	PASS	Atlas-SNP
ATXN1	6310	hgsc.bcm.edu	37	6	16327918	16327918	+	Missense_Mutation	SNP	C	C	A	rs28555263		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	6	31	0	0.171429	0	C|0.500;A|0.500	0.500	weak	ATXN1,rectum,carcinoma,0,1	ATXN1	117	1	NM_001128164	exon7	c.G624T	p.Q208H	CTGATGCTGCTGC	.	PASS	Atlas-SNP
C2orf49	79074	hgsc.bcm.edu	37	2	105959592	105959592	+	Missense_Mutation	SNP	G	G	A	rs28930676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	27	92	0	0.473684	0	G|0.949;A|0.051	0.051	strong	.	C2orf49	19	.	NM_024093	exon3	c.G554A	p.G185D	CTTCAGGCCCTGT	.	PASS	Atlas-SNP
SGTA	6449	hgsc.bcm.edu	37	19	2762585	2762585	+	Silent	SNP	A	A	C	rs2302491	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	39	95	0	0.378641	0	A|0.635;C|0.365	0.365	strong	.	SGTA	19	.	NM_003021	exon7	c.T555G	p.A185A	CTCCAGAGCCTTC	.	PASS	Atlas-SNP
ARRDC2	27106	hgsc.bcm.edu	37	19	18123738	18123738	+	Missense_Mutation	SNP	T	T	C	rs7259041	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	19	37	0	0.527778	0	T|0.697;C|0.303	0.303	strong	.	ARRDC2	60	.	NM_015683	exon8	c.T1187C	p.L396P	ACCCACTCTTGGG	.	PASS	Atlas-SNP
FLVCR2	55640	hgsc.bcm.edu	37	14	76045858	76045858	+	Silent	SNP	G	G	A	rs2287016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	50	75	0	0.47619	0	G|0.599;A|0.401	0.401	strong	.	FLVCR2	39	.	NM_017791	exon1	c.G543A	p.V181V	CACCGTGGTGGGC	.	PASS	Atlas-SNP
CBX2	84733	hgsc.bcm.edu	37	17	77758691	77758691	+	Silent	SNP	G	G	A	rs3751957	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	24	53	0	0.470588	0	G|0.630;A|0.370	0.370	strong	CBX2,mucosal,malignant_melanoma,+2,1	CBX2	50	1	NM_005189	exon5	c.G1449A	p.P483P	GAACCCGTCAGTG	.	PASS	Atlas-SNP
SLC25A43	203427	hgsc.bcm.edu	37	X	118587003	118587003	+	Missense_Mutation	SNP	C	C	T	rs3810755	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	74	85	0	1	0	0|0.015;T|0.551	0.551	strong	.	SLC25A43	29	.	NM_145305	exon5	c.C1001T	p.P334L	GAAAACCGAAGCC	.	PASS	Atlas-SNP
AES	166	hgsc.bcm.edu	37	19	3062857	3062857	+	Silent	SNP	T	T	C	rs11539938	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	85	63	0	1	0	T|0.607;C|0.393	0.393	strong	.	AES	14	.	NM_198969	exon1	c.A69G	p.L23L	GAGCCTTAGTTTC	.	PASS	Atlas-SNP
NEIL3	55247	hgsc.bcm.edu	37	4	178231152	178231152	+	Silent	SNP	C	C	A	rs10013040	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	107	65	89	0	0.607477	0	C|0.815;A|0.184	0.184	strong	.	NEIL3	89	.	NM_018248	exon1	c.C45A	p.R15R	GATTCGCGCGCGG	.	PASS	Atlas-SNP
FOXA3	3171	hgsc.bcm.edu	37	19	46375779	46375779	+	Silent	SNP	C	C	T	rs16980091	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	26	58	0	0.5	0	C|0.807;T|0.193	0.193	strong	.	FOXA3	19	.	NM_004497	exon2	c.C516T	p.N172N	TTTCAACGACTGC	.	PASS	Atlas-SNP
TAF1	6872	hgsc.bcm.edu	37	X	70597546	70597546	+	Missense_Mutation	SNP	C	C	G	rs28382158	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	96	107	0	1	0	C|0.961;0|0.018	.	strong	.	TAF1	439	.	NM_004606	exon6	c.C868G	p.L290V	CGTGAGCTGATAC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187542736	187542736	+	Silent	SNP	T	T	C	rs35753072	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	87	202	0	0.47541	0	T|0.926;C|0.074	0.074	strong	.	FAT1	500	.	NM_005245	exon10	c.A5004G	p.T1668T	TTTTGATGTAAAC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9065510	9065510	+	Silent	SNP	G	G	A	rs1867692	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	26	46	0	0.565217	0	G|0.825;A|0.175	0.175	strong	.	MUC16	4315	.	NM_024690	exon3	c.C21936T	p.F7312F	AGTAGGGAACTTA	.	PASS	Atlas-SNP
KRT6C	286887	hgsc.bcm.edu	37	12	52863621	52863621	+	Silent	SNP	T	T	G	rs382367	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	59	123	0	0.406897	0	T|0.451;G|0.549	0.549	strong	.	KRT6C	55	.	NM_173086	exon7	c.A1257C	p.A419A	CTTGAGTGCCATC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32605295	32605295	+	Silent	SNP	C	C	T	rs1129735	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	71	133	0	0.78022	0	C|0.693;T|0.307	0.307	strong	.	HLA-DQA1	52	.	NM_002122	exon1	c.C60T	p.P20P	GAGCCCCTGTGGA	.	PASS	Atlas-SNP
SLC25A6	293	hgsc.bcm.edu	37	X	1508324	1508324	+	Silent	SNP	G	G	A	rs7205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	29	125	0	0.295918	0	G|0.691;A|0.309	0.309	strong	.	SLC25A6	27	.	NM_001636	exon2	c.C408T	p.F136F	TCTGGCGAAATCC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324603	31324603	+	Missense_Mutation	SNP	C	C	T	rs9266178	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	20	130	0	0.588235	0	C|0.719;T|0.281	0.281	strong	.	HLA-B	54	.	NM_005514	exon2	c.G205A	p.E69K	GCTCCTCTCTCGG	.	PASS	Atlas-SNP
SCUBE1	80274	hgsc.bcm.edu	37	22	43610106	43610106	+	Silent	SNP	C	C	T	rs34893532	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	25	51	0	0.520833	0	C|0.901;T|0.099	0.099	strong	.	SCUBE1	105	.	NM_173050	exon16	c.G2043A	p.S681S	ACATTCCGACACG	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	709001	709001	+	Missense_Mutation	SNP	C	C	A	rs4984906	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	68	88	0	0.985507	0	C|0.379;A|0.621	0.621	strong	.	WDR90	107	.	NM_145294	exon24	c.C3001A	p.P1001T	CTGGCCCCTACTG	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13902220	13902220	+	Missense_Mutation	SNP	T	T	C	rs1530498	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	19	55	0	0.431818	0	T|0.601;C|0.399	0.399	strong	.	DNAH5	868	.	NM_001369	exon13	c.A1672G	p.T558A	CAAATGTAACATC	.	PASS	Atlas-SNP
EP300	2033	hgsc.bcm.edu	37	22	41574383	41574383	+	Missense_Mutation	SNP	A	A	C	rs1046088	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	43	91	0	0.398148	0	A|0.977;C|0.023	0.023	strong	.	EP300	367	.	NM_001429	exon31	c.A6668C	p.Q2223P	CACAGCAGCAGCA	.	PASS	Atlas-SNP
AMOT	154796	hgsc.bcm.edu	37	X	112024157	112024157	+	Silent	SNP	G	G	T	rs2286063	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	42	52	0	1	0	G|0.899;T|0.101	0.101	strong	.	AMOT	204	.	NM_001113490	exon9	c.C2430A	p.I810I	TTCCATGATGGGG	.	PASS	Atlas-SNP
BPI	671	hgsc.bcm.edu	37	20	36940314	36940314	+	Missense_Mutation	SNP	C	C	T	rs5743509	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	28	94	0	0.444444	0	C|0.953;T|0.047	0.047	strong	BPI,NS,carcinoma,-1,1	BPI	67	1	NM_001725	exon5	c.C587T	p.A196V	AGTCTGCGCTTCG	.	PASS	Atlas-SNP
LZTS3	0	hgsc.bcm.edu	37	20	3147468	3147468	+	Silent	SNP	G	G	A	rs17853865	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	41	53	0	0.561644	0	G|0.830;A|0.170	0.170	strong	ProSAPiP1,NS,carcinoma,0,1	.	.	1	NM_014731	exon1	c.C342T	p.N114N	AACCACGTTGCCA	.	PASS	Atlas-SNP
SEC23A	10484	hgsc.bcm.edu	37	14	39517925	39517925	+	Silent	SNP	T	T	C	rs11556216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	18	10	13	0	0.555556	0	T|0.741;C|0.259	0.259	strong	.	SEC23A	73	.	NM_006364	exon15	c.A1668G	p.K556K	TCCAAATTTCTGA	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52351876	52351876	+	Silent	SNP	A	A	G	rs3212523	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	32	103	0	0.438356	0	A|0.897;G|0.103	0.103	strong	.	ITGA2	211	.	NM_002203	exon9	c.A993G	p.A331A	AAAAGCAATCGCT	.	PASS	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	37	1	247048834	247048834	+	Missense_Mutation	SNP	T	T	C	rs2642990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	264	261	301	0	0.988636	0	T|0.364;C|0.636	0.636	strong	.	AHCTF1	187	.	NM_015446	exon21	c.A2648G	p.N883S	ACATCGTTACCAC	.	PASS	Atlas-SNP
C1orf123	54987	hgsc.bcm.edu	37	1	53681699	53681699	+	Silent	SNP	T	T	G	rs1134688	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	28	42	0	0.54902	0	T|0.843;G|0.157	0.157	strong	.	C1orf123	9	.	NM_017887	exon7	c.A369C	p.S123S	TGTCCCTGACTCC	.	PASS	Atlas-SNP
ANGPTL4	51129	hgsc.bcm.edu	37	19	8431131	8431131	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	25	77	0	0.390625	0	.	.	none	.	ANGPTL4	21	.	NM_001039667	exon3	c.C475G	p.P159A	GCCAAGCCTGCCC	.	PASS	Atlas-SNP
GRB7	2886	hgsc.bcm.edu	37	17	37898909	37898909	+	Silent	SNP	A	A	C	rs36079893	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	41	85	0	0.460674	0	A|0.887;C|0.113	0.113	strong	.	GRB7	48	.	NM_001242442	exon3	c.A315C	p.P105P	GAGCCCAATTCTC	.	PASS	Atlas-SNP
SNX13	23161	hgsc.bcm.edu	37	7	17854532	17854532	+	Silent	SNP	G	G	T	rs2723501	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	42	64	0	0.617647	0	G|0.331;T|0.669	0.669	strong	.	SNX13	113	.	NM_015132	exon20	c.C1989A	p.P663P	TAAAGCGGGGGAT	.	PASS	Atlas-SNP
ZNF454	285676	hgsc.bcm.edu	37	5	178391902	178391902	+	Missense_Mutation	SNP	A	A	C	rs12719860	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	80	105	1	1	0.00952381	A|0.334;C|0.666	0.666	strong	.	ZNF454	99	.	NM_001178089	exon5	c.A497C	p.D166A	ACAGTGATCAAAG	.	PASS	Atlas-SNP
GAPDH	2597	hgsc.bcm.edu	37	12	6646320	6646320	+	Silent	SNP	T	T	C	rs1065691	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	13	16	0	0.590909	0	T|0.687;C|0.313	0.313	strong	.	GAPDH	20	.	NM_002046	exon6	c.T381C	p.D127D	TGCTGATGCCCCC	.	PASS	Atlas-SNP
C15orf56	644809	hgsc.bcm.edu	37	15	40544617	40544617	+	Missense_Mutation	SNP	G	G	A	rs55863440	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	31	29	0	1	0	G|0.812;A|0.188	0.188	strong	.	C15orf56	3	.	NM_001039905	exon2	c.C355T	p.P119S	CAGGTGGAGAGAA	.	PASS	Atlas-SNP
WFIKKN1	117166	hgsc.bcm.edu	37	16	681280	681280	+	Silent	SNP	G	G	T	rs4984905	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	25	25	0	0.568182	0	G|0.669;T|0.331	0.331	strong	.	WFIKKN1	30	.	NM_053284	exon1	c.G27T	p.P9P	CCTGCCGCTCCTG	.	PASS	Atlas-SNP
NFATC2	4773	hgsc.bcm.edu	37	20	50092193	50092193	+	Missense_Mutation	SNP	T	T	C	rs12479626	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	53	129	1	0.427419	0.00775194	T|0.992;C|0.008	0.008	strong	NFATC2,NS,carcinoma,0,1	NFATC2	112	1	NM_012340	exon4	c.A1337G	p.H446R	TAGCCATGGAGCT	.	scavenged	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84848596	84848596	+	Missense_Mutation	SNP	G	G	A	rs61733547	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	152	70	62	0	0.460526	0	G|0.971;A|0.029	0.029	strong	.	DNAH6	194	.	NM_001370	exon26	c.G3992A	p.R1331H	GGTGCCGTGATTT	.	PASS	Atlas-SNP
IGSF1	3547	hgsc.bcm.edu	37	X	130410965	130410965	+	Silent	SNP	A	A	G	rs4830219	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	70	67	0	1	0	A|0.663;0|0.005	.	strong	.	IGSF1	231	.	NM_001170961	exon14	c.T2571C	p.Y857Y	AAAGTCATAATAT	.	PASS	Atlas-SNP
PRICKLE1	144165	hgsc.bcm.edu	37	12	42854208	42854208	+	Silent	SNP	A	A	G	rs3747563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	72	135	0	0.476821	0	A|0.686;G|0.314	0.314	strong	.	PRICKLE1	105	.	NM_001144882	exon8	c.T1899C	p.F633F	ATCAGAAAACTTG	.	PASS	Atlas-SNP
CDC5L	988	hgsc.bcm.edu	37	6	44371714	44371714	+	Silent	SNP	C	C	T	rs6934058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	16	31	0	0.444444	0	C|0.795;T|0.205	0.205	strong	.	CDC5L	86	.	NM_001253	exon6	c.C708T	p.D236D	TCTTGACGCAGAT	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104633227	104633227	+	Silent	SNP	A	A	C	rs76304797	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	28	55	0	0.451613	0	A|0.973;C|0.027	0.027	strong	.	KIF26A	84	.	NM_015656	exon5	c.A955C	p.R319R	TCCAAGAGGAAGA	.	PASS	Atlas-SNP
KIAA1467	57613	hgsc.bcm.edu	37	12	13208552	13208552	+	Silent	SNP	C	C	T	rs4763924	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	27	55	0	0.457627	0	C|0.738;T|0.262	0.262	strong	.	KIAA1467	78	.	NM_020853	exon2	c.C105T	p.D35D	CGAAGACGATCTG	.	PASS	Atlas-SNP
AHRR	57491	hgsc.bcm.edu	37	5	434546	434546	+	Missense_Mutation	SNP	C	C	T	rs61757546	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	19	44	0	0.44186	0	C|0.996;T|0.004	0.004	strong	.	AHRR	67	.	NM_020731	exon12	c.C1757T	p.A586V	ACCCAGCCACCTT	.	PASS	Atlas-SNP
HFE	3077	hgsc.bcm.edu	37	6	26093141	26093141	+	Missense_Mutation	SNP	G	G	A	rs1800562	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	77	152	0	0.557971	0	G|0.966;A|0.034	0.034	strong	.	HFE	37	.	NM_000410	exon4	c.G845A	p.C282Y	ATACGTGCCAGGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9005674	9005674	+	Silent	SNP	G	G	A	rs4804091	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	118	119	1	0.975207	0.00840336	G|0.754;A|0.246	0.246	strong	.	MUC16	4315	.	NM_024690	exon46	c.C39732T	p.D13244D	TTTGGGGTCAGGG	.	PASS	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	37	12	40757330	40757330	+	Silent	SNP	A	A	G	rs33962975	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	27	89	1	0.355263	0.011236	A|0.901;G|0.099	0.099	strong	LRRK2_ENST00000298910,NS,carcinoma,+2,2	LRRK2	763	2	NM_198578	exon48	c.A7155G	p.G2385G	CTGTGGACTAATA	.	scavenged	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	37	4	84370091	84370091	+	Silent	SNP	A	A	G	rs13141136	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	31	61	0	0.96875	0	A|0.654;G|0.346	0.346	strong	.	HELQ	95	.	NM_133636	exon3	c.T1036C	p.L346L	AATTCAATGTTAA	.	PASS	Atlas-SNP
JMJD7-PLA2G4B	8681	hgsc.bcm.edu	37	15	42135988	42135988	+	Silent	SNP	C	C	T	rs1672466	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	87	99	0	1	0	C|0.245;T|0.755	0.755	strong	.	JMJD7-PLA2G4B	90	.	NM_005090	exon16	c.C1551T	p.D517D	GCTGGACGGAGAC	.	PASS	Atlas-SNP
NYNRIN	57523	hgsc.bcm.edu	37	14	24883887	24883887	+	Missense_Mutation	SNP	G	G	A	rs8017377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	49	47	0	1	0	G|0.753;A|0.247	0.247	strong	.	NYNRIN	120	.	NM_025081	exon9	c.G2932A	p.A978T	GATGACGCTGACT	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112164561	112164561	+	Silent	SNP	G	G	A	rs351771	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	111	134	0	1	0	G|0.388;A|0.612	0.612	strong	.	APC	4158	.	NM_001127510	exon15	c.G1635A	p.A545A	TATTGCGAGTGTT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911306	29911306	+	Missense_Mutation	SNP	C	C	T	rs9391665	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	22	116	1	0.180328	0.00862069	C|0.855;T|0.145	0.145	strong	HLA-A,NS,adenoma,0,2	HLA-A	89	2	NM_001242758	exon3	c.C605T	p.T202M	AGGAGACGCTGCA	.	scavenged	Atlas-SNP
NUDT12	83594	hgsc.bcm.edu	37	5	102894673	102894673	+	Missense_Mutation	SNP	T	T	C	rs34468716	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	69	124	0	0.530769	0	T|0.915;C|0.085	0.085	strong	.	NUDT12	27	.	NM_031438	exon3	c.A703G	p.I235V	CAGCAATAGGATC	.	PASS	Atlas-SNP
OR2T8	343172	hgsc.bcm.edu	37	1	248084440	248084440	+	Missense_Mutation	SNP	T	T	G	rs111379878	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	402	5	414	5	0.0124378	0.0120773	T|0.988;G|0.012	0.012	strong	OR2T8,NS,other,0,1	OR2T8	67	1	NM_001005522	exon1	c.T121G	p.S41A	GGCAATTCCCTCA	.	scavenged	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167262169	167262169	+	Missense_Mutation	SNP	T	T	C	rs35344714	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	178	177	192	1	0.994382	0.00520833	T|0.949;C|0.051	0.051	strong	.	SCN7A	410	.	NM_002976	exon25	c.A4970G	p.D1657G	TCTCTGTCACCAT	.	PASS	Atlas-SNP
BAGE3	85318	hgsc.bcm.edu	37	21	11049596	11049596	+	Missense_Mutation	SNP	C	C	T	rs28571918	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	327	41	237	0	0.125382	0	C|0.571;T|0.429	0.429	strong	.	.	.	.	NM_182481	exon4	c.G305A	p.C102Y	GTCGCACACTGCA	.	PASS	Atlas-SNP
MASP1	5648	hgsc.bcm.edu	37	3	186954324	186954324	+	Silent	SNP	G	G	A	rs3774268	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	32	73	0	0.438356	0	G|0.853;A|0.147	0.147	strong	.	MASP1	240	.	NM_139125	exon11	c.C1335T	p.S445S	GACCAGGCTTGGC	.	PASS	Atlas-SNP
DDX55	57696	hgsc.bcm.edu	37	12	124086736	124086736	+	Missense_Mutation	SNP	T	T	G	rs141195308	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	21	45	1	0.4375	0.0222222	T|0.998;G|0.002	0.002	strong	DDX55,NS,lymphoid_neoplasm,0,1	DDX55	51	1	NM_020936	exon1	c.T41G	p.V14G	TGCCTGTGCCGCT	.	scavenged	Atlas-SNP
GLTSCR1	29998	hgsc.bcm.edu	37	19	48183748	48183748	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	12	14	0	0.545455	0	.	.	none	.	GLTSCR1	79	.	NM_015711	exon6	c.G1321A	p.G441R	CCCCCCGGGGCCC	.	PASS	Atlas-SNP
ARMC9	80210	hgsc.bcm.edu	37	2	232196564	232196564	+	Silent	SNP	C	C	T	rs1669083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	45	118	0	0.365854	0	C|0.721;T|0.279	0.279	strong	ARMC9_ENST00000359743,NS,carcinoma,0,2	ARMC9	129	2	NM_025139	exon20	c.C1833T	p.L611L	CCAGCTCGGAGAA	.	PASS	Atlas-SNP
RGS9BP	388531	hgsc.bcm.edu	37	19	33167865	33167865	+	Silent	SNP	G	G	A	rs150936907	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	17	11	29	0	0.647059	0	G|0.990;A|0.010	0.010	strong	RGS9BP,caecum,carcinoma,+1,1	RGS9BP	9	1	NM_207391	exon1	c.G696A	p.A232A	CGTGGCGAAGCTG	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31378956	31378956	+	Missense_Mutation	SNP	C	C	G	rs1051790	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	70	131	0	0.507246	0	C|0.812;G|0.188	0.188	strong	.	MICA	21	.	NM_001177519	exon3	c.C433G	p.L145V	CAAAACCTGGAGA	.	PASS	Atlas-SNP
KRTAP16-1	100505753	hgsc.bcm.edu	37	17	39464736	39464736	+	Missense_Mutation	SNP	C	C	G	rs2074284	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	55	79	0	0.533981	0	C|0.672;G|0.328	0.328	strong	.	KRTAP16-1	12	.	NM_001146182	exon1	c.G770C	p.S257T	GAGCAACTTGGCT	.	PASS	Atlas-SNP
SRMS	6725	hgsc.bcm.edu	37	20	62172269	62172269	+	Missense_Mutation	SNP	C	C	A	rs310654	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	23	47	0	0.359375	0	C|0.822;A|0.178	0.178	strong	.	SRMS	48	.	NM_080823	exon8	c.G1369T	p.V457L	TGAGCACGTAGAC	.	PASS	Atlas-SNP
PRRT4	401399	hgsc.bcm.edu	37	7	127999459	127999459	+	Missense_Mutation	SNP	G	G	A	rs145413607	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	30	69	0	0.535714	0	G|0.991;A|0.009	0.009	strong	PRRT4,NS,carcinoma,0,1	PRRT4	31	1	NM_001174164	exon3	c.C587T	p.T196M	GGCAGCGTTCGAT	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17541999	17541999	+	Silent	SNP	T	T	C	rs2979792	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	30	63	0	0.441176	0	T|0.699;C|0.301	0.301	strong	.	MTUS1	144	.	NM_001001924	exon7	c.A2676G	p.T892T	GGGAGCTGTCTGT	.	PASS	Atlas-SNP
CXCL1	2919	hgsc.bcm.edu	37	4	74735244	74735244	+	Silent	SNP	A	A	G	rs2071425	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	15	9	8	0	0.6	0	A|0.668;G|0.332	0.332	strong	.	CXCL1	6	.	NM_001511	exon1	c.A57G	p.A19A	AGTGGCACTGCTG	.	PASS	Atlas-SNP
LMNA	4000	hgsc.bcm.edu	37	1	156107534	156107534	+	Silent	SNP	C	C	T	rs4641	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	30	33	0	0.652174	0	C|0.808;T|0.192	0.192	strong	.	LMNA	31	.	NM_170707	exon10	c.C1698T	p.H566H	CCACCACGTGAGT	.	PASS	Atlas-SNP
PPP1R21	129285	hgsc.bcm.edu	37	2	48681868	48681868	+	Silent	SNP	C	C	G	rs76587580	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	87	220	0	0.437186	0	C|0.931;G|0.069	0.069	strong	.	PPP1R21	47	.	NM_152994	exon3	c.C261G	p.G87G	ACGAGGCAAGAAA	.	PASS	Atlas-SNP
CD248	57124	hgsc.bcm.edu	37	11	66083782	66083782	+	Silent	SNP	G	G	A	rs3741368	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	49	88	0	0.556818	0	G|0.702;A|0.298	0.298	strong	CD248,NS,carcinoma,0,1	CD248	69	1	NM_020404	exon1	c.C717T	p.N239N	GCCCCCGTTGTCA	.	PASS	Atlas-SNP
DDX1	1653	hgsc.bcm.edu	37	2	15735648	15735648	+	Silent	SNP	T	T	C	rs2302929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	36	98	0	0.423529	0	T|0.830;C|0.170	0.170	strong	.	DDX1	70	.	NM_004939	exon3	c.T103C	p.L35L	ATCCCATTGATCT	.	PASS	Atlas-SNP
SPINK8	646424	hgsc.bcm.edu	37	3	48360992	48360992	+	Missense_Mutation	SNP	T	T	G	rs11718350	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	81	81	0	0.591241	0	T|0.820;G|0.180	0.180	strong	.	SPINK8	5	.	NM_001080525	exon3	c.A234C	p.K78N	CAGAATTTTGGAG	.	PASS	Atlas-SNP
DMRT3	58524	hgsc.bcm.edu	37	9	990840	990840	+	Silent	SNP	C	C	T	rs7021244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	30	93	1	0.5	0.0107527	C|0.827;N|0.000	.	strong	DMRT3,NS,carcinoma,+2,2	DMRT3	83	2	NM_021240	exon2	c.C1254T	p.V418V	CAGCGTCTTCAGA	.	scavenged	Atlas-SNP
CCDC77	84318	hgsc.bcm.edu	37	12	520947	520947	+	Missense_Mutation	SNP	A	A	C	rs4980895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	36	55	0	0.5	0	A|0.803;C|0.197	0.197	strong	.	CCDC77	35	.	NM_032358	exon4	c.A73C	p.S25R	GCCGTCAGTGGTC	.	PASS	Atlas-SNP
ATAD3B	83858	hgsc.bcm.edu	37	1	1431060	1431060	+	Missense_Mutation	SNP	T	T	C	rs9792997	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	6	102	0	0.0447761	0	.	.	weak	ATAD3B,rectum,carcinoma,0,1	ATAD3B	68	1	NM_031921	exon16	c.T1810C	p.Y604H	CCCTCCTACCCCT	.	scavenged	Atlas-SNP
NLRP14	338323	hgsc.bcm.edu	37	11	7091569	7091569	+	Missense_Mutation	SNP	C	C	T	rs17280682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	54	116	0	0.442623	0	C|0.850;T|0.150	0.150	strong	.	NLRP14	187	.	NM_176822	exon11	c.C3028T	p.L1010F	TCTGCTCTTATCT	.	PASS	Atlas-SNP
SNAI3	333929	hgsc.bcm.edu	37	16	88744949	88744949	+	Silent	SNP	G	G	T	rs139375690	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	17	38	0	0.515152	0	G|0.997;T|0.003	0.003	strong	.	SNAI3	23	.	NM_178310	exon3	c.C786A	p.A262A	CTTCTTGGCGTCT	.	PASS	Atlas-SNP
XPNPEP2	7512	hgsc.bcm.edu	37	X	128880614	128880614	+	Silent	SNP	T	T	C	rs3747343	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	140	128	0	0.992908	0	T|0.456;C|0.544	0.544	strong	.	XPNPEP2	84	.	NM_003399	exon6	c.T447C	p.P149P	GATTCCTGCTGGA	.	PASS	Atlas-SNP
SDK2	54549	hgsc.bcm.edu	37	17	71410891	71410891	+	Silent	SNP	C	C	T	rs12386051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	34	45	0	0.53125	0	C|0.787;T|0.213	0.213	strong	SDK2,NS,carcinoma,0,1	SDK2	219	1	NM_001144952	exon18	c.G2376A	p.T792T	AGGGACCGTGGGA	.	PASS	Atlas-SNP
RBMX	27316	hgsc.bcm.edu	37	X	135956586	135956586	+	Silent	SNP	T	T	C	rs35260830	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	28	83	0	0.297872	0	T|0.500;C|0.500	0.500	weak	.	RBMX	149	.	NM_002139	exon9	c.A891G	p.T297T	CCCTCGTGTAGGT	.	PASS	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	197946392	197946392	+	Silent	SNP	C	C	T	rs35272229	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	73	106	0	0.540741	0	C|0.957;T|0.043	0.043	strong	.	ANKRD44	281	.	NM_001195144	exon15	c.G1515A	p.E505E	CTTCAGCTCCCTG	.	PASS	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	37	14	68264867	68264867	+	Silent	SNP	A	A	G	rs12891164	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	123	57	137	0	0.463415	0	A|0.303;G|0.697	0.697	strong	.	ZFYVE26	223	.	NM_015346	exon11	c.T2112C	p.P704P	CTCAGGAGGGCTG	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55111371	55111371	+	Silent	SNP	G	G	A	rs2296130	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	53	113	0	0.546392	0	G|0.585;A|0.415	0.415	strong	.	.	.	.	NM_001013646	exon2	c.G393A	p.Q131Q	AGTGCAGAATCTT	.	PASS	Atlas-SNP
HK2	3099	hgsc.bcm.edu	37	2	75099477	75099477	+	Missense_Mutation	SNP	A	A	T	rs2229621	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	191	89	162	0	0.465969	0	A|0.784;0|0.001	.	strong	.	HK2	85	.	NM_000189	exon4	c.A426T	p.Q142H	GCTACAAATCAAA	.	PASS	Atlas-SNP
HIST1H4C	8364	hgsc.bcm.edu	37	6	26104280	26104280	+	Silent	SNP	T	T	C	rs2229768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	40	77	0	0.449438	0	T|0.790;C|0.210	0.210	strong	.	HIST1H4C	14	.	NM_003542	exon1	c.T105C	p.I35I	GGCTATTCGCCGT	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50123622	50123622	+	Silent	SNP	G	G	C	rs3751384	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	36	65	0	0.514286	0	G|0.453;C|0.547	0.547	strong	.	RCBTB1	34	.	NM_018191	exon9	c.C1017G	p.P339P	GACGGCGGGAGTG	.	PASS	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	37	8	27898580	27898580	+	Silent	SNP	T	T	C	rs17058502	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	28	66	0	0.41791	0	T|0.884;C|0.116	0.116	strong	.	.	.	.	NM_001010906	exon13	c.A1599G	p.R533R	GCATGCTCTGAGG	.	PASS	Atlas-SNP
KRT8	3856	hgsc.bcm.edu	37	12	53294381	53294381	+	Silent	SNP	T	T	C	rs8608	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	29	45	0	0.537037	0	T|0.483;C|0.517	0.517	strong	.	KRT8	41	.	NM_001256282	exon5	c.A765G	p.L255L	TTCATATAGCTGC	.	PASS	Atlas-SNP
FAM214B	80256	hgsc.bcm.edu	37	9	35107765	35107765	+	Silent	SNP	C	C	A	rs13287211	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	14	44	0	0.325581	0	C|0.718;A|0.282	0.282	strong	.	.	.	.	NM_025182	exon3	c.G507T	p.G169G	CAGGGACCCCTGT	.	PASS	Atlas-SNP
ANKLE2	23141	hgsc.bcm.edu	37	12	133331364	133331364	+	Silent	SNP	G	G	A	rs34152718	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	30	56	0	0.526316	0	G|0.957;A|0.043	0.043	strong	.	ANKLE2	76	.	NM_015114	exon2	c.C537T	p.P179P	ACTAGGGGGCACC	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36681272	36681272	+	Missense_Mutation	SNP	T	T	C	rs141440715	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	60	97	0	0.491803	0	T|1.000;C|0.000	0.000	strong	.	MYH9	225	.	NM_002473	exon38	c.A5378G	p.K1793R	TGCAGCTTGACCT	.	PASS	Atlas-SNP
SLC25A48	153328	hgsc.bcm.edu	37	5	135178142	135178142	+	Silent	SNP	A	A	G	rs6596270	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	41	94	0	0.465909	0	A|0.820;G|0.180	0.180	strong	.	SLC25A48	37	.	NM_145282	exon2	c.A84G	p.T28T	GGACACAGTCAAG	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	147067093	147067093	+	Silent	SNP	C	C	T	rs9647637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	14	19	0	0.378378	0	C|0.826;T|0.174	0.174	strong	C6orf103_ENST00000367493,caecum,carcinoma,+2,2	ADGB	93	2	NM_024694	exon26	c.C3213T	p.G1071G	TACAGGCGACACA	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32188383	32188383	+	Missense_Mutation	SNP	T	T	C	rs422951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	26	39	0	0.4	0	T|0.625;C|0.375	0.375	strong	NOTCH4,NS,carcinoma,0,1	NOTCH4	201	1	NM_004557	exon6	c.A958G	p.T320A	CCTGGGTCTCACA	.	PASS	Atlas-SNP
AZIN1	51582	hgsc.bcm.edu	37	8	103851052	103851052	+	Silent	SNP	T	T	C	rs1062048	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	63	151	0	0.4375	0	T|0.804;C|0.196	0.196	strong	.	AZIN1	26	.	NM_015878	exon6	c.A369G	p.A123A	TTTTGCTGCATAC	.	PASS	Atlas-SNP
OGDH	4967	hgsc.bcm.edu	37	7	44715599	44715599	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	85	78	0	0.653846	0	.	.	none	.	OGDH	145	.	NM_002541	exon9	c.A1057T	p.M353L	CTGGGCATGTATC	.	PASS	Atlas-SNP
PRODH2	58510	hgsc.bcm.edu	37	19	36302921	36302921	+	Silent	SNP	T	T	C	rs12462360	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	37	74	0	0.5	0	T|0.771;C|0.229	0.229	strong	.	PRODH2	68	.	NM_021232	exon5	c.A768G	p.P256P	GGCTCCTGGCCTT	.	PASS	Atlas-SNP
TMED8	283578	hgsc.bcm.edu	37	14	77810133	77810133	+	Missense_Mutation	SNP	C	C	T	rs142882254	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	37	101	0	0.435294	0	C|0.996;T|0.004	0.004	strong	.	TMED8	27	.	NM_213601	exon4	c.G361A	p.D121N	CGATGTCCCCAGA	.	PASS	Atlas-SNP
MYO16	23026	hgsc.bcm.edu	37	13	109661359	109661359	+	Missense_Mutation	SNP	C	C	G	rs3825491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	39	73	0	0.557143	0	C|0.610;G|0.390	0.390	strong	.	MYO16	285	.	NM_001198950	exon22	c.C2557G	p.P853A	TATTCTCCTGGTA	.	PASS	Atlas-SNP
KIAA1468	57614	hgsc.bcm.edu	37	18	59936142	59936142	+	Silent	SNP	C	C	T	rs17645999	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	161	142	0	0.981707	0	C|0.849;T|0.151	0.151	strong	.	KIAA1468	93	.	NM_020854	exon20	c.C2721T	p.V907V	TACAGTCCCCATT	.	PASS	Atlas-SNP
DDX60L	91351	hgsc.bcm.edu	37	4	169343044	169343044	+	Missense_Mutation	SNP	A	A	G	rs61740705	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	51	102	0	0.542553	0	A|0.878;G|0.122	0.122	strong	.	DDX60L	116	.	NM_001012967	exon17	c.T2261C	p.V754A	TCTACCACATCCA	.	PASS	Atlas-SNP
CEP68	23177	hgsc.bcm.edu	37	2	65296798	65296798	+	Missense_Mutation	SNP	G	G	A	rs7572857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	30	61	0	0.508475	0	G|0.877;A|0.122	0.122	strong	CEP68,NS,carcinoma,0,1	CEP68	69	1	NM_015147	exon2	c.G220A	p.G74S	CCTGGCGGCCCCT	.	PASS	Atlas-SNP
PTPRB	5787	hgsc.bcm.edu	37	12	71016340	71016340	+	Missense_Mutation	SNP	C	C	T	rs7298147	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	52	100	0	0.514852	0	C|0.970;T|0.030	0.030	strong	.	PTPRB	676	.	NM_001109754	exon3	c.G538A	p.G180S	CCAGGCCATCTGG	.	PASS	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861059	231861059	+	Silent	SNP	A	A	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	9	67	4	0.191489	0.0597015	.	.	none	SPATA3,NS,carcinoma,0,4	SPATA3	52	4	NM_139073	exon1	c.A111T	p.P37P	CACACCACAGCAG	.	scavenged	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78910273	78910273	+	Missense_Mutation	SNP	G	G	A	rs2643325	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	70	169	0	0.503597	0	G|0.769;A|0.231	0.231	strong	.	PCSK5	329	.	NM_001190482	exon26	c.G3268A	p.G1090S	AACTGTGGCAGCT	.	PASS	Atlas-SNP
NAT2	10	hgsc.bcm.edu	37	8	18258103	18258103	+	Missense_Mutation	SNP	G	G	A	rs1799930	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	25	60	0	0.471698	0	G|0.742;A|0.258	0.258	strong	.	NAT2	34	.	NM_000015	exon2	c.G590A	p.R197Q	AACCTCGAACAAT	.	PASS	Atlas-SNP
NEK10	152110	hgsc.bcm.edu	37	3	27332177	27332177	+	Silent	SNP	T	T	C	rs674303	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	35	95	0	0.307018	0	T|0.619;C|0.381	0.381	strong	.	NEK10	271	.	NM_199347	exon20	c.A1674G	p.G558G	ATCCTTTCCAAAT	.	PASS	Atlas-SNP
CAPN11	11131	hgsc.bcm.edu	37	6	44151490	44151490	+	Missense_Mutation	SNP	G	G	A	rs7761137	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	60	122	0	0.431655	0	G|0.721;A|0.279	0.279	strong	.	CAPN11	66	.	NM_007058	exon22	c.G2183A	p.S728N	GCTTGAGCCTGGA	.	PASS	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45120248	45120248	+	Silent	SNP	G	G	A	rs1132130	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	283	77	164	0	0.272085	0	G|0.875;C|0.000;A|0.124	0.124	strong	.	NACAD	44	.	NM_001146334	exon7	c.C4665T	p.N1555N	GATGGCGTTGACG	.	PASS	Atlas-SNP
MIOX	55586	hgsc.bcm.edu	37	22	50928026	50928026	+	Silent	SNP	G	G	A	rs2232885	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	40	71	0	0.493827	0	G|0.798;A|0.202	0.202	strong	.	MIOX	21	.	NM_017584	exon9	c.G702A	p.L234L	GCAGCTGTGCAGC	.	PASS	Atlas-SNP
TRIM51	84767	hgsc.bcm.edu	37	11	55653617	55653617	+	Missense_Mutation	SNP	A	A	C	rs144396749	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	75	153	0	0.543478	0	A|0.984;C|0.016	0.016	strong	.	.	.	.	NM_032681	exon3	c.A430C	p.M144L	AAAAAAATGCAGT	.	PASS	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55539049	55539049	+	Silent	SNP	C	C	T	rs5030705	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	42	74	0	0.552632	0	C|0.847;T|0.153	0.153	strong	.	GP6	55	.	NM_016363	exon4	c.G507A	p.T169T	GGTCACCGTGATG	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52379277	52379277	+	Silent	SNP	C	C	T	rs2303122	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	36	67	0	0.433735	0	T|0.351;G|0.004	0.351	strong	ITGA2,colon,carcinoma,0,1	ITGA2	211	1	NM_002203	exon27	c.C3252T	p.F1084F	GACTTTCGCATCA	.	PASS	Atlas-SNP
ANKRD16	54522	hgsc.bcm.edu	37	10	5929962	5929962	+	Missense_Mutation	SNP	G	G	C	rs2296136	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	201	97	200	0	0.482587	0	G|0.965;C|0.035	0.035	strong	ANKRD16,NS,carcinoma,0,1	ANKRD16	32	1	NM_001009943	exon2	c.C383G	p.A128G	GGATTGGCGCCAT	.	PASS	Atlas-SNP
PIK3R1	5295	hgsc.bcm.edu	37	5	67522722	67522722	+	Silent	SNP	C	C	T	rs706713	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	63	109	0	0.5	0	C|0.633;T|0.367	0.367	strong	.	PIK3R1	869	.	NM_181523	exon2	c.C219T	p.Y73Y	AACTTACGTAGAA	.	PASS	Atlas-SNP
GZMB	3002	hgsc.bcm.edu	37	14	25101548	25101548	+	Silent	SNP	G	G	A	rs41469548	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	116	242	0	0.913386	0	G|0.721;A|0.279	0.279	strong	GZMB_ENST00000382542,brain,glioma,0,3	GZMB	73	3	NM_004131	exon3	c.C321T	p.N107N	GATGTCGTTGGAG	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373104	5373104	+	Missense_Mutation	SNP	A	A	G	rs5006889	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	59	173	0	0.359756	0	A|0.761;G|0.239	0.239	strong	.	OR51B6	53	.	NM_001004750	exon1	c.A367G	p.T123A	TTCATTACCATCC	.	PASS	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	37	12	20864342	20864342	+	Missense_Mutation	SNP	C	C	A	rs36010656	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	44	97	0	0.44898	0	C|0.961;A|0.039	0.039	strong	.	SLCO1C1	216	.	NM_017435	exon5	c.C427A	p.P143T	TATTCTCCTTCCT	.	PASS	Atlas-SNP
ABHD12	26090	hgsc.bcm.edu	37	20	25275621	25275621	+	Silent	SNP	T	T	C	rs73598373	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	55	92	0	0.528846	0	T|0.945;C|0.055	0.055	strong	.	ABHD12	46	.	NM_015600	exon13	c.A1203G	p.S401S	CAGCTCTGACCAC	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32487174	32487174	+	Missense_Mutation	SNP	C	C	G	rs112872773	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	89	140	0	0.609589	0	C|0.859;G|0.120;T|0.021	0.120	strong	HLA-DRB5,NS,carcinoma,0,1	HLA-DRB5	31	1	NM_002125	exon3	c.G625C	p.V209L	TCGTCACGCTTGG	.	PASS	Atlas-SNP
PPFIA1	8500	hgsc.bcm.edu	37	11	70200529	70200529	+	Silent	SNP	C	C	T	rs17853270	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	31	15	28	0	0.483871	0	C|0.855;T|0.145	0.145	strong	.	PPFIA1	114	.	NM_177423	exon17	c.C2286T	p.V762V	CACCGTCAGCCAC	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11170839	11170839	+	Silent	SNP	T	T	C	rs7275	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	39	58	0	0.513158	0	T|0.776;C|0.224	0.224	strong	SMARCA4_ENST00000358026,caecum,carcinoma,0,2	SMARCA4	502	2	NM_001128849	exon35	c.T4983C	p.D1661D	TGACGATGACAGT	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70191631	70191631	+	Silent	SNP	C	C	T	rs61855090	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	84	34	75	0	0.404762	0	C|0.972;T|0.028	0.028	strong	.	DNA2	76	.	NM_001080449	exon13	c.G1971A	p.T657T	ACATATCGTAGTT	.	PASS	Atlas-SNP
DCPS	28960	hgsc.bcm.edu	37	11	126174038	126174038	+	Silent	SNP	C	C	T	rs3740915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	36	15	39	0	0.416667	0	C|0.950;T|0.050	0.050	strong	.	DCPS	33	.	NM_014026	exon1	c.C63T	p.H21H	GGCCCACGCCGCC	.	PASS	Atlas-SNP
SULT2B1	6820	hgsc.bcm.edu	37	19	49079246	49079246	+	Silent	SNP	C	C	T	rs2544794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	44	74	0	0.453608	0	C|0.852;T|0.148	0.148	strong	.	SULT2B1	72	.	NM_177973	exon2	c.C120T	p.P40P	CTTCCCCGTCGGC	.	PASS	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72349067	72349067	+	Silent	SNP	C	C	T	rs2280108	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	21	52	0	0.5	0	C|0.641;T|0.359	0.359	strong	.	KIF19	102	.	NM_153209	exon15	c.C2088T	p.S696S	GAACAGCGCCCTC	.	PASS	Atlas-SNP
TRIM63	84676	hgsc.bcm.edu	37	1	26385003	26385003	+	Missense_Mutation	SNP	T	T	C	rs2275950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	172	172	130	0	1	0	T|0.785;C|0.215	0.215	strong	TRIM63,NS,carcinoma,0,1	TRIM63	33	1	NM_032588	exon5	c.A709G	p.K237E	GCTTTTTCTCCTG	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9990800	9990800	+	Missense_Mutation	SNP	G	G	C	rs59465469	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	28	34	0	0.424242	0	G|0.675;C|0.325	0.325	strong	PRRT3,NS,carcinoma,0,1	PRRT3	35	1	NM_207351	exon2	c.C1000G	p.R334G	ACGGCCGATCAGG	.	PASS	Atlas-SNP
FNDC4	64838	hgsc.bcm.edu	37	2	27716823	27716823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	24	73	0	0.315789	0	.	.	none	FNDC4,NS,carcinoma,-1,1	FNDC4	21	1	NM_022823	exon4	c.G428A	p.R143Q	GGTAGCCGGTCAG	.	PASS	Atlas-SNP
RIC3	79608	hgsc.bcm.edu	37	11	8159892	8159892	+	Silent	SNP	G	G	T	rs10839976	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	53	88	0	0.504762	0	G|0.727;T|0.273	0.273	strong	.	RIC3	42	.	NM_001206672	exon3	c.C354A	p.L118L	CTTTGAGAGCTGA	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037557	33037557	+	Silent	SNP	C	C	T	rs1042177	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	47	116	0	0.358779	0	C|0.814;T|0.186	0.186	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.G207A	p.K69K	CTCCTTCTTGTCC	.	PASS	Atlas-SNP
C4orf21	55345	hgsc.bcm.edu	37	4	113539969	113539969	+	Missense_Mutation	SNP	T	T	C	rs7696816	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	34	66	0	0.576271	0	T|0.598;C|0.402	0.402	strong	.	C4orf21	223	.	NM_018392	exon6	c.A1229G	p.N410S	CTTTCATTGAATG	.	PASS	Atlas-SNP
FOXN2	3344	hgsc.bcm.edu	37	2	48573875	48573875	+	Silent	SNP	A	A	G	rs35742253	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	21	11	30	0	0.52381	0	A|0.992;G|0.008	0.008	strong	.	FOXN2	39	.	NM_002158	exon3	c.A522G	p.E174E	AGTGGAAAGAAGC	.	PASS	Atlas-SNP
XKR8	55113	hgsc.bcm.edu	37	1	28290132	28290132	+	Silent	SNP	T	T	C	rs61743136	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	45	100	0	0.424528	0	T|0.987;C|0.013	0.013	strong	.	XKR8	15	.	NM_018053	exon2	c.T418C	p.L140L	ACCTTCTTGGAGA	.	PASS	Atlas-SNP
PLEKHG3	26030	hgsc.bcm.edu	37	14	65209867	65209867	+	Missense_Mutation	SNP	C	C	T	rs229649	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	48	38	0	0.979592	0	C|0.906;T|0.094	0.094	strong	.	PLEKHG3	89	.	NM_015549	exon15	c.C2938T	p.R980W	TCCGCCCGGAGCC	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242135180	242135180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	3	89	0	0.03125	0	.	.	none	ANO7,caecum,carcinoma,-1,1	ANO7	136	1	NM_001001891	exon4	c.C391T	p.R131W	GCCGCCCGGGACA	.	scavenged	Atlas-SNP
ERCC6L2	375748	hgsc.bcm.edu	37	9	98691137	98691137	+	Missense_Mutation	SNP	T	T	C	rs2274654	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	28	16	34	0	0.571429	0	T|0.816;C|0.184	0.184	strong	.	.	.	.	NM_001010895	exon11	c.T1775C	p.V592A	GCCTTGTCTCTAC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31322911	31322911	+	Missense_Mutation	SNP	C	C	T	rs1051488	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	57	88	0	0.483051	0	T|0.451;G|0.000;C|0.549	0.451	strong	HLA-B,NS,carcinoma,0,7	HLA-B	54	7	NM_005514	exon5	c.G985A	p.A329T	TCACAGCAGCGAC	.	PASS	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	37	11	6655433	6655433	+	Silent	SNP	G	G	A	rs997263	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	35	91	0	0.411765	0	G|0.642;A|0.358	0.358	strong	.	DCHS1	277	.	NM_003737	exon3	c.C1902T	p.H634H	ACCGCTGTGGGCA	.	PASS	Atlas-SNP
NARFL	64428	hgsc.bcm.edu	37	16	784765	784765	+	Silent	SNP	C	C	T	rs9928077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	161	75	141	0	0.465839	0	C|0.740;T|0.260	0.260	strong	NARFL,NS,carcinoma,0,1	NARFL	31	1	NM_022493	exon5	c.G546A	p.A182A	GGGCAGCGCCTGT	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38764998	38764998	+	Missense_Mutation	SNP	A	A	G	rs12632942	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	108	70	0	0.990826	0	A|0.777;G|0.223	0.223	strong	.	SCN10A	359	.	NM_006514	exon18	c.T3275C	p.L1092P	GGATCTAGGCAGT	.	PASS	Atlas-SNP
NTN3	4917	hgsc.bcm.edu	37	16	2522536	2522536	+	Silent	SNP	T	T	C	rs148996457		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	17	31	0	0.515152	0	T|1.000;C|0.000	0.000	weak	.	NTN3	28	.	NM_006181	exon1	c.T834C	p.H278H	TCGGCATGGCACC	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39140221	39140221	+	Missense_Mutation	SNP	C	C	T	rs1510068	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	154	70	132	0	0.454545	0	C|0.662;T|0.338	0.338	strong	.	KRT40	27	.	NM_182497	exon3	c.G305A	p.S102N	AGATAGCTGGCGA	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241405483	241405483	+	Missense_Mutation	SNP	G	G	A	rs61737165	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	48	116	0	0.5	0	G|0.987;A|0.013	0.013	strong	.	GPC1	32	.	NM_002081	exon9	c.G1453A	p.G485S	GACGACGGCAGCG	.	PASS	Atlas-SNP
FNBP1	23048	hgsc.bcm.edu	37	9	132720770	132720770	+	Silent	SNP	A	A	G	rs17519205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	35	60	0	0.393258	0	A|0.916;G|0.084	0.084	strong	.	FNBP1	51	.	NM_015033	exon5	c.T408C	p.S136S	ACTTACAGATTCA	.	PASS	Atlas-SNP
INPP5F	22876	hgsc.bcm.edu	37	10	121586882	121586882	+	Missense_Mutation	SNP	A	A	G	rs3188055	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	26	63	0	0.4	0	A|0.705;G|0.295	0.295	strong	INPP5F,NS,carcinoma,0,1	INPP5F	112	1	NM_014937	exon20	c.A2989G	p.N997D	GTTTCAAATGAAA	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1274209	1274209	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	44	70	0	0.44	0	.	.	none	.	MUC5B	473	.	NM_002458	exon33	c.G15216T	p.E5072D	GTGCGAGTGTGAG	.	PASS	Atlas-SNP
COL11A2	1302	hgsc.bcm.edu	37	6	33153528	33153528	+	Missense_Mutation	SNP	C	C	T	rs9277934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	63	59	0	1	0	C|0.684;N|0.000	.	strong	COL11A2,NS,lymphoid_neoplasm,+1,1	COL11A2	124	1	NM_080680	exon6	c.G826A	p.E276K	GGGGCTCGTAGTC	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152281523	152281523	+	Missense_Mutation	SNP	A	A	C	rs80059102	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	412	138	190	1	0.334951	0.00526316	A|0.917;C|0.081;G|0.002	0.081	strong	FLG,NS,carcinoma,+1,1	FLG	900	1	NM_002016	exon3	c.T5839G	p.W1947G	GCTCCCAAGCAGA	.	scavenged	Atlas-SNP
BRD1	23774	hgsc.bcm.edu	37	22	50217300	50217300	+	Silent	SNP	G	G	A	rs374070979		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	33	46	0	0.578947	0	.	.	weak	.	BRD1	144	.	NM_014577	exon1	c.C666T	p.D222D	CTCCCCGTCCATG	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	368030	368030	+	Silent	SNP	T	T	C	rs10972587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	51	104	0	0.463636	0	T|0.862;C|0.138	0.138	strong	.	DOCK8	401	.	NM_203447	exon15	c.T1692C	p.Y564Y	TCTCTATGTCTAC	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73569749	73569749	+	Silent	SNP	C	C	T	rs11000009	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	16	37	0	0.470588	0	C|0.909;T|0.091	0.091	strong	.	CDH23	365	.	NM_022124	exon59	c.C8895T	p.P2965P	GATCCCCGACCGT	.	PASS	Atlas-SNP
TTLL12	23170	hgsc.bcm.edu	37	22	43579049	43579049	+	Missense_Mutation	SNP	T	T	C	rs13058467	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	63	123	0	0.538462	0	T|0.917;C|0.083	0.083	strong	.	TTLL12	50	.	NM_015140	exon2	c.A284G	p.N95S	AGCTCGTTCCCCG	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276659	152276659	+	Missense_Mutation	SNP	T	T	C	rs7532285	bycluster;byfrequency;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	20	205	2	0.101523	0.0097561	T|0.993;C|0.007	0.007	strong	FLG,NS,carcinoma,+1,1	FLG	900	1	NM_002016	exon3	c.A10703G	p.Q3568R	TGCTCCTGAGCAG	.	scavenged	Atlas-SNP
LRFN3	79414	hgsc.bcm.edu	37	19	36435564	36435564	+	Silent	SNP	G	G	A	rs2293756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	4	4	0	0.4	0	G|0.934;A|0.066	0.066	strong	.	LRFN3	43	.	NM_024509	exon3	c.G1530A	p.T510T	GGCCACGCGGCCT	.	PASS	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	37	12	122618131	122618131	+	Silent	SNP	A	A	G	rs36045144	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	58	41	0	0.983051	0	A|0.784;G|0.216;T|0.000	0.216	strong	.	MLXIP	46	.	NM_014938	exon9	c.A1329G	p.P443P	CGCCCCACCGCCC	.	PASS	Atlas-SNP
KCNQ5	56479	hgsc.bcm.edu	37	6	73904448	73904448	+	Missense_Mutation	SNP	G	G	A	rs148543637	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	2	70	0	0.0206186	0	G|1.000;A|0.000	0.000	weak	KCNQ5,colon,carcinoma,-1,3	KCNQ5	153	3	NM_001160133	exon15	c.G2167A	p.A723T	TTCTACGCGCTTA	.	scavenged	Atlas-SNP
HEXB	3074	hgsc.bcm.edu	37	5	73992881	73992881	+	Missense_Mutation	SNP	A	A	G	rs10805890	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	41	56	0	0.650794	0	A|0.860;G|0.140	0.140	strong	.	HEXB	34	.	NM_000521	exon5	c.A619G	p.I207V	ATTTTGATTGATA	.	PASS	Atlas-SNP
HLA-DQA2	3118	hgsc.bcm.edu	37	6	32713598	32713598	+	Missense_Mutation	SNP	T	T	C	rs138296677	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	262	33	189	0	0.125954	0	T|0.978;C|0.022	0.022	strong	.	HLA-DQA2	27	.	NM_020056	exon3	c.T362C	p.F121S	CCAAGTTTCCTGT	.	PASS	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	37	2	165578602	165578602	+	Missense_Mutation	SNP	C	C	T	rs74459242	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	58	81	0	0.568627	0	C|0.971;T|0.029	0.029	strong	.	COBLL1	122	.	NM_014900	exon6	c.G979A	p.V327M	CATCCACGCTCAT	.	PASS	Atlas-SNP
PSMD6	9861	hgsc.bcm.edu	37	3	63996577	63996577	+	Silent	SNP	C	C	A	rs373997221		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	40	94	0	0.344828	0	.	.	weak	.	PSMD6	30	.	NM_001271779	exon8	c.G1209T	p.V403V	TTCATTCACTTTA	.	PASS	Atlas-SNP
PTCH2	8643	hgsc.bcm.edu	37	1	45293752	45293752	+	Silent	SNP	T	T	C	rs2295997	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	17	48	0	0.386364	0	T|0.813;C|0.187	0.187	strong	.	PTCH2	96	.	NM_001166292	exon14	c.A1821G	p.E607E	GCTGGCTTCACAG	.	PASS	Atlas-SNP
ZBTB16	7704	hgsc.bcm.edu	37	11	114121182	114121182	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	2	59	0	0.0526316	0	.	.	none	ZBTB16_ENST00000335953,NS,carcinoma,0,1	ZBTB16	101	1	NM_006006	exon7	c.T1927A	p.S643T	AGCCTCTCCTCCA	.	scavenged	Atlas-SNP
TAP2	6891	hgsc.bcm.edu	37	6	32797809	32797809	+	Missense_Mutation	SNP	C	C	T	rs2228396	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	155	70	174	0	0.451613	0	C|0.911;T|0.089	0.089	strong	.	TAP2	98	.	NM_018833	exon10	c.G1693A	p.A565T	CATAAGCAATGTT	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24690676	24690676	+	Missense_Mutation	SNP	G	G	A	rs6694170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	29	55	0	0.391892	0	G|0.977;A|0.023	0.023	strong	.	GRHL3	69	.	NM_198174	exon16	c.G1696A	p.E566K	TCCAGGGAAACTT	.	PASS	Atlas-SNP
KRT37	8688	hgsc.bcm.edu	37	17	39578424	39578424	+	Missense_Mutation	SNP	G	G	T	rs2071607	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	36	88	0	0.467532	0	G|0.854;T|0.146	0.146	strong	.	KRT37	61	.	NM_003770	exon5	c.C917A	p.A306D	GACATGGCCTGCA	.	PASS	Atlas-SNP
SENP3	26168	hgsc.bcm.edu	37	17	7468277	7468277	+	Silent	SNP	C	C	T	rs35596387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	24	48	0	0.521739	0	C|0.976;T|0.024	0.024	strong	.	SENP3	18	.	NM_015670	exon4	c.C957T	p.S319S	ACCAGGCATCTTG	.	PASS	Atlas-SNP
PRR12	57479	hgsc.bcm.edu	37	19	50098423	50098423	+	Silent	SNP	G	G	A	rs12462756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	47	50	0	0.5875	0	G|0.749;A|0.251	0.251	strong	.	PRR12	157	.	NM_020719	exon4	c.G831A	p.P277P	ACCGCCGCCTGAG	.	PASS	Atlas-SNP
SLC39A4	55630	hgsc.bcm.edu	37	8	145641564	145641564	+	Missense_Mutation	SNP	T	T	G	rs2280839	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	21	16	0	0.6	0	T|0.522;G|0.478	0.478	strong	.	SLC39A4	54	.	NM_017767	exon1	c.A29C	p.E10A	CCTGTTTCCCTTT	.	PASS	Atlas-SNP
ZCCHC6	79670	hgsc.bcm.edu	37	9	88959938	88959938	+	Silent	SNP	C	C	T	rs791323	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	64	169	0	0.492308	0	C|0.379;N|0.000	.	strong	ZCCHC6,colon,carcinoma,0,1	ZCCHC6	105	1	NM_024617	exon5	c.G951A	p.L317L	AATTTCCAGCCTC	.	PASS	Atlas-SNP
OR1D5	8386	hgsc.bcm.edu	37	17	2966308	2966308	+	Silent	SNP	C	C	T	rs2855605	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	273	73	179	0	0.267399	0	C|0.826;T|0.174	0.174	strong	.	OR1D5	33	.	NM_014566	exon1	c.G594A	p.A198A	AATCAACGCTGTG	.	PASS	Atlas-SNP
RING1	6015	hgsc.bcm.edu	37	6	33179689	33179689	+	Silent	SNP	C	C	T	rs2854028	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	20	36	0	0.425532	0	C|0.842;T|0.158	0.158	strong	.	RING1	40	.	NM_002931	exon6	c.C1029T	p.D343D	AGGTGACGGTCCT	.	PASS	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	37	5	140572763	140572763	+	Missense_Mutation	SNP	C	C	G	rs2907323	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	72	130	0	0.5	0	C|0.881;G|0.119	0.119	strong	.	PCDHB10	177	.	NM_018930	exon1	c.C638G	p.T213R	CCCTCACAGCGCT	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18807523	18807523	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	218	113	236	1	0.518349	0.00423729	.	.	none	.	KLHDC7A	60	.	NM_152375	exon1	c.G48A	p.Q16Q	TATGCAGCTGACC	.	PASS	Atlas-SNP
TATDN2	9797	hgsc.bcm.edu	37	3	10312507	10312507	+	Silent	SNP	A	A	G	rs2075353	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	45	57	0	0.529412	0	A|0.910;G|0.090	0.090	strong	.	TATDN2	59	.	NM_014760	exon4	c.A1641G	p.L547L	TTGCCTATGGGAG	.	PASS	Atlas-SNP
TARBP1	6894	hgsc.bcm.edu	37	1	234603386	234603386	+	Silent	SNP	G	G	T	rs270502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	72	142	0	0.571429	0	G|0.791;T|0.209	0.209	strong	.	TARBP1	111	.	NM_005646	exon4	c.C1110A	p.L370L	GTGAAAGAGCCAA	.	PASS	Atlas-SNP
TMEM52	339456	hgsc.bcm.edu	37	1	1849529	1849529	+	Missense_Mutation	SNP	A	A	G	rs28640257	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	59	135	0	0.517544	0	A|0.613;G|0.387;T|0.000	0.387	strong	TMEM52,NS,carcinoma,0,2	TMEM52	21	2	NM_178545	exon5	c.T422C	p.M141T	GGAGCCATGGAGT	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177902725	177902725	+	Missense_Mutation	SNP	C	C	T	rs3813649	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	141	48	125	0	0.340426	0	C|0.799;T|0.201	0.201	strong	.	SEC16B	92	.	NM_033127	exon21	c.G2618A	p.S873N	GCTGAACTGGCGG	.	PASS	Atlas-SNP
WDR59	79726	hgsc.bcm.edu	37	16	75018874	75018874	+	Silent	SNP	G	G	A	rs12448858	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	43	77	0	0.551282	0	G|0.886;A|0.114	0.114	strong	.	WDR59	66	.	NM_030581	exon1	c.C42T	p.F14F	GTCACGGAACTCT	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39263023	39263023	+	Silent	SNP	C	C	T	rs12874397	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	16	44	0	0.372093	0	C|0.841;T|0.159	0.159	strong	.	FREM2	385	.	NM_207361	exon1	c.C1542T	p.A514A	GGCAGCCGGCCAG	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55889987	55889987	+	Missense_Mutation	SNP	C	C	A	rs7107077	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	156	62	230	0	0.397436	0	C|0.950;A|0.050	0.050	strong	OR8H3,caecum,carcinoma,0,1	OR8H3	92	1	NM_001005201	exon1	c.C139A	p.L47I	GGGATGCTATTGA	.	PASS	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5862653	5862653	+	Missense_Mutation	SNP	T	T	C	rs4357719	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	73	115	0	0.536765	0	T|0.605;C|0.395	0.395	strong	.	OR52E6	70	.	NM_001005167	exon1	c.A475G	p.I159V	GTGGAATGACCAT	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48506642	48506642	+	Missense_Mutation	SNP	A	A	G	rs4917153	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	139	43	82	0	0.309353	0	A|0.777;G|0.223	0.223	strong	.	ABCA13	1192	.	NM_152701	exon44	c.A12905G	p.Q4302R	CACGCCAGTAAGT	.	PASS	Atlas-SNP
FCRL6	343413	hgsc.bcm.edu	37	1	159785370	159785370	+	Silent	SNP	T	T	C	rs4301626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	42	110	0	0.330709	0	T|0.814;C|0.186	0.186	strong	FCRL6,NS,carcinoma,0,1	FCRL6	61	1	NM_001004310	exon10	c.T1224C	p.S408S	GCCCAGTGAGGTT	.	PASS	Atlas-SNP
SIM2	6493	hgsc.bcm.edu	37	21	38117308	38117308	+	Missense_Mutation	SNP	C	C	A	rs2073601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	43	77	0	0.5	0	C|0.777;A|0.223	0.223	strong	.	SIM2	55	.	NM_005069	exon10	c.C1447A	p.L483M	AGCACACTGCCAG	.	PASS	Atlas-SNP
MOCS2	4338	hgsc.bcm.edu	37	5	52398005	52398005	+	Missense_Mutation	SNP	T	T	C	rs2233213	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	70	36	58	0	0.514286	0	T|0.960;C|0.040	0.040	strong	.	MOCS2	28	.	NM_004531	exon4	c.A148G	p.T50A	CGGCAGTAAAGTT	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134350231	134350231	+	Silent	SNP	C	C	T	rs17458486	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	38	54	0	0.513514	0	C|0.945;T|0.055	0.055	strong	.	PRRC2B	266	.	NM_013318	exon15	c.C2715T	p.N905N	CAAGAACGGGAGC	.	PASS	Atlas-SNP
CCT6B	10693	hgsc.bcm.edu	37	17	33286664	33286664	+	Missense_Mutation	SNP	A	A	G	rs2230552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	38	70	0	0.481013	0	T|0.130;G|0.183	0.183	strong	.	CCT6B	63	.	NM_006584	exon2	c.T143C	p.V48A	CCAGAAACAAGCC	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188354	140188354	+	Missense_Mutation	SNP	C	C	G	rs142480630	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	65	20	110	0	0.307692	0	C|0.999;G|0.001	0.001	weak	PCDHA4_ENST00000530339,NS,carcinoma,0,8	PCDHA4	419	8	NM_031500	exon1	c.C1582G	p.L528V	GAGGAGCTAGAGC	.	PASS	Atlas-SNP
GPR37L1	9283	hgsc.bcm.edu	37	1	202092332	202092332	+	Missense_Mutation	SNP	C	C	G	rs3795594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	22	44	0	0.328358	0	C|0.829;G|0.171	0.171	strong	.	GPR37L1	33	.	NM_004767	exon1	c.C241G	p.P81A	ACCAAGCCCTTGG	.	PASS	Atlas-SNP
CHRD	8646	hgsc.bcm.edu	37	3	184099342	184099342	+	Silent	SNP	G	G	C	rs3749228	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	88	74	0	0.977778	0	G|0.904;C|0.096	0.096	strong	.	CHRD	149	.	NM_003741	exon4	c.G441C	p.P147P	GGACCCGGAGCAT	.	PASS	Atlas-SNP
COLGALT2	23127	hgsc.bcm.edu	37	1	183920191	183920191	+	Silent	SNP	T	T	G	rs16861794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	200	78	149	4	0.39	0.0268456	T|0.954;G|0.046	0.046	strong	GLT25D2,NS,carcinoma,0,1	.	.	1	NM_015101	exon8	c.A1086C	p.T362T	ATACAGTGTGCGC	.	scavenged	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	711712	711712	+	Silent	SNP	C	C	T	rs3177415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	109	75	0	0.973214	0	C|0.451;T|0.549	0.549	strong	.	WDR90	107	.	NM_145294	exon31	c.C3789T	p.G1263G	CGCCGGCGAGCTC	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169267839	169267839	+	Missense_Mutation	SNP	C	C	T	rs200070944	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	42	91	0	0.56	0	C|0.999;A|0.001	.	alt	.	DOCK2	389	.	NM_004946	exon27	c.C2782T	p.R928W	ATGGGCCGGGATC	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46760481	46760481	+	Missense_Mutation	SNP	C	C	G	rs9615351	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	55	69	0	0.528846	0	C|0.700;G|0.300	0.300	strong	CELSR1,NS,carcinoma,0,1	CELSR1	242	1	NM_014246	exon33	c.G8707C	p.E2903Q	GGTACTCTCCACG	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241830969	241830969	+	Silent	SNP	G	G	A	rs10171067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	37	68	0	0.445783	0	G|0.490;A|0.510	0.510	strong	.	C2orf54	14	.	NM_001085437	exon2	c.C726T	p.S242S	CTGGGCGCTGGCC	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17743622	17743622	+	Missense_Mutation	SNP	C	C	A	rs75595663	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	134	73	126	0	0.544776	0	C|0.950;A|0.050	0.050	strong	UNC13A_ENST00000519716,colon,carcinoma,0,1	UNC13A	299	1	NM_001080421	exon27	c.G3397T	p.A1133S	TGAAGGCGGGAAG	.	PASS	Atlas-SNP
CNTNAP3B	728577	hgsc.bcm.edu	37	9	43891639	43891639	+	Silent	SNP	G	G	A	rs200586830	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	715	102	519	1	0.142657	0.00192678	.	.	weak	CNTNAP3B,NS,carcinoma,0,1	CNTNAP3B	37	1	NM_001201380	exon17	c.G2682A	p.Q894Q	TGATCAGCTTCCT	.	scavenged	Atlas-SNP
GALT	2592	hgsc.bcm.edu	37	9	34649442	34649442	+	Missense_Mutation	SNP	A	A	G	rs2070074	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	45	80	0	0.6	0	A|0.934;G|0.066	0.066	strong	.	GALT	29	.	NM_000155	exon10	c.A940G	p.N314D	AACTGGAACCATT	.	PASS	Atlas-SNP
UGT1A10	54575	hgsc.bcm.edu	37	2	234545932	234545932	+	Missense_Mutation	SNP	C	C	T	rs45574333	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	71	133	0	0.464052	0	C|0.999;T|0.001	0.001	strong	.	UGT1A10	71	.	NM_019075	exon1	c.C764T	p.T255M	TGCGAACGGACTT	.	PASS	Atlas-SNP
OR5AC2	81050	hgsc.bcm.edu	37	3	97806616	97806616	+	Missense_Mutation	SNP	G	G	A	rs4518168	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	56	63	0	1	0	G|0.491;A|0.509	0.509	strong	.	OR5AC2	64	.	NM_054106	exon1	c.G600A	p.M200I	ACTAATGATATTT	.	PASS	Atlas-SNP
KRT39	390792	hgsc.bcm.edu	37	17	39119942	39119942	+	Silent	SNP	G	G	A	rs17843020	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	133	64	92	1	0.481203	0.0108696	G|0.894;A|0.106	0.106	strong	KRT39,caecum,carcinoma,-2,1	KRT39	53	1	NM_213656	exon3	c.C645T	p.D215D	CTCTAGGTCGGCC	.	scavenged	Atlas-SNP
CTAGE1	64693	hgsc.bcm.edu	37	18	19995731	19995731	+	Missense_Mutation	SNP	T	T	C	rs9946136	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	116	116	90	0	1	0	T|0.813;C|0.187	0.187	strong	.	CTAGE1	146	.	NM_172241	exon1	c.A2044G	p.I682V	TTCTTATGAACGG	.	PASS	Atlas-SNP
FFAR3	2865	hgsc.bcm.edu	37	19	35850560	35850560	+	Silent	SNP	G	G	A	rs77988018	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	870	581	1058	1	0.667816	0.00094518	G|0.838;A|0.162	0.162	strong	.	FFAR3	40	.	NM_005304	exon2	c.G768A	p.A256A	CCCGGCGTGGAGG	.	PASS	Atlas-SNP
OR4K17	390436	hgsc.bcm.edu	37	14	20586432	20586432	+	Silent	SNP	C	C	T	rs9323534	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	110	158	0	0.990991	0	C|0.566;T|0.434	0.434	strong	.	OR4K17	58	.	NM_001004715	exon1	c.C867T	p.Y289Y	TATCTACATTTGG	.	PASS	Atlas-SNP
LIG1	3978	hgsc.bcm.edu	37	19	48621036	48621036	+	Silent	SNP	C	C	G	rs13436	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	155	148	0	0.981013	0	C|0.503;G|0.497	0.497	strong	.	LIG1	151	.	NM_000234	exon26	c.G2442C	p.A814A	CACCAGCGCCTGC	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134358108	134358108	+	Silent	SNP	A	A	G	rs2275498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	17	29	0	0.53125	0	A|0.900;G|0.100	0.100	strong	.	PRRC2B	266	.	NM_013318	exon21	c.A5187G	p.Q1729Q	AGAACAAGGCTCT	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17728572	17728572	+	Silent	SNP	C	C	T	rs56174023	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	39	67	0	0.513158	0	C|0.861;T|0.139	0.139	strong	.	UNC13A	299	.	NM_001080421	exon39	c.G4497A	p.S1499S	GTAGAGCGACAGG	.	PASS	Atlas-SNP
CTBS	1486	hgsc.bcm.edu	37	1	85039955	85039955	+	Silent	SNP	G	G	A	rs2303307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	37	57	0	0.451219	0	G|0.741;A|0.259	0.259	strong	CTBS,rectum,carcinoma,0,1	CTBS	24	1	NM_004388	exon1	c.C144T	p.L48L	GCGGCAGAGCTCA	.	PASS	Atlas-SNP
FBXL16	146330	hgsc.bcm.edu	37	16	746914	746914	+	Silent	SNP	G	G	A	rs4984915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	31	68	0	0.484375	0	G|0.718;A|0.282	0.282	strong	FBXL16,NS,carcinoma,0,1	FBXL16	25	1	NM_153350	exon2	c.C492T	p.A164A	TCTGGCGGCAAAA	.	PASS	Atlas-SNP
APCDD1L	164284	hgsc.bcm.edu	37	20	57045765	57045765	+	Missense_Mutation	SNP	A	A	G	rs3946003	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	37	39	0	1	0	A|0.555;G|0.445	0.445	strong	.	APCDD1L	48	.	NM_153360	exon2	c.T88C	p.C30R	GCAGGCAGCTGCC	.	PASS	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	197990741	197990741	+	Missense_Mutation	SNP	A	A	C	rs35338671	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	67	142	0	0.527559	0	A|0.959;C|0.041	0.041	strong	.	ANKRD44	281	.	NM_153697	exon5	c.T282G	p.I94M	GTGCTTAATCAAA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092884	1092884	+	Missense_Mutation	SNP	C	C	T	rs201415503		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	6	58	0	0.117647	0	.	.	weak	MUC2_ENST00000441003,NS,carcinoma,0,8	MUC2	614	8	NM_002457	exon30	c.C4703T	p.T1568M	CCACCACGGTGAC	.	PASS	Atlas-SNP
C22orf42	150297	hgsc.bcm.edu	37	22	32545762	32545762	+	Silent	SNP	C	C	T	rs45494991	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	41	88	0	0.427083	0	C|0.950;G|0.000;T|0.049	0.049	strong	.	C22orf42	37	.	NM_001010859	exon8	c.G660A	p.K220K	TCTCTCCTTTGCC	.	PASS	Atlas-SNP
CTNNA3	29119	hgsc.bcm.edu	37	10	68040325	68040325	+	Missense_Mutation	SNP	C	C	T	rs4548513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	77	76	0	0.987179	0	C|0.526;N|0.000	.	strong	.	CTNNA3	401	.	NM_013266	exon13	c.G1787A	p.S596N	AATGAGCTTTTGC	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50682865	50682865	+	Silent	SNP	G	G	A	rs5771270	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	30	37	0	0.517241	0	G|0.710;A|0.290	0.290	strong	TUBGCP6,NS,carcinoma,0,1	TUBGCP6	132	1	NM_020461	exon1	c.C24T	p.F8F	GTCGTCGAACAGC	.	PASS	Atlas-SNP
CYP2E1	1571	hgsc.bcm.edu	37	10	135347315	135347315	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	2	110	0	0.0206186	0	.	.	none	CYP2E1,NS,carcinoma,-1,1	CYP2E1	69	1	NM_000773	exon6	c.C881T	p.A294V	CTGTGGCCGACCT	.	scavenged	Atlas-SNP
COL23A1	91522	hgsc.bcm.edu	37	5	177683377	177683377	+	Missense_Mutation	SNP	T	T	C	rs890802	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	76	36	67	0	0.473684	0	T|0.491;C|0.509	0.509	strong	COL23A1,NS,carcinoma,0,1	COL23A1	47	1	NM_173465	exon15	c.A859G	p.T287A	CATCCGTGCCTCG	.	PASS	Atlas-SNP
SLC5A1	6523	hgsc.bcm.edu	37	22	32445946	32445946	+	Missense_Mutation	SNP	A	A	G	rs17683011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	122	52	96	1	0.42623	0.0104167	A|0.956;G|0.044	0.044	strong	SLC5A1,NS,carcinoma,+1,1	SLC5A1	80	1	NM_000343	exon2	c.A152G	p.N51S	CCACCAATCGTGG	.	scavenged	Atlas-SNP
IDH1	3417	hgsc.bcm.edu	37	2	209108317	209108317	+	Missense_Mutation	SNP	C	C	T	rs34218846	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	33	70	0	0.5	0	C|0.946;T|0.054	0.054	strong	IDH1,colon,carcinoma,0,9	IDH1	6310	9	NM_005896	exon6	c.G532A	p.V178I	TGGCAACACCACC	.	PASS	Atlas-SNP
FAM154B	283726	hgsc.bcm.edu	37	15	82574879	82574879	+	Missense_Mutation	SNP	T	T	C	rs11630197	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	56	120	0	0.451613	0	T|0.779;C|0.221	0.221	strong	.	FAM154B	50	.	NM_001008226	exon3	c.T673C	p.W225R	CAACCATGGGAAA	.	PASS	Atlas-SNP
RGS3	5998	hgsc.bcm.edu	37	9	116356373	116356373	+	Silent	SNP	G	G	C	rs12350531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	90	182	0	0.497238	0	G|0.295;C|0.705	0.705	strong	RGS3_ENST00000462403,NS,carcinoma,0,1	RGS3	251	1	NM_144489	exon1	c.G174C	p.L58L	CCTCCTGTCTGAG	.	PASS	Atlas-SNP
KIAA0040	9674	hgsc.bcm.edu	37	1	175129955	175129955	+	Missense_Mutation	SNP	G	G	T	rs3208835	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	23	92	0	0.239583	0	T|0.500;G|0.500	0.500	strong	.	KIAA0040	2	.	NM_001162895	exon3	c.C195A	p.N65K	CTTCTTGTTCTTC	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1546842	1546842	+	Missense_Mutation	SNP	A	A	G	rs11553051	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	41	49	0	1	0	A|0.867;G|0.133	0.133	strong	.	ASMTL	56	.	NM_004192	exon7	c.T682C	p.S228P	GGATGGAGTCGTG	.	PASS	Atlas-SNP
TMEM47	83604	hgsc.bcm.edu	37	X	34674970	34674970	+	Silent	SNP	C	C	G	rs5928617	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	62	48	0	0.984127	0	C|0.689;G|0.311	0.311	strong	.	TMEM47	45	.	NM_031442	exon1	c.G177C	p.R59R	GGGTTTCCGGCAG	.	PASS	Atlas-SNP
RNF130	55819	hgsc.bcm.edu	37	5	179498658	179498658	+	Silent	SNP	G	G	T	rs3828698	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	22	7	5	0	0.318182	0	G|0.550;T|0.450	0.450	strong	.	RNF130	49	.	NM_018434	exon1	c.C45A	p.L15L	CAGGGCGAGCGCG	.	PASS	Atlas-SNP
HRG	3273	hgsc.bcm.edu	37	3	186395436	186395436	+	Missense_Mutation	SNP	C	C	T	rs1042445	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	99	155	0	0.572254	0	C|0.750;T|0.250	0.250	strong	.	HRG	81	.	NM_000412	exon7	c.C1342T	p.R448C	GGACCCCGTCCCT	.	PASS	Atlas-SNP
MMS19	64210	hgsc.bcm.edu	37	10	99220707	99220707	+	Missense_Mutation	SNP	C	C	T	rs3740526	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	38	86	1	0.395833	0.0116279	C|0.642;T|0.358	0.358	strong	MMS19,NS,carcinoma,0,1	MMS19	36	1	NM_022362	exon24	c.G2369A	p.G790D	CCAGAGCCCAGGC	.	scavenged	Atlas-SNP
KRT74	121391	hgsc.bcm.edu	37	12	52967436	52967436	+	Silent	SNP	G	G	A	rs11836189	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	22	62	0	0.478261	0	G|0.809;A|0.191	0.191	strong	.	KRT74	67	.	NM_175053	exon1	c.C126T	p.G42G	GCCAGCGCCAGCC	.	PASS	Atlas-SNP
ZNF805	390980	hgsc.bcm.edu	37	19	57760018	57760018	+	Missense_Mutation	SNP	G	G	A	rs2014572	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	75	92	0	1	0	G|0.625;A|0.375	0.375	strong	.	ZNF805	30	.	NM_001023563	exon3	c.G203A	p.G68E	AGCATGGGCAGGA	.	PASS	Atlas-SNP
TRAF3IP1	26146	hgsc.bcm.edu	37	2	239237751	239237751	+	Missense_Mutation	SNP	A	A	G	rs3769110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	43	67	0	0.597222	0	A|0.850;G|0.150	0.150	strong	.	TRAF3IP1	58	.	NM_015650	exon5	c.A683G	p.N228S	CAGACAACGAGCG	.	PASS	Atlas-SNP
PSG4	5672	hgsc.bcm.edu	37	19	43699336	43699336	+	Missense_Mutation	SNP	T	T	C	rs1058718	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	38	65	0	0.426966	0	T|0.323;C|0.677	0.677	strong	.	PSG4	129	.	NM_002780	exon4	c.T799G	p.Y267D	AGTTCTTACTCTT	.	PASS	Atlas-SNP
GBP3	2635	hgsc.bcm.edu	37	1	89475093	89475093	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	5	209	0	0.0202429	0	.	.	none	GBP3,NS,carcinoma,0,1	GBP3	53	1	NM_018284	exon9	c.A1447G	p.K483E	TTTCCTTTTCTGT	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152282267	152282267	+	Missense_Mutation	SNP	G	G	A	rs12405278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	94	142	0	0.622517	0	G|0.811;A|0.189	0.189	strong	FLG,colon,carcinoma,+1,1	FLG	900	1	NM_002016	exon3	c.C5095T	p.R1699C	GTCTGCGCCCAGT	.	PASS	Atlas-SNP
ASTN1	460	hgsc.bcm.edu	37	1	177001896	177001896	+	Silent	SNP	C	C	G	rs2076069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	33	44	0	0.717391	0	C|0.864;G|0.136	0.136	strong	.	ASTN1	314	.	NM_004319	exon3	c.G561C	p.P187P	GGGCTGCGGGACC	.	PASS	Atlas-SNP
GTF2F1	2962	hgsc.bcm.edu	37	19	6392910	6392910	+	Missense_Mutation	SNP	G	G	A	rs150462935	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	79	35	71	0	0.443038	0	G|0.999;A|0.001	0.001	strong	.	GTF2F1	39	.	NM_002096	exon2	c.C17T	p.P6L	CTGCTAGGGCCCT	.	PASS	Atlas-SNP
NFKBIA	4792	hgsc.bcm.edu	37	14	35872926	35872926	+	Silent	SNP	G	G	A	rs1050851	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	31	54	0	0.484375	0	G|0.849;A|0.151	0.151	strong	.	NFKBIA	28	.	NM_020529	exon2	c.C306T	p.A102A	GAGGAAGGCCAGG	.	PASS	Atlas-SNP
MMEL1	79258	hgsc.bcm.edu	37	1	2526746	2526746	+	Missense_Mutation	SNP	A	A	G	rs3748816	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	48	118	0	0.384	0	A|0.529;G|0.471	0.471	strong	.	MMEL1	64	.	NM_033467	exon16	c.T1553C	p.M518T	CTGTTCATCTCCT	.	PASS	Atlas-SNP
EPB41L3	23136	hgsc.bcm.edu	37	18	5423422	5423422	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	203	3	167	0	0.0147783	0	.	.	none	EPB41L3,colon,carcinoma,0,2	EPB41L3	222	2	NM_012307	exon11	c.C1294T	p.R432C	ATGAGCGTTCAAA	.	scavenged	Atlas-SNP
ARNT2	9915	hgsc.bcm.edu	37	15	80884025	80884025	+	Missense_Mutation	SNP	G	G	A	rs4072568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	44	89	0	0.483516	0	G|0.856;A|0.144	0.144	strong	ARNT2,NS,carcinoma,-1,1	ARNT2	88	1	NM_014862	exon18	c.G2035A	p.G679S	CAGCCCGGTCAGA	.	PASS	Atlas-SNP
AP4B1	10717	hgsc.bcm.edu	37	1	114443899	114443899	+	Silent	SNP	G	G	A	rs17464525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	236	108	240	0	0.457627	0	G|0.856;A|0.144	0.144	strong	.	AP4B1	72	.	NM_006594	exon5	c.C576T	p.G192G	GACAACGCCTCCT	.	PASS	Atlas-SNP
TAF5L	27097	hgsc.bcm.edu	37	1	229738170	229738170	+	Silent	SNP	T	T	G	rs3753886	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	58	116	0	0.453125	0	T|0.456;G|0.544	0.544	strong	.	TAF5L	76	.	NM_001025247	exon4	c.A744C	p.R248R	CTTGACTCGCTTA	.	PASS	Atlas-SNP
CLCC1	23155	hgsc.bcm.edu	37	1	109486196	109486196	+	Silent	SNP	A	A	G	rs338466	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	187	94	181	0	0.502674	0	A|0.429;G|0.571	0.571	strong	.	CLCC1	55	.	NM_001048210	exon6	c.T603C	p.T201T	CAGCTCAGTAGCC	.	PASS	Atlas-SNP
LPCAT3	10162	hgsc.bcm.edu	37	12	7090193	7090193	+	Missense_Mutation	SNP	A	A	G	rs1984564	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	53	121	0	0.46087	0	A|0.759;G|0.241	0.241	strong	.	LPCAT3	33	.	NM_005768	exon6	c.T650C	p.I217T	ATGTCAATCAGCT	.	PASS	Atlas-SNP
CHD5	26038	hgsc.bcm.edu	37	1	6188596	6188596	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	41	75	0	0.546667	0	.	.	none	.	CHD5	267	.	NM_015557	exon24	c.C3693T	p.A1231A	ACTGGCGGCCAAG	.	PASS	Atlas-SNP
ARHGAP32	9743	hgsc.bcm.edu	37	11	128839405	128839405	+	Silent	SNP	C	C	T	rs78856194	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	33	36	0	0.55	0	C|0.973;T|0.027	0.027	strong	.	ARHGAP32	307	.	NM_001142685	exon22	c.G5661A	p.Q1887Q	ACAGAACTGCCTA	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34926043	34926043	+	Missense_Mutation	SNP	G	G	A	rs61743204	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	32	61	0	0.581818	0	G|0.884;A|0.116	0.116	strong	.	SON	343	.	NM_032195	exon3	c.G4506A	p.M1502I	TGGCATGCAGGAG	.	PASS	Atlas-SNP
DTL	51514	hgsc.bcm.edu	37	1	212276276	212276276	+	Silent	SNP	A	A	G	rs17853180	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	127	119	0	1	0	A|0.946;G|0.054	0.054	strong	DTL,NS,carcinoma,+2,2	DTL	52	2	NM_016448	exon15	c.A2187G	p.E729E	AACAGAATTATAG	.	PASS	Atlas-SNP
MEP1A	4224	hgsc.bcm.edu	37	6	46806809	46806809	+	Missense_Mutation	SNP	C	C	T	rs1804211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	129	126	118	0	0.976744	0	C|0.738;T|0.262	0.262	strong	.	MEP1A	93	.	NM_005588	exon14	c.C2177T	p.T726M	GAGGCACGGCTGG	.	PASS	Atlas-SNP
ZNF521	25925	hgsc.bcm.edu	37	18	22804942	22804942	+	Silent	SNP	C	C	T	rs187705938	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	28	68	0	0.345679	0	C|0.999;T|0.001	0.001	strong	ZNF521,NS,carcinoma,-1,1	ZNF521	269	1	NM_015461	exon4	c.G2940A	p.T980T	ACTATGCGTGACT	.	PASS	Atlas-SNP
PDIA6	10130	hgsc.bcm.edu	37	2	10929938	10929938	+	Silent	SNP	G	G	A	rs138712410	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	39	68	0	0.506494	0	G|0.994;A|0.006	0.006	strong	PDIA6,NS,carcinoma,0,1	PDIA6	31	1	NM_005742	exon8	c.C777T	p.S259S	GATGTCGGATCTT	.	PASS	Atlas-SNP
BGN	633	hgsc.bcm.edu	37	X	152771509	152771509	+	Silent	SNP	C	C	T	rs1126499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	24	23	33	0	0.958333	0	C|0.658;T|0.342	0.342	strong	.	BGN	44	.	NM_001711	exon4	c.C540T	p.S180S	GTTCAGCGGGCTC	.	PASS	Atlas-SNP
FAM198A	729085	hgsc.bcm.edu	37	3	43074434	43074434	+	Missense_Mutation	SNP	C	C	T	rs2936817	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	52	69	0	0.626506	0	C|0.535;T|0.465	0.465	strong	.	FAM198A	23	.	NM_001129908	exon2	c.C679T	p.H227Y	GGAGCTCATCAGT	.	PASS	Atlas-SNP
TBXAS1	6916	hgsc.bcm.edu	37	7	139715641	139715641	+	Missense_Mutation	SNP	G	G	A	rs8192868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	11	49	0	0.366667	0	G|0.985;A|0.015	0.015	strong	.	TBXAS1	121	.	NM_001166253	exon12	c.G1486A	p.E496K	AGCCCGGAGACCT	.	PASS	Atlas-SNP
FAM205A	259308	hgsc.bcm.edu	37	9	34729392	34729392	+	Silent	SNP	A	A	G	rs12337278	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	47	109	0	0.427273	0	A|0.915;G|0.085	0.085	strong	.	FAM205A	45	.	NM_001141917	exon1	c.T33C	p.V11V	ATATCCAACTTCC	.	PASS	Atlas-SNP
ARNT	405	hgsc.bcm.edu	37	1	150808889	150808889	+	Silent	SNP	C	C	G	rs2228099	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	51	89	0	0.356643	0	C|0.562;G|0.438	0.438	strong	ARNT,NS,carcinoma,0,1	ARNT	68	1	NM_001668	exon7	c.G567C	p.V189V	GTCAGACACATAC	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	37	8	41559609	41559609	+	Silent	SNP	G	G	A	rs2304880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	35	58	0	0.479452	0	G|0.820;A|0.180	0.180	strong	.	ANK1	497	.	NM_001142446	exon21	c.C2448T	p.T816T	CACGTCGGTGACA	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92623877	92623877	+	Silent	SNP	G	G	A	rs12277422	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	24	79	0	0.352941	0	A|0.259;G|0.741	0.259	strong	.	FAT3	1822	.	NM_001008781	exon25	c.G13272A	p.P4424P	TCTCCCGGAGGAC	.	PASS	Atlas-SNP
CDT1	81620	hgsc.bcm.edu	37	16	88870967	88870967	+	Silent	SNP	T	T	C	rs475667	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	57	88	0	0.504425	0	T|0.874;C|0.126	0.126	strong	.	CDT1	30	.	NM_030928	exon2	c.T243C	p.S81S	CCCCAGTACCCCC	.	PASS	Atlas-SNP
GPAM	57678	hgsc.bcm.edu	37	10	113920465	113920465	+	Silent	SNP	G	G	A	rs2277207	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	197	74	186	0	0.375635	0	G|0.445;A|0.555	0.555	strong	.	GPAM	68	.	NM_001244949	exon16	c.C1656T	p.N552N	CTCATCGTTCCTG	.	PASS	Atlas-SNP
PAXBP1	94104	hgsc.bcm.edu	37	21	34132288	34132288	+	Silent	SNP	G	G	A	rs149224793	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	43	104	0	0.447917	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_013329	exon6	c.C993T	p.P331P	TTCTGCGGGTTGA	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453412	195453412	+	Silent	SNP	C	C	T	rs1063306	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	41	80	0	0.43617	0	C|0.928;T|0.072	0.072	strong	MUC20,NS,carcinoma,0,1	MUC20	84	1	NM_152673	exon3	c.C1425T	p.A475A	GACTGCCCGGACG	.	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	37	14	23892888	23892888	+	Silent	SNP	A	A	G	rs7157716	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	195	94	201	0	0.482051	0	A|0.583;G|0.416	0.416	strong	MYH7,NS,carcinoma,0,1	MYH7	349	1	NM_000257	exon24	c.T2967C	p.I989I	CTTGGCAATGATC	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109629457	109629457	+	Silent	SNP	C	C	T	rs7135947	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	206	202	199	1	0.980583	0.00502513	C|0.587;T|0.413	0.413	strong	.	ACACB	330	.	NM_001093	exon13	c.C2184T	p.G728G	CCGAGGCGACTTT	.	PASS	Atlas-SNP
TJP3	27134	hgsc.bcm.edu	37	19	3740658	3740658	+	Silent	SNP	T	T	G	rs10416362	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	26	38	0	0.604651	0	T|0.478;G|0.522	0.522	strong	TJP3,NS,carcinoma,0,1	TJP3	79	1	NM_001267561	exon14	c.T1767G	p.L589L	GGGTCTTCGTCGA	.	PASS	Atlas-SNP
KIAA1549L	25758	hgsc.bcm.edu	37	11	33564123	33564123	+	Silent	SNP	T	T	C	rs2076623	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	70	72	0	0.985915	0	T|0.300;C|0.700	0.700	strong	.	.	.	.	NM_012194	exon1	c.T123C	p.G41G	AGCAGGTTCATCC	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85401680	85401680	+	Silent	SNP	C	C	T	rs35931910	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	26	41	0	0.5	0	C|0.934;T|0.066	0.066	strong	.	ALPK3	289	.	NM_020778	exon6	c.C4317T	p.D1439D	AGGAGACCTGGGC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9082514	9082514	+	Missense_Mutation	SNP	C	C	A	rs17000871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	252	124	245	1	0.492063	0.00408163	A|0.158;C|0.841;T|0.000	0.158	strong	.	MUC16	4315	.	NM_024690	exon1	c.G9301T	p.A3101S	CTTCTGCAATGGT	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021684	132021684	+	Missense_Mutation	SNP	C	C	A	rs28583670		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	234	7	224	1	0.0299145	0.00446429	.	.	weak	ENSG00000188219,NS,carcinoma,-1,1	.	.	1	NM_001083538	exon15	c.C2656A	p.P886T	GAACTGCCTGACT	.	scavenged	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68643629	68643629	+	Silent	SNP	G	G	A	rs377301043		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	143	3	124	0	0.020979	0	.	.	weak	ITGA11,NS,carcinoma,0,1	ITGA11	110	1	NM_001004439	exon8	c.C861T	p.S287S	TCTTTCGCTTTGC	.	scavenged	Atlas-SNP
ZNF805	390980	hgsc.bcm.edu	37	19	57765432	57765432	+	Silent	SNP	A	A	G	rs8100154	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	39	37	0	1	0	A|0.594;G|0.406	0.406	strong	.	ZNF805	30	.	NM_001023563	exon4	c.A1245G	p.K415K	CCTCAAAAGGCAC	.	PASS	Atlas-SNP
KRT33A	3883	hgsc.bcm.edu	37	17	39503163	39503163	+	Missense_Mutation	SNP	G	G	A	rs57740817	bycluster	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	110	49	111	0	0.445455	0	G|0.333;A|0.667	0.667	weak	KRT33A,colon,carcinoma,0,1	KRT33A	53	1	NM_004138	exon5	c.C809T	p.A270V	ATCTCCGCCTGGT	.	PASS	Atlas-SNP
FBXO32	114907	hgsc.bcm.edu	37	8	124525483	124525483	+	Silent	SNP	C	C	T	rs3739287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	55	123	0	0.555556	0	C|0.843;T|0.157	0.157	strong	.	FBXO32	39	.	NM_058229	exon6	c.G606A	p.T202T	GAGAATCGTCTCC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9059307	9059307	+	Missense_Mutation	SNP	C	C	T	rs12461695	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	62	135	0	0.5	0	C|0.861;T|0.139	0.139	strong	MUC16_ENST00000397910,right_upper_lobe,carcinoma,-1,2	MUC16	4315	2	NM_024690	exon3	c.G28139A	p.G9380D	AAGGTACCCTGCG	.	PASS	Atlas-SNP
TST	7263	hgsc.bcm.edu	37	22	37407194	37407194	+	Silent	SNP	G	G	A	rs4764	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	138	82	133	0	0.594203	0	G|0.966;A|0.034	0.034	strong	.	TST	22	.	NM_003312	exon3	c.C768T	p.H256H	GGCCACGTGGCAG	.	PASS	Atlas-SNP
NMT1	4836	hgsc.bcm.edu	37	17	43176804	43176804	+	Silent	SNP	C	C	T	rs2239923	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	212	83	242	0	0.391509	0	C|0.780;T|0.220	0.220	strong	.	NMT1	31	.	NM_021079	exon8	c.C916T	p.L306L	CGGAAGCTGATTG	.	PASS	Atlas-SNP
MAP2K3	5606	hgsc.bcm.edu	37	17	21203941	21203941	+	Missense_Mutation	SNP	G	G	A	rs2305873	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	33	100	0	0.370787	0	G|0.751;A|0.249	0.249	strong	MAP2K3_ENST00000316920,NS,carcinoma,0,4	MAP2K3	135	4	NM_145109	exon4	c.G250A	p.A84T	CGGCACGCCCAGA	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47649265	47649265	+	Missense_Mutation	SNP	T	T	A	rs17541107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	35	83	0	0.583333	0	T|0.577;A|0.423	0.423	strong	.	GPR111	123	.	NM_153839	exon7	c.T766A	p.L256M	AGAGTGTTGATCA	.	PASS	Atlas-SNP
CMTM2	146225	hgsc.bcm.edu	37	16	66613725	66613725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	40	69	0	0.5	0	.	.	none	.	CMTM2	33	.	NM_001199317	exon1	c.G215A	p.R72Q	GCTACCGGTGGGA	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	41976217	41976217	+	Missense_Mutation	SNP	G	G	A	rs72669005	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	26	59	0	0.52	0	G|0.910;A|0.090	0.090	strong	.	HIVEP3	235	.	NM_024503	exon9	c.C7126T	p.P2376S	TCCTGGGTTCCCC	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1268064	1268064	+	Silent	SNP	C	C	T	rs200948102	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	181	64	205	0	0.353591	0	C|0.846;T|0.154	0.154	strong	MUC5B,NS,carcinoma,0,2	MUC5B	473	2	NM_002458	exon31	c.C9954T	p.A3318A	CACAGCCACCCCC	.	PASS	Atlas-SNP
DCAKD	79877	hgsc.bcm.edu	37	17	43111688	43111688	+	Silent	SNP	G	G	A	rs9900173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	77	79	0	1	0	G|0.719;A|0.281	0.281	strong	.	DCAKD	25	.	NM_001128631	exon3	c.C183T	p.N61N	GTCGCCGTTCTCC	.	PASS	Atlas-SNP
CLIP4	79745	hgsc.bcm.edu	37	2	29383256	29383256	+	Missense_Mutation	SNP	G	G	T	rs3100246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	45	81	0	0.441176	0	G|0.905;T|0.095	0.095	strong	.	CLIP4	69	.	NM_024692	exon12	c.G1457T	p.R486L	AACTCCGCCTCGG	.	PASS	Atlas-SNP
LECT2	3950	hgsc.bcm.edu	37	5	135287029	135287029	+	Missense_Mutation	SNP	T	T	C	rs31517	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	66	79	0	1	0	T|0.380;C|0.620	0.620	strong	LECT2,NS,carcinoma,0,2	LECT2	24	2	NM_002302	exon3	c.A172G	p.I58V	ACAAGATGTCCAC	.	PASS	Atlas-SNP
GZMB	3002	hgsc.bcm.edu	37	14	25101629	25101629	+	Silent	SNP	T	T	C	rs10909625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	164	162	258	1	0.987805	0.00387597	T|0.742;C|0.258	0.258	strong	GZMB,NS,carcinoma,0,1	GZMB	73	1	NM_004131	exon3	c.A240G	p.K80K	CTGTTCTTTGATA	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80935345	80935345	+	Missense_Mutation	SNP	T	T	C	rs6539524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	18	57	0	0.391304	0	T|0.587;C|0.413	0.413	strong	.	PTPRQ	119	.	NM_001145026	exon18	c.T2650C	p.F884L	GAAGGGTTTGTTG	.	PASS	Atlas-SNP
TAS2R42	353164	hgsc.bcm.edu	37	12	11338957	11338957	+	Missense_Mutation	SNP	A	A	G	rs5020531	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	45	44	55	0	0.977778	0	A|0.479;G|0.521	0.521	strong	.	TAS2R42	30	.	NM_181429	exon1	c.T587C	p.F196S	GTCAGGAACAGAG	.	PASS	Atlas-SNP
MUSK	4593	hgsc.bcm.edu	37	9	113538122	113538122	+	Missense_Mutation	SNP	G	G	A	rs2274419	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	176	90	217	0	0.511364	0	G|0.885;A|0.115	0.115	strong	.	MUSK	112	.	NM_005592	exon9	c.G1239A	p.M413I	GGTAATGGAAGAG	.	PASS	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103027234	103027234	+	Missense_Mutation	SNP	A	A	G	rs17301750	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	24	63	0	0.421053	0	A|0.912;G|0.088	0.088	strong	.	DYNC2H1	246	.	NM_001377	exon26	c.A3862G	p.T1288A	AGTCGAACTATGA	.	PASS	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	37	19	46327053	46327053	+	Silent	SNP	C	C	T	rs7251942	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	28	90	0	0.466667	0	C|0.852;T|0.148	0.148	strong	.	SYMPK	104	.	NM_004819	exon19	c.G2571A	p.T857T	ACATCTCGTGACC	.	PASS	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	37	1	231954101	231954101	+	Missense_Mutation	SNP	C	C	T	rs6675281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	49	96	0	1	0	C|0.877;T|0.123	0.123	strong	.	DISC1	207	.	NM_001164537	exon10	c.C1915T	p.L639F	AAAGACCTCACCG	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32137852	32137852	+	Silent	SNP	C	C	G	rs3759297	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	38	72	0	0.520548	0	C|0.840;G|0.160	0.160	strong	C12orf35,NS,lymphoid_neoplasm,+1,1	.	.	1	NM_018169	exon4	c.C3963G	p.T1321T	GGAAACCCGACAG	.	PASS	Atlas-SNP
SUPT5H	6829	hgsc.bcm.edu	37	19	39944082	39944082	+	Silent	SNP	C	C	T	rs1130180	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	52	49	0	0.981132	0	C|0.402;T|0.598	0.598	strong	.	SUPT5H	119	.	NM_001130825	exon3	c.C162T	p.Y54Y	GGAATACGATGAG	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136268084	136268084	+	Missense_Mutation	SNP	A	A	G	rs3124747	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	136	129	1	0.992701	0.00775194	A|0.479;G|0.521	0.521	strong	.	C9orf96	77	.	NM_153710	exon14	c.A1417G	p.K473E	TCCCTCAAAAGCA	.	PASS	Atlas-SNP
TTLL13	440307	hgsc.bcm.edu	37	15	90800449	90800449	+	Missense_Mutation	SNP	C	C	T	rs2063743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	39	130	0	0.443182	0	C|0.720;T|0.280	0.280	strong	.	TTLL13	44	.	NM_001029964	exon7	c.C785T	p.T262I	TCTTCACATATGA	.	PASS	Atlas-SNP
TAF1A	9015	hgsc.bcm.edu	37	1	222732051	222732051	+	Missense_Mutation	SNP	C	C	T	rs143557200	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	43	90	0	0.477778	0	C|0.994;T|0.006	0.006	strong	TAF1A,NS,carcinoma,0,1	TAF1A	35	1	NM_001201536	exon11	c.G1304A	p.R435Q	TTCATCCGCTTAA	.	PASS	Atlas-SNP
LIG1	3978	hgsc.bcm.edu	37	19	48664687	48664687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	24	55	0	0.631579	0	.	.	none	.	LIG1	151	.	NM_000234	exon4	c.G185A	p.R62Q	AGGACCCGGGCCG	.	PASS	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	37	10	102269206	102269206	+	Missense_Mutation	SNP	A	A	G	rs3763695	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	29	59	0	0.453125	0	A|0.809;G|0.191	0.191	strong	.	SEC31B	84	.	NM_015490	exon4	c.T266C	p.V89A	CCGCCAACAATAA	.	PASS	Atlas-SNP
PLXNA1	5361	hgsc.bcm.edu	37	3	126708453	126708453	+	Silent	SNP	T	T	C	rs6773789	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	73	94	1	0.58871	0.0106383	T|0.567;C|0.433	0.433	strong	PLXNA1,NS,carcinoma,0,1	PLXNA1	185	1	NM_032242	exon1	c.T1017C	p.T339T	GTTCACTGTGTTC	.	scavenged	Atlas-SNP
PRDM8	56978	hgsc.bcm.edu	37	4	81123378	81123378	+	Silent	SNP	C	C	T	rs142234659	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	33	74	1	0.478261	0.0135135	C|0.950;T|0.050	0.050	strong	PRDM8,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	PRDM8	44	1	NM_001099403	exon4	c.C762T	p.S254S	CAGCAGCGCGAAG	.	scavenged	Atlas-SNP
RASSF8	11228	hgsc.bcm.edu	37	12	26220591	26220591	+	Silent	SNP	C	C	T	rs34873759	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	229	102	238	1	0.445415	0.00420168	C|0.985;T|0.015	0.015	strong	.	RASSF8	56	.	NM_007211	exon5	c.C1083T	p.T361T	AGTTACCGTTTTG	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15102639	15102639	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	372	4	327	0	0.0107527	0	.	.	none	PDXDC1,NS,carcinoma,0,1	PDXDC1	59	1	NM_015027	exon7	c.G583A	p.G195S	CAGCTCGGCTTGC	.	scavenged	Atlas-SNP
CPO	130749	hgsc.bcm.edu	37	2	207827220	207827220	+	Missense_Mutation	SNP	G	G	A	rs62617140	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	61	122	0	0.535088	0	G|0.965;A|0.035	0.035	strong	.	CPO	42	.	NM_173077	exon7	c.G659A	p.S220N	TTGCCAGCTTCAT	.	PASS	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	37	2	71778829	71778829	+	Silent	SNP	G	G	A	rs35984374	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	26	42	0	0.553191	0	G|0.987;A|0.013	0.013	strong	.	DYSF	536	.	NM_001130982	exon20	c.G1827A	p.A609A	TCCTGCGGATGAC	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96127833	96127833	+	Silent	SNP	G	G	A	rs3213809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	62	109	0	0.525424	0	G|0.905;A|0.095	0.095	strong	.	ERAP1	59	.	NM_001198541	exon8	c.C1251T	p.H417H	CACAGGGTGTGAG	.	PASS	Atlas-SNP
C4orf45	152940	hgsc.bcm.edu	37	4	159894391	159894391	+	Missense_Mutation	SNP	G	G	A	rs17037864	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	54	108	0	0.477876	0	G|0.843;A|0.157	0.157	strong	.	C4orf45	8	.	NM_152543	exon2	c.C137T	p.A46V	TCTAACGCCAGAT	.	PASS	Atlas-SNP
TNK2	10188	hgsc.bcm.edu	37	3	195594950	195594950	+	Missense_Mutation	SNP	G	G	A	rs56260729	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	89	33	59	0	0.370787	0	G|0.858;A|0.142	0.142	strong	.	TNK2	246	.	NM_001010938	exon13	c.C2408T	p.P803L	GGGGCCGGGGAGC	.	PASS	Atlas-SNP
HLA-G	3135	hgsc.bcm.edu	37	6	29797436	29797436	+	Silent	SNP	T	T	C	rs74547057	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	15	92	0	0.174419	0	T|0.985;C|0.015	0.015	strong	HLA-G,NS,carcinoma,0,1	HLA-G	90	1	NM_002127	exon5	c.T861C	p.H287H	GCAGCATGAGGGG	.	scavenged	Atlas-SNP
CMSS1	84319	hgsc.bcm.edu	37	3	99886662	99886662	+	Missense_Mutation	SNP	G	G	A	rs11537816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	65	68	0	0.631068	0	G|0.873;A|0.127	0.127	strong	.	.	.	.	NM_032359	exon6	c.G496A	p.V166I	TCGGCCGTCCGAG	.	PASS	Atlas-SNP
CRB2	286204	hgsc.bcm.edu	37	9	126128253	126128253	+	Missense_Mutation	SNP	G	G	C	rs1105222	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	8	8	13	0	1	0	G|0.691;C|0.309	0.309	strong	CRB2,NS,carcinoma,0,1	CRB2	86	1	NM_173689	exon3	c.G476C	p.G159A	ACGGGGGCTCGTG	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	37	12	7985318	7985318	+	Silent	SNP	C	C	A	rs10846018	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	50	97	0	0.537634	0	C|0.979;A|0.021	0.021	strong	.	SLC2A14	78	.	NM_153449	exon4	c.G180T	p.T60T	ACTCACCGTCTCA	.	PASS	Atlas-SNP
ZPBP2	124626	hgsc.bcm.edu	37	17	38031674	38031674	+	Silent	SNP	C	C	T	rs10852935	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	44	17	38	0	0.386364	0	C|0.654;T|0.346	0.346	strong	ZPBP2,colon,carcinoma,0,2	ZPBP2	33	2	NM_199321	exon7	c.C876T	p.C292C	TAATTGCGCTAGC	.	PASS	Atlas-SNP
HOXD12	3238	hgsc.bcm.edu	37	2	176964904	176964904	+	Silent	SNP	G	G	A	rs847151	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	39	82	0	0.541667	0	G|0.702;A|0.298	0.298	strong	.	HOXD12	25	.	NM_021193	exon1	c.G375A	p.L125L	TAGCCTGGCTCCT	.	PASS	Atlas-SNP
PLA2G4E	123745	hgsc.bcm.edu	37	15	42281719	42281719	+	Silent	SNP	G	G	A	rs1668579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	55	45	0	0.932203	0	G|0.630;A|0.370	0.370	strong	.	PLA2G4E	60	.	NM_001206670	exon15	c.C1617T	p.G539G	CTGCAGGCCCACC	.	PASS	Atlas-SNP
MRPS9	64965	hgsc.bcm.edu	37	2	105665808	105665808	+	Silent	SNP	C	C	T	rs11538197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	45	96	0	0.652174	0	C|0.797;T|0.203	0.203	strong	.	MRPS9	32	.	NM_182640	exon2	c.C315T	p.D105D	TATTGACGTAAGT	.	PASS	Atlas-SNP
RPS16	6217	hgsc.bcm.edu	37	19	39926509	39926509	+	Silent	SNP	A	A	C	rs17628	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	16	37	0	0.421053	0	A|0.550;C|0.450	0.450	strong	.	RPS16	12	.	NM_001020	exon1	c.T27G	p.S9S	CTGCACAGACTGC	.	PASS	Atlas-SNP
PRSS37	136242	hgsc.bcm.edu	37	7	141537735	141537735	+	Missense_Mutation	SNP	T	T	G	rs12669721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	93	184	7	0.479381	0.0380435	T|0.509;G|0.491	0.491	strong	PRSS37,NS,adenoma,0,1	PRSS37	42	1	NM_001171951	exon3	c.A355C	p.T119P	CGAGGGTAAGGGG	.	scavenged	Atlas-SNP
ARPP21	10777	hgsc.bcm.edu	37	3	35780947	35780947	+	Missense_Mutation	SNP	G	G	A	rs151173813	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	76	108	0	0.562963	0	G|0.997;A|0.003	0.003	strong	ARPP21,NS,NS,0,1	ARPP21	153	1	NM_001267619	exon16	c.G1786A	p.A596T	GTAATCGCCTCTA	.	PASS	Atlas-SNP
GPLD1	2822	hgsc.bcm.edu	37	6	24489652	24489652	+	Missense_Mutation	SNP	C	C	T	rs1126617	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	52	94	0	0.530612	0	C|0.700;T|0.299	0.299	strong	.	GPLD1	91	.	NM_001503	exon1	c.G88A	p.V30I	TTTCTACGTGTGT	.	PASS	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	37	16	84209864	84209864	+	Missense_Mutation	SNP	G	G	C	rs2288023	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	81	67	0	1	0	G|0.706;C|0.294	0.294	strong	DNAAF1,rectum,carcinoma,0,1	DNAAF1	81	1	NM_178452	exon11	c.G2024C	p.S675T	CTTCCAGTGGAGA	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	146993392	146993392	+	Silent	SNP	A	A	G	rs77104188	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	118	51	118	0	0.432203	0	A|0.976;G|0.024	0.024	strong	.	ADGB	93	.	NM_024694	exon8	c.A876G	p.K292K	CCTGAAAGAAATA	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187540635	187540635	+	Missense_Mutation	SNP	T	T	G	rs77834784	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	126	62	120	2	0.492063	0.0166667	T|0.926;G|0.074	0.074	strong	FAT1,colon,carcinoma,0,2	FAT1	500	2	NM_005245	exon10	c.A7105C	p.T2369P	TCAGCGTGGGCAT	.	scavenged	Atlas-SNP
CCDC65	85478	hgsc.bcm.edu	37	12	49312540	49312540	+	Missense_Mutation	SNP	C	C	T	rs78877829	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	36	105	0	0.433735	0	C|0.965;T|0.035	0.035	strong	.	CCDC65	41	.	NM_033124	exon6	c.C880T	p.R294C	TATATCCGTAATG	.	PASS	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56549510	56549510	+	Missense_Mutation	SNP	T	T	C	rs16986899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	130	73	144	0	0.561538	0	T|0.731;C|0.269	0.269	strong	NLRP5,NS,carcinoma,0,1	NLRP5	217	1	NM_153447	exon10	c.T2735C	p.M912T	GAGTAATGCCTCT	.	PASS	Atlas-SNP
LEPROTL1	23484	hgsc.bcm.edu	37	8	29961951	29961951	+	Silent	SNP	C	C	T	rs11557703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	173	85	198	1	0.491329	0.00505051	C|0.898;T|0.102	0.102	strong	LEPROTL1_ENST00000523116,NS,carcinoma,+1,2	LEPROTL1	16	2	NM_001128208	exon3	c.C228T	p.G76G	AACGGGCATTGTC	.	scavenged	Atlas-SNP
PPP2R5C	5527	hgsc.bcm.edu	37	14	102384272	102384272	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	3	89	0	0.0306122	0	.	.	none	PPP2R5C,NS,carcinoma,0,1	PPP2R5C	74	1	NM_001161725	exon15	c.C1524T	p.D508D	GAAGGACGAGGCT	.	scavenged	Atlas-SNP
TFIP11	24144	hgsc.bcm.edu	37	22	26899695	26899695	+	Silent	SNP	G	G	A	rs74334826	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	44	74	0	0.5	0	G|0.991;A|0.009	0.009	strong	.	TFIP11	72	.	NM_001008697	exon8	c.C585T	p.S195S	GCGCTCGGATCCA	.	PASS	Atlas-SNP
VSX2	338917	hgsc.bcm.edu	37	14	74727367	74727367	+	Silent	SNP	G	G	A	rs62006815	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	125	55	115	0	0.44	0	G|0.975;A|0.025	0.025	strong	.	VSX2	32	.	NM_182894	exon5	c.G831A	p.L277L	GGCCCTGCCCAAG	.	PASS	Atlas-SNP
OR52M1	119772	hgsc.bcm.edu	37	11	4566711	4566711	+	Silent	SNP	C	C	T	rs2709182	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	151	72	201	0	0.476821	0	C|0.520;T|0.480	0.480	strong	.	OR52M1	53	.	NM_001004137	exon1	c.C291T	p.D97D	CCTGGACGCCTGC	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122404946	122404946	+	Missense_Mutation	SNP	C	C	T	rs146415200	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	42	82	0	0.506024	0	C|0.995;T|0.005	0.005	strong	WDR66,NS,carcinoma,-1,1	WDR66	143	1	NM_001178003	exon16	c.C2578T	p.R860C	CAGAAACGCTACT	.	PASS	Atlas-SNP
KRT82	3888	hgsc.bcm.edu	37	12	52788928	52788928	+	Missense_Mutation	SNP	G	G	A	rs2658658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	88	84	0	1	0	G|0.611;A|0.389	0.389	strong	.	KRT82	45	.	NM_033033	exon9	c.C1373T	p.T458M	ACAGGCGTGCTGA	.	PASS	Atlas-SNP
SMOX	54498	hgsc.bcm.edu	37	20	4163302	4163302	+	Silent	SNP	A	A	G	rs1051904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	54	110	0	0.55102	0	A|0.432;G|0.568	0.568	strong	.	SMOX	119	.	NM_175839	exon5	c.A1176G	p.A392A	CGAAGCAGAGAGC	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	37	22	32754306	32754306	+	Missense_Mutation	SNP	T	T	C	rs16987625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	208	104	216	0	0.5	0	T|0.910;C|0.090	0.090	strong	.	RFPL3	91	.	NM_001098535	exon1	c.T248C	p.M83T	GTTCCATGGTCTC	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15127249	15127249	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	46	62	0	0.638889	0	.	.	none	.	PDXDC1	59	.	NM_015027	exon19	c.A1805G	p.N602S	AGGAGAACTCGAG	.	PASS	Atlas-SNP
ZNF623	9831	hgsc.bcm.edu	37	8	144732450	144732450	+	Silent	SNP	G	G	A	rs3750204	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	48	130	0	0.5	0	G|0.722;A|0.278	0.278	strong	ZNF623,NS,carcinoma,0,1	ZNF623	63	1	NM_014789	exon1	c.G408A	p.S136S	TAATTCGGACCTA	.	PASS	Atlas-SNP
SETD5	55209	hgsc.bcm.edu	37	3	9517369	9517369	+	Missense_Mutation	SNP	C	C	T	rs11542009	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	69	114	0	0.543307	0	T|0.068;G|0.000;C|0.932	0.068	strong	.	SETD5	210	.	NM_001080517	exon23	c.C3923T	p.T1308I	TGTCCACAGACTC	.	PASS	Atlas-SNP
CC2D1B	200014	hgsc.bcm.edu	37	1	52828384	52828384	+	Missense_Mutation	SNP	A	A	G	rs11555349	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	53	30	58	0	0.566038	0	A|0.928;G|0.072	0.072	strong	.	CC2D1B	73	.	NM_032449	exon3	c.T104C	p.M35T	AGCAGCATGTCCT	.	PASS	Atlas-SNP
VWA3A	146177	hgsc.bcm.edu	37	16	22157582	22157582	+	Missense_Mutation	SNP	C	C	A	rs61744122	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	77	40	67	0	0.519481	0	C|0.974;A|0.026	0.026	strong	.	VWA3A	115	.	NM_173615	exon27	c.C2756A	p.T919K	AGTGGACGCCCAG	.	PASS	Atlas-SNP
VSTM1	284415	hgsc.bcm.edu	37	19	54545186	54545186	+	Silent	SNP	C	C	T	rs73058793	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	50	56	0	0.980392	0	C|0.755;T|0.245	0.245	strong	.	VSTM1	30	.	NM_198481	exon7	c.G537A	p.P179P	CTGCTCCGGAAGT	.	PASS	Atlas-SNP
OR2S2	56656	hgsc.bcm.edu	37	9	35958047	35958047	+	Missense_Mutation	SNP	T	T	C	rs2233558	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	47	86	0	0.489583	0	T|0.637;C|0.363	0.363	strong	.	OR2S2	46	.	NM_019897	exon1	c.A49G	p.R17G	AGAGCCTCAGGAG	.	PASS	Atlas-SNP
TRIM15	89870	hgsc.bcm.edu	37	6	30131546	30131546	+	Missense_Mutation	SNP	A	A	G	rs17194460	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	29	73	0	0.426471	0	A|0.829;G|0.171	0.171	strong	.	TRIM15	34	.	NM_033229	exon1	c.A85G	p.I29V	GTGACCATTCCCT	.	PASS	Atlas-SNP
WASL	8976	hgsc.bcm.edu	37	7	123388732	123388732	+	Silent	SNP	G	G	A	rs1054706	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	23	39	0	0.621622	0	G|0.567;A|0.433	0.433	strong	.	WASL	70	.	NM_003941	exon1	c.C57T	p.S19S	CAACAGGGACCCC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609192	32609192	+	Missense_Mutation	SNP	A	A	G	rs1142323	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	30	25	110	0	0.833333	0	A|0.709;G|0.291	0.291	strong	.	HLA-DQA1	52	.	NM_002122	exon2	c.A188G	p.E63G	ACCTGGAGAGGAA	.	PASS	Atlas-SNP
MAP2K3	5606	hgsc.bcm.edu	37	17	21207834	21207834	+	Missense_Mutation	SNP	C	C	T	rs58609466	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	243	116	268	0	0.477366	0	C|0.733;T|0.267	0.267	strong	MAP2K3_ENST00000316920,NS,haematopoietic_neoplasm,-1,3	MAP2K3	135	3	NM_145109	exon8	c.C665T	p.T222M	CCAAGACGATGGA	.	PASS	Atlas-SNP
OPA1	4976	hgsc.bcm.edu	37	3	193334991	193334991	+	Missense_Mutation	SNP	G	G	A	rs7624750	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	276	152	227	0	0.550725	0	G|0.517;A|0.483	0.483	strong	OPA1,NS,carcinoma,0,1	OPA1	79	1	NM_130836	exon4	c.G473A	p.S158N	TTCCTAGTTCAGA	.	PASS	Atlas-SNP
SCUBE1	80274	hgsc.bcm.edu	37	22	43610207	43610207	+	Missense_Mutation	SNP	A	A	G	rs138993	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	83	83	91	0	1	0	A|0.489;G|0.511	0.511	strong	SCUBE1,NS,carcinoma,0,1	SCUBE1	105	1	NM_173050	exon16	c.T1942C	p.S648P	TACATGACACACA	.	PASS	Atlas-SNP
FAM187B	148109	hgsc.bcm.edu	37	19	35718891	35718891	+	Nonsense_Mutation	SNP	C	C	T	rs35001809	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	128	49	152	0	0.382812	0	C|0.978;T|0.022	0.022	strong	.	FAM187B	28	.	NM_152481	exon1	c.G693A	p.W231X	GTCGAGCCACACA	.	PASS	Atlas-SNP
EFCAB4B	84766	hgsc.bcm.edu	37	12	3724583	3724583	+	Missense_Mutation	SNP	T	T	C	rs11062745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	184	93	164	0	0.505435	0	T|0.925;C|0.075	0.075	strong	.	EFCAB4B	100	.	NM_001144958	exon20	c.A2134G	p.T712A	TCACTGTGTCTTC	.	PASS	Atlas-SNP
MOG	4340	hgsc.bcm.edu	37	6	29634003	29634003	+	Missense_Mutation	SNP	G	G	C	rs2857766	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	46	64	0	0.541176	0	G|0.810;C|0.190	0.190	strong	.	MOG	47	.	NM_001008229	exon3	c.G511C	p.V171L	ATCACTGTTGGCC	.	PASS	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	37	3	38936134	38936134	+	Missense_Mutation	SNP	C	C	T	rs33985936	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	241	154	155	0	0.639004	0	C|0.801;T|0.199	0.199	strong	.	SCN11A	296	.	NM_014139	exon15	c.G2725A	p.V909I	GCCTGACGCCCAG	.	PASS	Atlas-SNP
ERICH1	157697	hgsc.bcm.edu	37	8	623906	623906	+	Missense_Mutation	SNP	C	C	T	rs118014343	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	23	66	0	0.479167	0	C|0.982;T|0.018	0.018	strong	.	ERICH1	50	.	NM_207332	exon4	c.G446A	p.R149Q	TGCTGTCGCTGAG	.	PASS	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	37	11	77936166	77936166	+	Silent	SNP	A	A	G	rs1385600	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	28	61	0	0.4375	0	A|0.691;G|0.309	0.309	strong	.	GAB2	63	.	NM_080491	exon5	c.T1290C	p.V430V	AGAGCCAACTCCA	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	37	16	24834233	24834233	+	Silent	SNP	C	C	T	rs2303085	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	47	69	0	0.443396	0	C|0.816;T|0.184	0.184	strong	TNRC6A,NS,carcinoma,0,1	TNRC6A	171	1	NM_014494	exon24	c.C5412T	p.H1804H	GCAGCACGGCCCG	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4172006	4172006	+	Silent	SNP	C	C	T	rs13224870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	49	48	0	0.628205	0	C|0.720;T|0.280	0.280	strong	SDK1,NS,malignant_melanoma,+1,1	SDK1	361	1	NM_152744	exon28	c.C4179T	p.S1393S	CACCTCCGTGCGG	.	PASS	Atlas-SNP
FAM198A	729085	hgsc.bcm.edu	37	3	43073761	43073761	+	Silent	SNP	G	G	A	rs658958	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	46	76	0	0.567901	0	G|0.533;A|0.467	0.467	strong	FAM198A_ENST00000430121,caecum,carcinoma,0,1	FAM198A	23	1	NM_001129908	exon2	c.G6A	p.A2A	TCAGGCGTCTTGG	.	PASS	Atlas-SNP
ANKRD20A2	441430	hgsc.bcm.edu	37	9	42368614	42368614	+	Missense_Mutation	SNP	A	A	G	rs71238561		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	160	18	107	0	0.1125	0	A|0.500;G|0.500	0.500	weak	ANKRD20A2,NS,carcinoma,0,1	ANKRD20A2	9	1	NM_001012421	exon1	c.A200G	p.H67R	AGCAGCACAGGTA	.	scavenged	Atlas-SNP
RNF186	54546	hgsc.bcm.edu	37	1	20141528	20141528	+	Missense_Mutation	SNP	C	C	T	rs1541185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	209	105	166	0	0.502392	0	C|0.735;T|0.265	0.265	strong	.	RNF186	14	.	NM_019062	exon1	c.G67A	p.A23T	CCACAGCGGTGGT	.	PASS	Atlas-SNP
OR4Q3	441669	hgsc.bcm.edu	37	14	20216066	20216066	+	Silent	SNP	G	G	A	rs141710392	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	33	128	0	0.232394	0	A|0.016;G|0.984	0.016	strong	.	OR4Q3	117	.	NM_172194	exon1	c.G480A	p.Q160Q	CATGCAGGTCATA	.	PASS	Atlas-SNP
ASPN	54829	hgsc.bcm.edu	37	9	95237024	95237024	+	Missense_Mutation	SNP	C	C	A	rs376433743	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	109	5	110	0	0.0458716	0	.	.	alt	.	ASPN	52	.	NM_001193335	exon2	c.G156T	p.E52D	GTTGTCCTCATCA	.	PASS	Atlas-SNP
PDZD8	118987	hgsc.bcm.edu	37	10	119134707	119134707	+	Missense_Mutation	SNP	G	G	A	rs78645354	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	10	6	8	0	0.6	0	G|0.972;A|0.028	0.028	strong	.	PDZD8	85	.	NM_173791	exon1	c.C32T	p.A11V	AGCACGGCCGACG	.	PASS	Atlas-SNP
SGSM2	9905	hgsc.bcm.edu	37	17	2275734	2275734	+	Silent	SNP	C	C	G	rs3213712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	117	52	109	0	0.444444	0	C|0.810;G|0.190	0.190	strong	SGSM2,colon,carcinoma,0,1	SGSM2	60	1	NM_014853	exon15	c.C1740G	p.S580S	GGCCTCCGCGGGC	.	PASS	Atlas-SNP
EFNA1	1942	hgsc.bcm.edu	37	1	155106227	155106227	+	Missense_Mutation	SNP	A	A	T	rs4745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	185	183	158	1	0.989189	0.00632911	A|0.640;T|0.360	0.360	strong	.	EFNA1	10	.	NM_004428	exon4	c.A476T	p.D159V	CCCATGACAATCC	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147498019	147498019	+	Missense_Mutation	SNP	G	G	A	rs3777134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	63	72	0	1	0	G|0.493;N|0.000	.	strong	SPINK5,NS,carcinoma,0,1	SPINK5	245	1	NM_001127699	exon23	c.G2132A	p.R711Q	AGTATCGGGAACA	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702725	27702725	+	Missense_Mutation	SNP	A	A	G	rs6482626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	50	85	0	0.568182	0	A|0.769;G|0.231	0.231	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.T455C	p.L152P	GTGCCCAGCGCGG	.	PASS	Atlas-SNP
MARK3	4140	hgsc.bcm.edu	37	14	103941454	103941454	+	Silent	SNP	G	G	A	rs56126530	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	51	95	0	0.485714	0	G|0.989;A|0.011	0.011	strong	.	MARK3	86	.	NM_001128919	exon13	c.G1389A	p.K463K	AGGAAAGGGAATT	.	PASS	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602615	5602615	+	Missense_Mutation	SNP	A	A	G	rs2341434	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	69	81	0	1	0	A|0.331;G|0.669	0.669	strong	.	OR52B6	37	.	NM_001005162	exon1	c.A509G	p.H170R	TGAGCCACAGCTT	.	PASS	Atlas-SNP
HECTD1	25831	hgsc.bcm.edu	37	14	31647448	31647448	+	Silent	SNP	G	G	A	rs34666986	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	28	64	0	0.466667	0	G|0.910;A|0.090	0.090	strong	.	HECTD1	159	.	NM_015382	exon3	c.C153T	p.R51R	GAAAGTGCGAGGA	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220353013	220353013	+	Silent	SNP	G	G	A	rs875098	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	25	38	0	0.520833	0	G|0.747;A|0.253	0.253	strong	.	SPEG	272	.	NM_005876	exon32	c.G7839A	p.P2613P	TGCACCGCACATC	.	PASS	Atlas-SNP
LZTR1	8216	hgsc.bcm.edu	37	22	21347150	21347150	+	Missense_Mutation	SNP	C	C	T	rs375451574		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	115	3	82	0	0.026087	0	.	.	weak	LZTR1,NS,carcinoma,0,1	LZTR1	99	1	NM_006767	exon11	c.C1217T	p.T406M	GGGGCACGGTGGA	.	scavenged	Atlas-SNP
IPO11	51194	hgsc.bcm.edu	37	5	61847073	61847073	+	Silent	SNP	G	G	C	rs32170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	60	25	50	0	0.416667	0	G|0.912;C|0.088	0.088	strong	.	IPO11	76	.	NM_001134779	exon26	c.G2490C	p.T830T	GTCCACGTATCTT	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38121013	38121013	+	Missense_Mutation	SNP	C	C	G	rs41302575	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	68	147	0	0.456376	0	C|0.959;G|0.041	0.041	strong	.	TRIOBP	262	.	NM_001039141	exon7	c.C2450G	p.T817S	CCAGAACTTGTAT	.	PASS	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	37	2	98797660	98797660	+	Silent	SNP	C	C	T	rs375244468		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	68	154	0	0.404762	0	.	.	weak	.	VWA3B	138	.	NM_144992	exon9	c.C1296T	p.S432S	TGAGTCCGTGCAG	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207782707	207782707	+	Missense_Mutation	SNP	A	A	G	rs17259045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	74	133	0	0.471338	0	A|0.938;G|0.062	0.062	strong	.	CR1	354	.	NM_000651	exon37	c.A5969G	p.N1990S	TTCACAATGGAAC	.	PASS	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	94026	94026	+	Silent	SNP	G	G	A	rs10904032	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	162	61	209	0	0.376543	0	G|0.731;A|0.269	0.269	strong	.	TUBB8	62	.	NM_177987	exon4	c.C306T	p.A102A	TCCCTTGGCCCAG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1026048	1026048	+	Silent	SNP	G	G	A	rs55965773	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	120	112	0	0.991736	0	G|0.902;A|0.098	0.098	strong	.	MUC6	408	.	NM_005961	exon21	c.C2640T	p.D880D	CTGGCCGTCGAAG	.	PASS	Atlas-SNP
RPE65	6121	hgsc.bcm.edu	37	1	68895516	68895516	+	Silent	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	3	91	0	0.0283019	0	.	.	none	RPE65,NS,carcinoma,-2,1	RPE65	87	1	NM_000329	exon14	c.G1545A	p.R515R	TTCAGCCCGGGCA	.	scavenged	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1122201	1122201	+	Silent	SNP	G	G	A	rs62131221	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	64	68	0	1	0	G|0.909;A|0.091	0.091	strong	.	SBNO2	112	.	NM_014963	exon11	c.C1086T	p.G362G	CTGGCCGCCGGCC	.	PASS	Atlas-SNP
OR4Q3	441669	hgsc.bcm.edu	37	14	20215989	20215989	+	Missense_Mutation	SNP	A	A	G	rs17210864	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	46	151	0	0.292994	0	A|0.904;G|0.096	0.096	strong	.	OR4Q3	117	.	NM_172194	exon1	c.A403G	p.T135A	TACCTTACAGTCA	.	PASS	Atlas-SNP
LACTB2	51110	hgsc.bcm.edu	37	8	71550832	71550832	+	Silent	SNP	T	T	C	rs7830986	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	31	119	0	0.329787	0	T|0.840;C|0.160	0.160	strong	.	LACTB2	26	.	NM_016027	exon6	c.A774G	p.K258K	ATTATGTTTAGCC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629764	32629764	+	Missense_Mutation	SNP	C	C	T	rs1130398	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	46	81	0	1	0	T|0.416;C|0.584	0.416	strong	.	HLA-DQB1	15	.	NM_002123	exon3	c.G641A	p.S214N	ATGGGGCTCTGGA	.	PASS	Atlas-SNP
CNN2	1265	hgsc.bcm.edu	37	19	1036444	1036444	+	Silent	SNP	G	G	A	rs930231	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	113	63	102	0	0.557522	0	G|0.770;C|0.000;A|0.230	0.230	strong	.	CNN2	26	.	NM_004368	exon6	c.G537A	p.S179S	CCAGTCGGGCATG	.	PASS	Atlas-SNP
FAM161B	145483	hgsc.bcm.edu	37	14	74413129	74413129	+	Silent	SNP	C	C	G	rs7146634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	114	49	113	0	0.429825	0	C|0.648;G|0.352	0.352	strong	.	FAM161B	67	.	NM_152445	exon2	c.G423C	p.G141G	CCATCTCCCTTTC	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	863152	863152	+	Missense_Mutation	SNP	G	G	A	rs11554421	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	28	24	0	0.736842	0	G|0.938;A|0.062	0.062	strong	.	WNK1	403	.	NM_001184985	exon1	c.G421A	p.A141T	GCCGCTGCCGCCC	.	PASS	Atlas-SNP
SCNN1D	6339	hgsc.bcm.edu	37	1	1226889	1226889	+	Missense_Mutation	SNP	G	G	A	rs609805	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	36	46	0	0.62069	0	G|0.929;A|0.071	0.071	strong	.	SCNN1D	60	.	NM_001130413	exon18	c.G2308A	p.G770R	CCCAGCGGGCCTC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187538330	187538330	+	Silent	SNP	G	G	A	rs1280099	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	127	126	118	1	0.992126	0.00847458	G|0.546;A|0.453	0.453	strong	.	FAT1	500	.	NM_005245	exon11	c.C8904T	p.A2968A	TTCAACGGCAAAC	.	PASS	Atlas-SNP
ANKRD50	57182	hgsc.bcm.edu	37	4	125591687	125591687	+	Silent	SNP	A	A	G	rs3733471	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	194	81	203	0	0.417526	0	A|0.742;G|0.258	0.258	strong	.	ANKRD50	136	.	NM_020337	exon4	c.T2745C	p.N915N	CAGTGCATTTCTT	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60899206	60899206	+	Missense_Mutation	SNP	C	C	T	rs2427283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	100	94	0	1	0	C|0.350;T|0.650	0.650	strong	LAMA5,NS,carcinoma,0,1	LAMA5	268	1	NM_005560	exon43	c.G5698A	p.V1900M	TGCTCACGAAGCC	.	PASS	Atlas-SNP
SLC22A7	10864	hgsc.bcm.edu	37	6	43270151	43270151	+	Silent	SNP	C	C	T	rs2270860	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	16	8	25	0	0.5	0	C|0.562;T|0.436	0.436	strong	.	SLC22A7	69	.	NM_153320	exon7	c.C1275T	p.S425S	GTCCTCCGGTGAG	.	PASS	Atlas-SNP
KIAA1024	23251	hgsc.bcm.edu	37	15	79749447	79749447	+	Missense_Mutation	SNP	G	G	T	rs11634652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	71	27	78	0	0.380282	0	G|0.866;T|0.134	0.134	strong	.	KIAA1024	146	.	NM_015206	exon2	c.G958T	p.V320F	TCCCCGGTTCCTG	.	PASS	Atlas-SNP
TRIO	7204	hgsc.bcm.edu	37	5	14498727	14498727	+	Silent	SNP	G	G	A	rs26107	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	57	110	0	0.57	0	G|0.894;N|0.000	.	strong	.	TRIO	305	.	NM_007118	exon53	c.G8310A	p.S2770S	CTCATCGTCGGCC	.	PASS	Atlas-SNP
WFS1	7466	hgsc.bcm.edu	37	4	6302830	6302830	+	Silent	SNP	C	C	T	rs71539646	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	24	103	0	0.444444	0	C|0.994;T|0.006	0.006	strong	.	WFS1	71	.	NM_001145853	exon8	c.C1308T	p.T436T	CATCACCGGCTTC	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	37	13	50126382	50126382	+	Silent	SNP	G	G	A	rs2274278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	63	66	0	1	0	G|0.139;A|0.861	0.861	strong	.	RCBTB1	34	.	NM_018191	exon7	c.C643T	p.L215L	TTCCCAGGCCCAG	.	PASS	Atlas-SNP
CFTR	1080	hgsc.bcm.edu	37	7	117235055	117235055	+	Silent	SNP	T	T	G	rs1042077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	66	141	0	0.471429	0	G|0.425;N|0.000	0.425	strong	.	CFTR	171	.	NM_000492	exon15	c.T2562G	p.T854T	TATTACTGTCCAC	.	PASS	Atlas-SNP
ZZZ3	26009	hgsc.bcm.edu	37	1	78098403	78098403	+	Missense_Mutation	SNP	T	T	C	rs34535037	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	71	163	0	0.47651	0	T|0.984;C|0.016	0.016	strong	.	ZZZ3	80	.	NM_015534	exon5	c.A637G	p.I213V	AGTTTATAACAGC	.	PASS	Atlas-SNP
CASP8AP2	9994	hgsc.bcm.edu	37	6	90577650	90577650	+	Silent	SNP	T	T	G	rs200433993	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	96	37	89	0	0.385417	0	T|0.996;G|0.004	0.004	strong	CASP8AP2,caecum,carcinoma,+2,1	CASP8AP2	108	1	NM_001137667	exon8	c.T4641G	p.R1547R	ACGACGTGCAACA	.	PASS	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	37	10	117486763	117486763	+	Silent	SNP	G	G	T	rs2254619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	25	18	0	1	0	G|0.735;T|0.265	0.265	strong	.	ATRNL1	219	.	NM_207303	exon27	c.G3801T	p.L1267L	GCAACTGCTTCGA	.	PASS	Atlas-SNP
AVPI1	60370	hgsc.bcm.edu	37	10	99439673	99439673	+	Splice_Site	SNP	C	C	G	rs3818780	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	25	15	45	0	0.6	0	C|0.822;G|0.178	0.178	strong	.	AVPI1	16	.	.	.	.	.	GATGCTCTGAGGA	.	PASS	Atlas-SNP
REV1	51455	hgsc.bcm.edu	37	2	100058870	100058870	+	Missense_Mutation	SNP	C	C	T	rs3087403	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	59	110	0	0.409722	0	C|0.747;T|0.253	0.253	strong	.	REV1	100	.	NM_001037872	exon5	c.G412A	p.V138M	TCTGCACACTGGA	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20296004	20296004	+	Missense_Mutation	SNP	C	C	T	rs2318279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	348	62	267	0	0.178161	0	C|0.753;T|0.247	0.247	strong	OR4N2,NS,carcinoma,0,1	OR4N2	125	1	NM_001004723	exon1	c.C397T	p.P133S	CACTATCCTACTG	.	PASS	Atlas-SNP
ZNF100	163227	hgsc.bcm.edu	37	19	21910621	21910621	+	Silent	SNP	A	A	G	rs11556742	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	111	48	95	0	0.432432	0	A|0.980;G|0.020	0.020	strong	.	ZNF100	62	.	NM_173531	exon5	c.T493C	p.L165L	GGTTTAATTTGTT	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31294702	31294702	+	Missense_Mutation	SNP	G	G	T	rs61734298	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	46	111	0	0.484211	0	G|0.977;T|0.023	0.023	strong	.	TRPM1	183	.	NM_001252020	exon27	c.C4252A	p.P1418T	AACTTGGGGAAAT	.	PASS	Atlas-SNP
TMTC4	84899	hgsc.bcm.edu	37	13	101287340	101287340	+	Missense_Mutation	SNP	C	C	T	rs946837	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	57	110	0	0.475	0	C|0.645;N|0.001	.	strong	TMTC4,caecum,carcinoma,0,1	TMTC4	103	1	NM_032813	exon11	c.G1312A	p.V438I	ACCCAACGCTGGG	.	PASS	Atlas-SNP
PGLYRP4	57115	hgsc.bcm.edu	37	1	153313044	153313044	+	Missense_Mutation	SNP	C	C	T	rs12063091	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	25	28	1	0.595238	0.0357143	C|0.923;T|0.077	0.077	strong	PGLYRP4,NS,carcinoma,0,1	PGLYRP4	45	1	NM_020393	exon7	c.G637A	p.V213I	GGACAACGCCGGG	.	scavenged	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	37	3	38888764	38888764	+	Silent	SNP	G	G	A	rs62244134	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	94	54	70	0	0.574468	0	G|0.911;A|0.089	0.089	strong	.	SCN11A	296	.	NM_014139	exon26	c.C4797T	p.Y1599Y	AGCAATGTACATG	.	PASS	Atlas-SNP
ANLN	54443	hgsc.bcm.edu	37	7	36445856	36445856	+	Missense_Mutation	SNP	G	G	A	rs197367	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	145	41	85	0	0.282759	0	G|0.431;A|0.569	0.569	strong	.	ANLN	101	.	NM_018685	exon4	c.G554A	p.R185K	CTCCCAGACCTCT	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	37	20	34089718	34089718	+	Silent	SNP	G	G	T	rs2274238	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	26	14	32	0	0.538462	0	G|0.953;T|0.047	0.047	strong	.	CEP250	141	.	NM_007186	exon29	c.G3945T	p.L1315L	TGAGCTGATGGAA	.	PASS	Atlas-SNP
GOT2	2806	hgsc.bcm.edu	37	16	58768129	58768129	+	Missense_Mutation	SNP	C	C	A	rs11558171	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	32	10	0	0.561404	0	C|0.946;A|0.054	0.054	strong	GOT2,NS,carcinoma,0,1	GOT2	42	1	NM_002080	exon1	c.G4T	p.A2S	GCAGGGCCATGGT	.	PASS	Atlas-SNP
CSTL1	128817	hgsc.bcm.edu	37	20	23424638	23424638	+	Missense_Mutation	SNP	C	C	T	rs3746737	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	82	41	81	0	0.5	0	C|0.903;T|0.097	0.097	strong	CSTL1,NS,carcinoma,0,1	CSTL1	30	1	NM_138283	exon3	c.C287T	p.T96M	ATGACACGAGCAA	.	PASS	Atlas-SNP
NCS1	23413	hgsc.bcm.edu	37	9	132988709	132988709	+	Silent	SNP	T	T	G	rs2277200	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	42	38	0	0.976744	0	T|0.646;G|0.354	0.354	strong	NCS1,colon,carcinoma,0,2	NCS1	18	2	NM_014286	exon7	c.T516G	p.G172G	GGAGGGTTCCAAG	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124767067	124767067	+	Missense_Mutation	SNP	T	T	C	rs59648931	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	90	44	104	0	0.488889	0	T|0.646;C|0.354	0.354	strong	.	ROBO4	130	.	NM_019055	exon2	c.A161G	p.Q54R	GAGGCTTGGCAGC	.	PASS	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	37	13	21735998	21735998	+	Missense_Mutation	SNP	T	T	C	rs17345690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	101	51	97	0	0.504951	0	T|0.886;C|0.114	0.114	strong	SKA3,NS,carcinoma,0,1	SKA3	76	1	NM_145061	exon5	c.A760G	p.T254A	ATTCTGTATCTAT	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	37	6	170871067	170871067	+	Silent	SNP	G	G	A	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	39	7	44	0	0.179487	0	.	.	none	TBP,NS,carcinoma,0,1	TBP	58	1	NM_003194	exon3	c.G243A	p.Q81Q	GCAGCAGCAGCAG	.	PASS	Atlas-SNP
AQP4	361	hgsc.bcm.edu	37	18	24442392	24442392	+	Silent	SNP	C	C	A	rs35248760	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	56	117	0	0.375839	0	C|0.914;A|0.086	0.086	strong	.	AQP4	27	.	NM_001650	exon2	c.G201T	p.P67P	GTCGACCGGTAAA	.	PASS	Atlas-SNP
DDX60L	91351	hgsc.bcm.edu	37	4	169382991	169382991	+	Silent	SNP	C	C	A	rs17612630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	46	81	0	0.522727	0	C|0.904;A|0.096	0.096	strong	DDX60L,caecum,carcinoma,-1,1	DDX60L	116	1	NM_001012967	exon5	c.G465T	p.T155T	AAGGTACGTTTGT	.	PASS	Atlas-SNP
OR5D16	390144	hgsc.bcm.edu	37	11	55606693	55606693	+	Missense_Mutation	SNP	G	G	A	rs6591700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	48	102	0	0.470588	0	G|0.841;A|0.159	0.159	strong	.	OR5D16	94	.	NM_001005496	exon1	c.G466A	p.A156T	GGAGTCGCATGTT	.	PASS	Atlas-SNP
PANX1	24145	hgsc.bcm.edu	37	11	93862493	93862493	+	Missense_Mutation	SNP	A	A	C	rs1138800	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	79	66	0	0.9875	0	A|0.289;C|0.711	0.711	strong	PANX1,NS,carcinoma,+2,1	PANX1	38	1	NM_015368	exon1	c.A15C	p.Q5H	CGCTCAACTGGCC	.	PASS	Atlas-SNP
OPN1LW	5956	hgsc.bcm.edu	37	X	153418541	153418541	+	Missense_Mutation	SNP	T	T	G	rs949431	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	195	194	146	0	0.994872	0	T|0.257;G|0.743	0.743	strong	.	OPN1LW	87	.	NM_020061	exon3	c.T538G	p.S180A	ATCTGGTCTGCTG	.	PASS	Atlas-SNP
HHAT	55733	hgsc.bcm.edu	37	1	210577901	210577901	+	Missense_Mutation	SNP	T	T	C	rs34228541	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	43	68	2	0.581081	0.0294118	T|0.874;C|0.126	0.126	strong	HHAT,NS,carcinoma,-2,1	HHAT	66	1	NM_001170587	exon5	c.T565C	p.C189R	GAGCTCTGCTGGC	.	scavenged	Atlas-SNP
MYO9A	4649	hgsc.bcm.edu	37	15	72172883	72172883	+	Missense_Mutation	SNP	G	G	C	rs2306575	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	57	22	57	0	0.385965	0	G|0.965;C|0.035	0.035	strong	.	MYO9A	203	.	NM_006901	exon29	c.C5415G	p.H1805Q	TGTTGGGTGATAT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280900	152280900	+	Missense_Mutation	SNP	T	T	G	rs74129452	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	328	110	192	1	0.335366	0.00520833	T|0.872;G|0.128	0.128	strong	FLG,right_upper_lobe,carcinoma,-2,1	FLG	900	1	NM_002016	exon3	c.A6462C	p.Q2154H	TTGCTCTTGGTGG	.	scavenged	Atlas-SNP
TIMM50	92609	hgsc.bcm.edu	37	19	39971432	39971432	+	Missense_Mutation	SNP	G	G	C	rs2304220	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	33	53	0	0.515625	0	G|0.869;C|0.131	0.131	strong	.	TIMM50	37	.	NM_001001563	exon1	c.G248C	p.S83T	GCTGTAGCTCCGG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11672607	11672607	+	Missense_Mutation	SNP	G	G	T	rs61744697	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	37	16	45	0	0.432432	0	G|0.901;T|0.099	0.099	strong	.	DNAH9	695	.	NM_001372	exon38	c.G7513T	p.V2505L	AAAAACGTGCCAT	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134351343	134351343	+	Missense_Mutation	SNP	C	C	T	rs11243403	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	51	27	53	0	0.529412	0	C|0.636;T|0.364	0.364	strong	.	PRRC2B	266	.	NM_013318	exon15	c.C3827T	p.A1276V	GCCGCGCGGAGGA	.	PASS	Atlas-SNP
SLC20A1	6574	hgsc.bcm.edu	37	2	113404708	113404708	+	Silent	SNP	G	G	A	rs4849091	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	139	146	0	0.992857	0	G|0.602;A|0.398	0.398	strong	SLC20A1,NS,carcinoma,+2,1	SLC20A1	59	1	NM_005415	exon2	c.G303A	p.L101L	AGGGCTGCTGATG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179395067	179395067	+	Silent	SNP	C	C	G	rs56207956	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	42	70	0	0.575342	0	C|0.940;G|0.060	0.060	strong	.	TTN	18412	.	NM_001267550	exon358	c.G106275C	p.G35425G	CTGCAACCCAGTA	.	PASS	Atlas-SNP
RSPH4A	345895	hgsc.bcm.edu	37	6	116950734	116950734	+	Missense_Mutation	SNP	G	G	A	rs6927567	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	27	45	0	0.482143	0	G|0.812;A|0.188	0.188	strong	.	RSPH4A	54	.	NM_001010892	exon4	c.G1667A	p.R556H	AGGGTCGCTGTAA	.	PASS	Atlas-SNP
C20orf173	140873	hgsc.bcm.edu	37	20	34116307	34116307	+	Silent	SNP	C	C	T	rs35756561	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	219	110	232	0	0.502283	0	C|0.963;T|0.037	0.037	strong	.	C20orf173	19	.	NM_001145350	exon4	c.G555A	p.V185V	AGTCCACACCAGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179633644	179633644	+	Silent	SNP	G	G	C	rs4894045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	91	37	82	0	0.406593	0	G|0.957;C|0.043	0.043	strong	.	TTN	18412	.	NM_001267550	exon38	c.C8919G	p.S2973S	CAGCATGGAAGTA	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156879580	156879580	+	Silent	SNP	C	C	T	rs3737224	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	49	74	0	0.453704	0	C|0.847;T|0.153	0.153	strong	.	PEAR1	118	.	NM_001080471	exon12	c.C1449T	p.P483P	CCCACCCGGAACC	.	PASS	Atlas-SNP
FOXRED2	80020	hgsc.bcm.edu	37	22	36886112	36886112	+	Silent	SNP	G	G	A	rs34949308	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	24	63	0	0.375	0	G|0.991;A|0.009	0.009	strong	.	FOXRED2	48	.	NM_001102371	exon9	c.C1998T	p.S666S	CAGGGGGGAACCT	.	PASS	Atlas-SNP
CCP110	9738	hgsc.bcm.edu	37	16	19553950	19553950	+	Silent	SNP	A	A	C	rs72767539	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	95	50	85	0	0.526316	0	A|0.973;C|0.027	0.027	strong	.	CCP110	57	.	NM_001199022	exon7	c.A2235C	p.T745T	TTTCACAAATTCT	.	PASS	Atlas-SNP
SERPINA10	51156	hgsc.bcm.edu	37	14	94756794	94756794	+	Missense_Mutation	SNP	T	T	C	rs941590	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	53	65	0	0.981481	0	T|0.428;C|0.572	0.572	strong	.	SERPINA10	83	.	NM_001100607	exon2	c.A137G	p.K46R	TCCTCCTTGGGAG	.	PASS	Atlas-SNP
BBOX1	8424	hgsc.bcm.edu	37	11	27148847	27148847	+	Silent	SNP	G	G	A	rs77035197	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	55	30	67	0	0.545455	0	G|0.968;A|0.032	0.032	strong	.	BBOX1	46	.	NM_003986	exon9	c.G1011A	p.V337V	TGATGTGATTACT	.	PASS	Atlas-SNP
KIF5C	3800	hgsc.bcm.edu	37	2	149806388	149806388	+	Silent	SNP	C	C	T	rs60169973	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	43	91	0	0.398148	0	C|0.884;T|0.116	0.116	strong	.	KIF5C	166	.	NM_004522	exon9	c.C750T	p.D250D	TCTTGACGAAGCT	.	PASS	Atlas-SNP
REPIN1	29803	hgsc.bcm.edu	37	7	150068605	150068605	+	Missense_Mutation	SNP	G	G	A	rs17173702	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	42	24	39	0	0.571429	0	G|0.761;C|0.000;A|0.238	0.238	strong	.	REPIN1	74	.	NM_001099695	exon3	c.G446A	p.R149H	GTGGCCGTCGCTT	.	PASS	Atlas-SNP
RECQL5	9400	hgsc.bcm.edu	37	17	73624466	73624466	+	Silent	SNP	G	G	A	rs140010427	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	67	30	87	0	0.447761	0	G|0.997;A|0.003	0.003	strong	.	RECQL5	77	.	NM_004259	exon18	c.C2637T	p.V879V	AGCTACGACGGAG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29770551	29770551	+	Missense_Mutation	SNP	A	A	G	rs11007612	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	79	161	1	0.548611	0.00621118	A|0.915;G|0.085	0.085	strong	SVIL,NS,carcinoma,+1,1	SVIL	226	1	NM_021738	exon28	c.T5062C	p.S1688P	CATTCGATCTCTT	.	scavenged	Atlas-SNP
HPSE2	60495	hgsc.bcm.edu	37	10	100219374	100219374	+	Missense_Mutation	SNP	T	T	A	rs10883100	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	64	64	75	2	1	0.0266667	A|0.539;N|0.000	0.539	strong	HPSE2,NS,carcinoma,0,1	HPSE2	203	1	NM_021828	exon12	c.A1736T	p.Y579F	ACCACATAAAAGC	.	scavenged	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	705795	705795	+	Silent	SNP	C	C	T	rs12599798	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	28	40	0	0.595745	0	C|0.785;T|0.215	0.215	strong	.	WDR90	107	.	NM_145294	exon17	c.C1872T	p.S624S	CAGCAGCCTCAGC	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84609913	84609913	+	Silent	SNP	C	C	T	rs12341627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	24	82	0	0.307692	0	C|0.882;T|0.118	0.118	strong	.	.	.	.	NM_001001670	exon4	c.C4528T	p.L1510L	AAGATACTGTGTC	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48314798	48314798	+	Silent	SNP	G	G	T	rs13233225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	183	181	136	0	0.989071	0	G|0.750;T|0.250	0.250	strong	.	ABCA13	1192	.	NM_152701	exon17	c.G5535T	p.G1845G	CCATGGGCTCATG	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116931737	116931737	+	Silent	SNP	C	C	T	rs2808771	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	13	23	0	0.40625	0	C|0.745;T|0.255	0.255	strong	.	COL27A1	200	.	NM_032888	exon3	c.C1902T	p.G634G	CTGTGGCTTGCCG	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	271638	271638	+	Missense_Mutation	SNP	C	C	T	rs506121	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	56	27	50	0	0.482143	0	C|0.688;T|0.312	0.312	strong	.	DOCK8	401	.	NM_203447	exon2	c.C65T	p.A22V	CTTCAGCGGAAAT	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	42045747	42045747	+	Silent	SNP	T	T	C	rs35730380	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	33	61	0	0.611111	0	T|0.958;C|0.042	0.042	strong	.	HIVEP3	235	.	NM_024503	exon4	c.A4722G	p.S1574S	CGTTTCTGACAGA	.	PASS	Atlas-SNP
CCDC105	126402	hgsc.bcm.edu	37	19	15133803	15133803	+	Missense_Mutation	SNP	G	G	A	rs116923487	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	46	103	0	0.474227	0	G|0.976;A|0.024	0.024	strong	.	CCDC105	53	.	NM_173482	exon7	c.G1372A	p.G458S	GTGGACGGCAACG	.	PASS	Atlas-SNP
FANCL	55120	hgsc.bcm.edu	37	2	58388696	58388696	+	Silent	SNP	A	A	G	rs848291	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	149	74	150	0	0.496644	0	A|0.313;G|0.687	0.687	strong	.	FANCL	35	.	NM_001114636	exon12	c.T996C	p.S332S	ACACTGAGAATTA	.	PASS	Atlas-SNP
OR9K2	441639	hgsc.bcm.edu	37	12	55523685	55523685	+	Missense_Mutation	SNP	C	C	T	rs12303066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	163	85	141	0	0.521472	0	C|0.679;T|0.321	0.321	strong	OR9K2,NS,carcinoma,0,2	OR9K2	63	2	NM_001005243	exon1	c.C133T	p.R45C	AGGGTACGCCCAG	.	PASS	Atlas-SNP
SERPINA5	5104	hgsc.bcm.edu	37	14	95058462	95058462	+	Silent	SNP	A	A	C	rs6116	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	68	79	0	0.985507	0	A|0.635;C|0.365	0.365	strong	.	SERPINA5	69	.	NM_000624	exon6	c.A1107C	p.I369I	GACAATATTCACT	.	PASS	Atlas-SNP
ADAM12	8038	hgsc.bcm.edu	37	10	127753478	127753478	+	Silent	SNP	G	G	A	rs1278279	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	69	38	69	0	0.550725	0	G|0.726;A|0.274	0.274	strong	.	ADAM12	388	.	NM_021641	exon14	c.C1515T	p.N505N	GTACACGTTGGCT	.	PASS	Atlas-SNP
TNFRSF1A	7132	hgsc.bcm.edu	37	12	6450945	6450945	+	Silent	SNP	T	T	C	rs767455	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	103	98	0	1	0	T|0.619;C|0.381	0.381	strong	TNFRSF1A,NS,carcinoma,0,1	TNFRSF1A	39	1	NM_001065	exon1	c.A36G	p.P12P	CACCAGTGGCAGC	.	PASS	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127228596	127228596	+	Silent	SNP	A	A	G	rs4838184	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	199	103	238	1	0.517588	0.00420168	A|0.273;G|0.727	0.727	strong	.	GPR144	33	.	NM_001161808	exon11	c.A1851G	p.T617T	CACCACAGGCTGC	.	PASS	Atlas-SNP
PPP3CA	5530	hgsc.bcm.edu	37	4	101984390	101984390	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	26	146	0	0.209677	0	.	.	none	.	PPP3CA	51	.	NM_000944	exon9	c.A1080G	p.K360K	CATACCTTTTTCC	.	PASS	Atlas-SNP
UGT2B11	10720	hgsc.bcm.edu	37	4	70066376	70066376	+	Missense_Mutation	SNP	C	C	G	rs144149579	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	87	8	92	0	0.091954	0	C|0.959;G|0.041	0.041	strong	UGT2B11,trunk,malignant_melanoma,0,1	UGT2B11	92	1	NM_001073	exon6	c.G1372C	p.D458H	CTCGATCCAGGGG	.	scavenged	Atlas-SNP
AMBN	258	hgsc.bcm.edu	37	4	71469604	71469604	+	Missense_Mutation	SNP	C	C	T	rs7439186	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	54	26	46	0	0.481481	0	C|0.897;T|0.103	0.103	strong	.	AMBN	73	.	NM_016519	exon12	c.C764T	p.A255V	CCCCTGCCAGACT	.	PASS	Atlas-SNP
ZNF90	7643	hgsc.bcm.edu	37	19	20228941	20228941	+	Missense_Mutation	SNP	A	A	G	rs61998186	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	17	17	0	0.73913	0	A|0.869;G|0.131	0.131	strong	ZNF90_ENST00000418063,NS,carcinoma,-1,2	ZNF90	93	2	NM_007138	exon4	c.A578G	p.K193R	ATAAGAAAATTCA	.	PASS	Atlas-SNP
GSG1L	146395	hgsc.bcm.edu	37	16	27974487	27974487	+	Silent	SNP	T	T	C	rs2051743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	106	48	90	0	0.45283	0	T|0.424;C|0.576	0.576	strong	.	GSG1L	82	.	NM_001109763	exon2	c.A387G	p.A129A	CTCCGATGCCGGG	.	PASS	Atlas-SNP
TRIM48	79097	hgsc.bcm.edu	37	11	55032462	55032462	+	Missense_Mutation	SNP	T	T	C	rs79623326	bycluster;byfrequency	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	211	17	448	0	0.0805687	0	T|0.994;C|0.006	0.006	strong	TRIM48_ENST00000417545,NS,haematopoietic_neoplasm,0,2	TRIM48	149	2	NM_024114	exon2	c.T131C	p.I44T	TCACCATAGACTG	.	scavenged	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32188640	32188640	+	Missense_Mutation	SNP	T	T	C	rs71556915	alternate_allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	46	104	1	0.469388	0.00961538	CCC|0.500;TCT|0.500	.	alt	NOTCH4,NS,carcinoma,-1,1	NOTCH4	201	1	NM_004557	exon5	c.A815G	p.D272G	TCACAGTCTGGGC	.	scavenged	Atlas-SNP
SLC6A5	9152	hgsc.bcm.edu	37	11	20623007	20623007	+	Silent	SNP	C	C	T	rs7109418	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	34	17	19	0	0.5	0	C|0.774;T|0.226	0.226	strong	.	SLC6A5	151	.	NM_004211	exon2	c.C336T	p.S112S	GAGCTCCGGGCCC	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124856830	124856830	+	Missense_Mutation	SNP	C	C	T	rs142292731	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	62	23	32	0	0.370968	0	C|0.988;T|0.012	0.012	strong	.	NCOR2	475	.	NM_006312	exon22	c.G2545A	p.E849K	GCTCCTCAGCCGC	.	PASS	Atlas-SNP
COQ6	51004	hgsc.bcm.edu	37	14	74424938	74424938	+	Silent	SNP	T	T	C	rs3180946	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	179	88	153	0	0.49162	0	T|0.737;C|0.263	0.263	strong	.	COQ6	27	.	NM_182476	exon5	c.T570C	p.H190H	GGTTCATATTACC	.	PASS	Atlas-SNP
EVPL	2125	hgsc.bcm.edu	37	17	74014634	74014634	+	Missense_Mutation	SNP	G	G	T	rs7218767	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	169	78	180	1	0.461538	0.00555556	G|0.921;T|0.079	0.079	strong	EVPL,NS,carcinoma,0,1	EVPL	155	1	NM_001988	exon12	c.C1332A	p.D444E	GTGCGGGTCAGTG	.	scavenged	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40360928	40360928	+	Silent	SNP	G	G	A	rs1053686	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	81	38	88	0	0.469136	0	G|0.865;N|0.000	.	strong	FCGBP,NS,carcinoma,0,1	FCGBP	416	1	NM_003890	exon33	c.C15480T	p.R5160R	CAGGAAGCGGTCG	.	PASS	Atlas-SNP
PROKR2	128674	hgsc.bcm.edu	37	20	5283376	5283376	+	Silent	SNP	G	G	A	rs3746684	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	47	29	40	0	0.617021	0	G|0.578;A|0.422	0.422	strong	.	PROKR2	90	.	NM_144773	exon2	c.C465T	p.L155L	GATGGCGAGATAT	.	PASS	Atlas-SNP
C11orf80	79703	hgsc.bcm.edu	37	11	66610645	66610645	+	Silent	SNP	G	G	C	rs7570	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	63	34	72	0	0.539683	0	G|0.787;C|0.213	0.213	strong	.	C11orf80	31	.	NM_024650	exon17	c.G1974C	p.V658V	GGACGTGCTGTGG	.	PASS	Atlas-SNP
WFDC8	90199	hgsc.bcm.edu	37	20	44184498	44184498	+	Missense_Mutation	SNP	A	A	G	rs2272955	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	80	43	87	0	0.5375	0	A|0.897;G|0.103	0.103	strong	WFDC8,NS,carcinoma,0,1	WFDC8	28	1	NM_181510	exon4	c.T287C	p.M96T	GGTAGCATGCAGG	.	PASS	Atlas-SNP
SCN4A	6329	hgsc.bcm.edu	37	17	62049749	62049749	+	Missense_Mutation	SNP	C	C	T	rs41280110	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	146	85	119	0	0.582192	0	C|0.998;T|0.002	0.002	strong	SCN4A,NS,carcinoma,+1,1	SCN4A	205	1	NM_000334	exon2	c.G355A	p.V119I	TGACTACGCTGAA	.	PASS	Atlas-SNP
HJURP	55355	hgsc.bcm.edu	37	2	234758500	234758500	+	Silent	SNP	G	G	A	rs529963	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	12	23	0	0.521739	0	G|0.792;A|0.208	0.208	strong	.	HJURP	72	.	NM_018410	exon4	c.C246T	p.S82S	CATGGAGGAGTCC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60897487	60897487	+	Missense_Mutation	SNP	C	C	T	rs2274934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	73	73	58	0	1	0	C|0.463;T|0.537	0.537	strong	.	LAMA5	268	.	NM_005560	exon47	c.G6184A	p.D2062N	AGCCATCGAAACC	.	PASS	Atlas-SNP
CCDC74B	91409	hgsc.bcm.edu	37	2	130898813	130898813	+	Missense_Mutation	SNP	G	G	A	rs2599962	bycluster;byfrequency;bysubmitter;by2hit2allele	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	23	108	0	0.169118	0	G|0.700;A|0.300	0.300	strong	CCDC74B,NS,carcinoma,+2,2	CCDC74B	27	2	NM_207310	exon4	c.C601T	p.P201S	TCTGGGGGACGTC	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9060541	9060541	+	Missense_Mutation	SNP	C	C	T	rs11882256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	230	110	217	0	0.478261	0	C|0.615;T|0.385	0.385	strong	.	MUC16	4315	.	NM_024690	exon3	c.G26905A	p.V8969M	TGACCACTGGAGA	.	PASS	Atlas-SNP
FAM194A	131831	hgsc.bcm.edu	37	3	150398311	150398311	+	Missense_Mutation	SNP	C	C	A	rs144597450	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	47	95	0	0.419643	0	C|0.990;A|0.010	0.010	strong	.	FAM194A	91	.	NM_152394	exon9	c.G1055T	p.R352L	GCCATTCGTTGCT	.	PASS	Atlas-SNP
IL1RL2	8808	hgsc.bcm.edu	37	2	102851708	102851708	+	Missense_Mutation	SNP	T	T	C	rs2302612	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	75	35	78	0	0.466667	0	T|0.699;C|0.301	0.301	strong	IL1RL2_ENST00000441515,NS,carcinoma,-1,2	IL1RL2	118	2	NM_003854	exon11	c.T1649C	p.L550P	AGCTGCTGCAGCA	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6579106	6579106	+	Missense_Mutation	SNP	C	C	A	rs11040920	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	43	18	35	0	0.418605	0	A|0.281;C|0.718;T|0.001	0.281	strong	.	DNHD1	198	.	NM_144666	exon25	c.C8581A	p.H2861N	AGCCCCCACCTGG	.	PASS	Atlas-SNP
NTSR1	4923	hgsc.bcm.edu	37	20	61386231	61386231	+	Silent	SNP	C	C	T	rs6010685	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	15	17	0	0.46875	0	C|0.934;T|0.066	0.066	strong	NTSR1,NS,malignant_melanoma,+1,1	NTSR1	59	1	NM_002531	exon2	c.C909T	p.R303R	CGTGCGCGTCCTA	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116436097	116436097	+	Silent	SNP	G	G	A	rs41737	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	148	148	126	0	1	0	G|0.615;A|0.385	0.385	strong	MET,NS,carcinoma,0,1	MET	412	1	NM_001127500	exon21	c.G4146A	p.P1382P	CGCTCCGTATCCT	.	PASS	Atlas-SNP
CLEC17A	388512	hgsc.bcm.edu	37	19	14705574	14705574	+	Missense_Mutation	SNP	T	T	C	rs78269670	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	38	21	60	0	0.552632	0	T|0.943;C|0.057	0.057	strong	.	CLEC17A	27	.	NM_207390	exon7	c.T365C	p.L122P	TAGGCCTGGACCT	.	PASS	Atlas-SNP
C10orf118	55088	hgsc.bcm.edu	37	10	115910928	115910928	+	Missense_Mutation	SNP	G	G	T	rs7095762	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	63	161	0	0.4375	0	G|0.758;T|0.242	0.242	strong	.	C10orf118	70	.	NM_018017	exon4	c.C811A	p.Q271K	TTAGTTGATCTCT	.	PASS	Atlas-SNP
FAM20A	54757	hgsc.bcm.edu	37	17	66596463	66596463	+	Silent	SNP	C	C	T	rs986099	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	112	49	85	0	0.4375	0	C|0.816;T|0.184	0.184	strong	.	FAM20A	35	.	NM_017565	exon1	c.G345A	p.S115S	CAGGAGCGAGTCC	.	PASS	Atlas-SNP
NTN4	59277	hgsc.bcm.edu	37	12	96131895	96131895	+	Missense_Mutation	SNP	A	A	G	rs17288108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	102	65	95	0	0.637255	0	A|0.893;G|0.107	0.107	strong	NTN4,colon,carcinoma,+2,1	NTN4	67	1	NM_021229	exon3	c.T613C	p.Y205H	TATCGTATGGTGG	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95236415	95236415	+	Silent	SNP	G	G	A	rs17085249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	136	45	137	0	0.330882	0	G|0.697;A|0.303	0.303	strong	ELL2,NS,carcinoma,0,1	ELL2	63	1	NM_012081	exon7	c.C936T	p.D312D	TACAGCGTCTCTA	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47913580	47913580	+	Silent	SNP	G	G	A	rs73105162	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	157	108	80	0	0.687898	0	G|0.699;A|0.301	0.301	strong	.	PKD1L1	328	.	NM_138295	exon24	c.C3813T	p.G1271G	GCCTTTGCCATCT	.	PASS	Atlas-SNP
VPS8	23355	hgsc.bcm.edu	37	3	184700426	184700426	+	Missense_Mutation	SNP	C	C	T	rs11555405	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	258	127	187	0	0.492248	0	C|0.726;T|0.274	0.274	strong	.	VPS8	109	.	NM_001009921	exon40	c.C3493T	p.H1165Y	CATCTACACTCTG	.	PASS	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	37	4	57237683	57237683	+	Silent	SNP	G	G	A	rs6554354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	59	59	69	0	1	0	G|0.663;A|0.337	0.337	strong	AASDH,NS,carcinoma,0,1	AASDH	101	1	NM_181806	exon5	c.C795T	p.S265S	CTTGACGGAAGTT	.	PASS	Atlas-SNP
RLBP1	6017	hgsc.bcm.edu	37	15	89753546	89753546	+	Silent	SNP	G	G	C	rs144615495	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	35	19	44	0	0.542857	0	G|0.999;C|0.001	0.001	strong	.	RLBP1	34	.	NM_000326	exon9	c.C924G	p.P308P	GGCCTGGGGGCCA	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1537953	1537953	+	Missense_Mutation	SNP	C	C	T	rs11553052	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	60	128	0	0.6	0	C|0.858;T|0.142	0.142	strong	.	ASMTL	56	.	NM_004192	exon10	c.G1300A	p.G434S	TCATGCCGTGCAT	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152277055	152277055	+	Missense_Mutation	SNP	C	C	G	rs2065955	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	93	180	0	0.525424	0	C|0.615;G|0.385	0.385	strong	.	FLG	900	.	NM_002016	exon3	c.G10307C	p.G3436A	GGGTGTCCACGAA	.	PASS	Atlas-SNP
PSG4	5672	hgsc.bcm.edu	37	19	43702342	43702342	+	Silent	SNP	C	C	T	rs9789333	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	98	43	111	0	0.438776	0	C|0.597;T|0.403	0.403	strong	.	PSG4	129	.	NM_002780	exon3	c.G516A	p.V172V	TGGAGTCGCAGGA	.	PASS	Atlas-SNP
PPFIA1	8500	hgsc.bcm.edu	37	11	70189892	70189892	+	Missense_Mutation	SNP	A	A	G	rs146858711	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	36	76	0	0.5	0	A|0.998;G|0.002	0.002	strong	.	PPFIA1	114	.	NM_177423	exon15	c.A1825G	p.T609A	AGGGACACTCTCC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9075737	9075737	+	Silent	SNP	T	T	C	rs2547071	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	141	117	0	0.992958	0	T|0.560;C|0.440	0.440	strong	.	MUC16	4315	.	NM_024690	exon3	c.A11709G	p.V3903V	CCTTAATACACTG	.	PASS	Atlas-SNP
TRIM50	135892	hgsc.bcm.edu	37	7	72738638	72738638	+	Missense_Mutation	SNP	C	C	T	rs138877207	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	150	82	156	0	0.546667	0	A|0.000;C|1.000;T|0.000	0.000	strong	.	TRIM50	78	.	NM_178125	exon2	c.G148A	p.E50K	GCAGCTCGGCATC	.	PASS	Atlas-SNP
ASTL	431705	hgsc.bcm.edu	37	2	96795714	96795714	+	Silent	SNP	G	G	A	rs749459	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	108	49	92	0	0.453704	0	G|0.639;A|0.361	0.361	strong	.	ASTL	59	.	NM_001002036	exon8	c.C723T	p.L241L	GAAGGCGAGCCTG	.	PASS	Atlas-SNP
OR13G1	441933	hgsc.bcm.edu	37	1	247835674	247835674	+	Missense_Mutation	SNP	G	G	A	rs28446289	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	49	110	0	0.466667	0	G|0.665;A|0.335	0.335	strong	.	OR13G1	78	.	NM_001005487	exon1	c.C670T	p.R224C	GGATACGGAGAAT	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373129	5373129	+	Missense_Mutation	SNP	C	C	T	rs5006887	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	177	58	184	0	0.327684	0	C|0.760;T|0.240	0.240	strong	.	OR51B6	53	.	NM_001004750	exon1	c.C392T	p.T131I	GATATACCTCTAT	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111659483	111659483	+	Missense_Mutation	SNP	T	T	G	rs2230793	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	142	68	136	1	0.478873	0.00735294	T|0.728;G|0.272	0.272	strong	IKBKAP,NS,carcinoma,+2,1	IKBKAP	122	1	NM_003640	exon23	c.A2446C	p.I816L	GGTCTATTTTATT	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152276660	152276660	+	Missense_Mutation	SNP	G	G	C	rs7540123	bycluster;byfrequency;byhapmap	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	200	21	205	0	0.105	0	G|0.995;C|0.005	0.005	strong	FLG,NS,carcinoma,+2,1	FLG	900	1	NM_002016	exon3	c.C10702G	p.Q3568E	GCTCCTGAGCAGA	.	scavenged	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10469233	10469233	+	Missense_Mutation	SNP	A	A	G	rs35602868	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	144	143	115	0	0.993056	0	A|0.605;G|0.395	0.395	strong	.	RP1L1	453	.	NM_178857	exon4	c.T2375C	p.L792P	TCCCCCAGGCTGG	.	PASS	Atlas-SNP
LILRB2	10288	hgsc.bcm.edu	37	19	54784130	54784130	+	Missense_Mutation	SNP	T	T	C	rs383369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	124	58	126	0	0.467742	0	A|0.001;C|0.191	0.191	strong	.	LILRB2	94	.	NM_005874	exon3	c.A59G	p.H20R	TGCACGTGGGTCC	.	PASS	Atlas-SNP
PSMD12	5718	hgsc.bcm.edu	37	17	65362552	65362552	+	Silent	SNP	T	T	A	rs11079691	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	88	51	56	0	0.579545	0	T|0.752;A|0.248	0.248	strong	PSMD12,NS,carcinoma,0,2	PSMD12	32	2	NM_174871	exon1	c.A84T	p.L28L	CTCGGGTAGGCGC	.	PASS	Atlas-SNP
ABCB8	11194	hgsc.bcm.edu	37	7	150733025	150733025	+	Silent	SNP	T	T	A	rs2303926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	46	18	58	0	0.391304	0	T|0.697;A|0.303	0.303	strong	ABCB8,rectum,carcinoma,+1,2	ABCB8	65	2	NM_007188	exon7	c.T984A	p.R328R	TGTGCGTGCCTTC	.	PASS	Atlas-SNP
BEND7	222389	hgsc.bcm.edu	37	10	13534851	13534851	+	Silent	SNP	A	A	G	rs2251555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	32	80	0	0.444444	0	A|0.476;G|0.524	0.524	strong	BEND7_ENST00000378605,colon,carcinoma,0,4	BEND7	85	4	NM_001100912	exon4	c.T480C	p.P160P	AATTGGAGGTTGT	.	PASS	Atlas-SNP
TEX14	56155	hgsc.bcm.edu	37	17	56659018	56659018	+	Missense_Mutation	SNP	C	C	T	rs6503870	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	66	65	72	0	0.984848	0	C|0.367;N|0.000	.	strong	.	TEX14	343	.	NM_001201457	exon20	c.G3263A	p.G1088D	TATTCACCGTCTG	.	PASS	Atlas-SNP
FAM8A1	51439	hgsc.bcm.edu	37	6	17608511	17608511	+	Nonsense_Mutation	SNP	C	C	T	rs200041366		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	137	6	97	0	0.0437956	0	.	.	weak	FAM8A1,lower_third,carcinoma,-1,1	FAM8A1	26	1	NM_016255	exon5	c.C1183T	p.R395X	CATAATCGAACAG	.	scavenged	Atlas-SNP
UGT1A5	54579	hgsc.bcm.edu	37	2	234622429	234622429	+	Silent	SNP	T	T	C	rs79107898		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	60	126	0	0.444444	0	.	.	weak	.	UGT1A5	66	.	NM_019078	exon1	c.T792C	p.D264D	GATGGATTACCCC	.	PASS	Atlas-SNP
KRT72	140807	hgsc.bcm.edu	37	12	52994896	52994896	+	Missense_Mutation	SNP	A	A	G	rs56207115	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	120	68	93	0	0.566667	0	A|0.918;G|0.082	0.082	strong	.	KRT72	70	.	NM_001146225	exon1	c.T341C	p.M114T	GGGTCCATCTCCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076163	9076163	+	Silent	SNP	C	C	T	rs2547073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	135	71	176	0	0.525926	0	C|0.745;T|0.255	0.255	strong	.	MUC16	4315	.	NM_024690	exon3	c.G11283A	p.Q3761Q	GAGTTCCTGGGGA	.	PASS	Atlas-SNP
NPHP3	27031	hgsc.bcm.edu	37	3	132441143	132441143	+	Silent	SNP	C	C	G	rs192633696	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	19	8	7	0	0.421053	0	C|0.991;G|0.009	0.009	strong	.	NPHP3	110	.	NM_153240	exon1	c.G57C	p.T19T	CCCGTACGTGTCC	.	PASS	Atlas-SNP
TFE3	7030	hgsc.bcm.edu	37	X	48888074	48888074	+	Silent	SNP	T	T	C	rs3027472	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	100	99	100	0	0.99	0	T|0.674;C|0.326	0.326	strong	.	TFE3	93	.	NM_006521	exon10	c.A1323G	p.V441V	GGGAGGTACTGGC	.	PASS	Atlas-SNP
HLA-DRA	3122	hgsc.bcm.edu	37	6	32411035	32411035	+	Silent	SNP	A	A	C	rs8084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	168	168	173	0	1	0	A|0.404;C|0.596	0.596	strong	HLA-DRA,colon,carcinoma,0,1	HLA-DRA	34	1	NM_019111	exon3	c.A402C	p.I134I	TTTCATAGACAAG	.	PASS	Atlas-SNP
SPATA21	374955	hgsc.bcm.edu	37	1	16748432	16748432	+	Silent	SNP	C	C	T	rs114456729	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	93	46	109	0	0.494624	0	C|0.954;T|0.046	0.046	strong	SPATA21,NS,carcinoma,-1,2	SPATA21	47	2	NM_198546	exon4	c.G69A	p.T23T	TCCAGGCGTGGAT	.	PASS	Atlas-SNP
IRG1	730249	hgsc.bcm.edu	37	13	77532094	77532094	+	Missense_Mutation	SNP	A	A	T	rs147055675	by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	48	18	48	0	0.375	0	A|0.998;T|0.002	0.002	strong	.	IRG1	1	.	NM_001258406	exon4	c.A1408T	p.N470Y	GCATGTAATAATT	.	PASS	Atlas-SNP
APIP	51074	hgsc.bcm.edu	37	11	34916657	34916657	+	Missense_Mutation	SNP	C	C	T	rs61734605	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	50	23	73	0	0.46	0	C|0.778;T|0.222	0.222	strong	.	APIP	21	.	NM_015957	exon2	c.G58A	p.D20N	CCTTGTCCTTAAA	.	PASS	Atlas-SNP
TBC1D29	26083	hgsc.bcm.edu	37	17	28887134	28887134	+	Splice_Site	SNP	G	G	A	rs111780165	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	248	119	227	1	0.479839	0.00440529	G|0.962;A|0.038	0.038	strong	.	TBC1D29	19	.	NM_015594	exon2	c.13-1G>A	.	CCATCAGGACAAG	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95234377	95234377	+	Silent	SNP	C	C	T	rs3777203	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	246	101	261	0	0.410569	0	C|0.691;T|0.309	0.309	strong	.	ELL2	63	.	NM_012081	exon8	c.G1092A	p.P364P	GGGCAGCGGGAGG	.	PASS	Atlas-SNP
MC1R	4157	hgsc.bcm.edu	37	16	89986117	89986117	+	Missense_Mutation	SNP	C	C	T	rs1805007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	52	28	51	0	0.538462	0	C|0.960;T|0.040	0.040	strong	.	MC1R	20	.	NM_002386	exon1	c.C451T	p.R151C	GCACTGCGCTACC	.	PASS	Atlas-SNP
SLC16A9	220963	hgsc.bcm.edu	37	10	61414011	61414011	+	Missense_Mutation	SNP	G	G	T	rs2242206	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	158	60	198	0	0.379747	0	G|0.740;T|0.260	0.260	strong	.	SLC16A9	58	.	NM_194298	exon5	c.C773A	p.T258K	GTCACTGTGGGGT	.	PASS	Atlas-SNP
GSTO1	9446	hgsc.bcm.edu	37	10	106022789	106022789	+	Missense_Mutation	SNP	C	C	A	rs4925	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	23	57	0	0.338235	0	C|0.778;A|0.222	0.222	strong	GSTO1,NS,carcinoma,0,1	GSTO1	14	1	NM_004832	exon4	c.C419A	p.A140D	ACTATGCTGGCCT	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	131864591	131864591	+	Silent	SNP	T	T	C	rs3734989	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	58	58	60	1	1	0.0166667	T|0.270;C|0.730	0.730	strong	PLXNA4_ENST00000359827,rectum,carcinoma,0,2	PLXNA4	873	2	NM_020911	exon20	c.A3729G	p.A1243A	AGCCACTGCGATG	.	scavenged	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702169	27702169	+	Silent	SNP	C	C	T	rs6482625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	78	37	98	0	0.474359	0	C|0.765;T|0.235	0.235	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.G1011A	p.V337V	GCTCTGCACGTCG	.	PASS	Atlas-SNP
UBE2NL	389898	hgsc.bcm.edu	37	X	142967468	142967468	+	Nonsense_Mutation	SNP	T	T	G	rs237520	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	103	102	117	0	0.990291	0	0|0.003;G|0.651	0.651	strong	.	UBE2NL	46	.	NM_001012989	exon1	c.T266G	p.L89X	TAAGTTTAGATAT	.	PASS	Atlas-SNP
STK4	6789	hgsc.bcm.edu	37	20	43629135	43629135	+	Missense_Mutation	SNP	G	G	A	rs17420378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	92	39	66	0	0.423913	0	G|0.783;A|0.217	0.217	strong	.	STK4	84	.	NM_006282	exon8	c.G934A	p.V312M	CGGGAAGTGGACC	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115933885	115933885	+	Silent	SNP	A	A	C	rs1128118	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	121	65	131	0	0.53719	0	A|0.938;C|0.062	0.062	strong	.	FKBP15	128	.	NM_015258	exon24	c.T2634G	p.A878A	TGCAGCAGCTTCA	.	PASS	Atlas-SNP
COLEC12	81035	hgsc.bcm.edu	37	18	334994	334994	+	Missense_Mutation	SNP	A	A	G	rs2305025	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	41	14	30	1	0.341463	0.0333333	A|0.363;G|0.637	0.637	strong	COLEC12,NS,carcinoma,0,1	COLEC12	121	1	NM_130386	exon6	c.T1564C	p.S522P	CACTGGAGCCCTG	.	scavenged	Atlas-SNP
MICALCL	84953	hgsc.bcm.edu	37	11	12315915	12315915	+	Missense_Mutation	SNP	A	A	G	rs1493954	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	32	16	41	0	0.5	0	A|0.511;C|0.004	.	strong	.	MICALCL	59	.	NM_032867	exon3	c.A937G	p.S313G	TCATTCAGCCTTC	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156877797	156877797	+	Silent	SNP	C	C	A	rs77235035	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	202	72	149	0	0.356436	0	C|0.810;A|0.190	0.190	strong	PEAR1,NS,carcinoma,0,2	PEAR1	118	2	NM_001080471	exon8	c.C856A	p.R286R	TGTGACCGATTCA	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81241100	81241100	+	Missense_Mutation	SNP	G	G	C	rs11150370	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	11	52	0	0.22449	0	G|0.506;C|0.494	0.494	strong	.	PKD1L2	361	.	NM_001076780	exon5	c.C901G	p.P301A	TCGGCGGGTTGTA	.	PASS	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12921137	12921137	+	Missense_Mutation	SNP	T	T	A	rs17039283		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	131	6	103	2	0.0458015	0.0194175	T|1.000;|0.000	.	weak	PRAMEF2,NS,carcinoma,0,1	PRAMEF2	85	1	NM_023014	exon4	c.T928A	p.L310M	GAGGACTTGAAGT	.	scavenged	Atlas-SNP
GLI3	2737	hgsc.bcm.edu	37	7	42079765	42079765	+	Silent	SNP	G	G	A	rs35961850	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	326	205	197	1	0.628834	0.00507614	G|0.931;A|0.069	0.069	strong	.	GLI3	312	.	NM_000168	exon7	c.C900T	p.S300S	ATGATCGGAGAGT	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62675892	62675892	+	Silent	SNP	A	A	G	rs2481694	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	97	97	115	0	1	0	A|0.412;G|0.588	0.588	strong	.	L1TD1	114	.	NM_001164835	exon5	c.A1446G	p.E482E	GGAAGAAGAAGGA	.	PASS	Atlas-SNP
FARP2	9855	hgsc.bcm.edu	37	2	242380734	242380734	+	Missense_Mutation	SNP	G	G	A	rs146443541	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	74	25	74	0	0.337838	0	G|0.999;A|0.001	0.001	strong	.	FARP2	92	.	NM_014808	exon13	c.G1174A	p.E392K	TTCCCCGAGGGAT	.	PASS	Atlas-SNP
KIAA0100	9703	hgsc.bcm.edu	37	17	26961735	26961735	+	Missense_Mutation	SNP	G	G	A	rs118181996	bycluster;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	72	22	66	0	0.305556	0	G|0.999;A|0.001	0.001	strong	.	KIAA0100	175	.	NM_014680	exon16	c.C2870T	p.T957I	ATGGGTGTGTTGC	.	PASS	Atlas-SNP
LRR1	122769	hgsc.bcm.edu	37	14	50074122	50074122	+	Missense_Mutation	SNP	T	T	A	rs17121605	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	86	44	70	0	0.511628	0	T|0.789;A|0.211	0.211	strong	.	LRR1	35	.	NM_152329	exon3	c.T287A	p.I96N	AGGCCATTTCCAG	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364431	5364431	+	Silent	SNP	G	G	A	rs58233587	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	23	9	27	0	0.391304	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
CCDC38	120935	hgsc.bcm.edu	37	12	96284650	96284650	+	Silent	SNP	A	A	G	rs6538681	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	49	24	54	0	0.489796	0	A|0.248;G|0.752	0.752	strong	.	CCDC38	45	.	NM_182496	exon9	c.T831C	p.A277A	AAGGACAGCTGTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179611884	179611884	+	Silent	SNP	T	T	C	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	165	17	137	0	0.10303	0	.	.	none	.	TTN	18412	.	NM_133379	exon46	c.A15243G	p.L5081L	TCTCTCTAGAGTC	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81929527	81929527	+	Silent	SNP	C	C	G	rs13333716	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	99	39	67	0	0.393939	0	C|0.936;G|0.064	0.064	strong	.	PLCG2	276	.	NM_002661	exon13	c.C1188G	p.T396T	TGTTACCTCGAGG	.	PASS	Atlas-SNP
KCNQ4	9132	hgsc.bcm.edu	37	1	41300690	41300690	+	Silent	SNP	G	G	A	rs55964611	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	213	117	190	1	0.549296	0.00526316	G|0.974;A|0.026	0.026	strong	KCNQ4,colon,carcinoma,+1,1	KCNQ4	58	1	NM_004700	exon12	c.G1665A	p.P555P	GCGACCGTACGAC	.	PASS	Atlas-SNP
CDH17	1015	hgsc.bcm.edu	37	8	95158382	95158382	+	Silent	SNP	C	C	T	rs1131830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	104	110	0	0.990476	0	T|0.375;G|0.108;C|0.432;A|0.085	0.375	strong	.	CDH17	119	.	NM_004063	exon15	c.G1941A	p.L647L	AGAGCTCAAGGAA	.	PASS	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	37	15	40656141	40656141	+	Silent	SNP	T	T	C	rs12443160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	27	13	29	0	0.481481	0	T|0.861;C|0.139	0.139	strong	.	DISP2	86	.	NM_033510	exon2	c.T435C	p.H145H	GCACCATGTGGTC	.	PASS	Atlas-SNP
FAM118A	55007	hgsc.bcm.edu	37	22	45723854	45723854	+	Silent	SNP	C	C	G	rs9615108	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	104	49	100	0	0.471154	0	C|0.590;G|0.410	0.410	strong	.	FAM118A	32	.	NM_017911	exon4	c.C432G	p.V144V	CATGGTCCTGACC	.	PASS	Atlas-SNP
C7orf63	79846	hgsc.bcm.edu	37	7	89906609	89906609	+	Silent	SNP	C	C	T	rs3761805	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	85	44	97	0	0.517647	0	C|0.602;T|0.398	0.398	strong	C7orf63_ENST00000389297,colon,carcinoma,+2,2	C7orf63	158	2	NM_001039706	exon11	c.C1116T	p.N372N	ATTCAACGTAATT	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545823	47545823	+	Silent	SNP	G	G	A	rs13052956	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	153	150	152	0	0.980392	0	G|0.578;A|0.422	0.422	strong	.	COL6A2	351	.	NM_058175	exon26	c.G2094A	p.A698A	GATTGCGGGCGGC	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129904560	129904560	+	Silent	SNP	C	C	T	rs2853346	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	257	111	240	0	0.431907	0	T|0.226;G|0.139;C|0.578;A|0.056	0.226	strong	MKI67,NS,adenocarcinoma,-1,1	MKI67	363	1	NM_002417	exon13	c.G5544A	p.T1848T	ATCAGTCGTGGGG	.	PASS	Atlas-SNP
ETV3L	440695	hgsc.bcm.edu	37	1	157062739	157062739	+	Missense_Mutation	SNP	C	C	G	rs12136960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	105	68	67	0	0.647619	0	C|0.828;G|0.172	0.172	strong	.	ETV3L	73	.	NM_001004341	exon5	c.G788C	p.G263A	AAAGCCCCTGGGA	.	PASS	Atlas-SNP
MBD1	4152	hgsc.bcm.edu	37	18	47801800	47801800	+	Silent	SNP	G	G	A	rs140690	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	33	16	37	0	0.484848	0	G|0.782;A|0.218	0.218	strong	MBD1_ENST00000457839,NS,carcinoma,0,1	MBD1	228	1	NM_001204137	exon9	c.C807T	p.R269R	ACGCAGGCGGTGA	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134371165	134371165	+	Silent	SNP	C	C	T	rs41296113	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	29	16	28	0	0.551724	0	C|0.936;T|0.064	0.064	strong	.	PRRC2B	266	.	NM_013318	exon31	c.C6594T	p.A2198A	GGGAGCCGTGAAG	.	PASS	Atlas-SNP
TMC2	117532	hgsc.bcm.edu	37	20	2575543	2575543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	247	3	253	0	0.0121457	0	.	.	none	TMC2,NS,carcinoma,0,1	TMC2	121	1	NM_080751	exon9	c.C1006T	p.R336W	AGGTACCGGCTGC	.	scavenged	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32505633	32505633	+	Missense_Mutation	SNP	G	G	C	rs35641374	bycluster;byfrequency;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	68	26	81	0	0.382353	0	G|0.976;C|0.024	0.024	strong	.	NRG1	260	.	NM_013959	exon1	c.G397C	p.V133L	TCAGCTGTGTGGG	.	PASS	Atlas-SNP
RAI14	26064	hgsc.bcm.edu	37	5	34807928	34807928	+	Silent	SNP	C	C	T	rs6895634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6914-01A-11D-2210-10	TCGA-G8-6914-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	16ea266a-69ef-42a9-81c7-affe59adb1ce	366ac237-58d3-45ae-bf82-9f85fc562612	140	139	139	0	0.992857	0	C|0.628;T|0.372	0.372	strong	.	RAI14	100	.	NM_001145525	exon8	c.C354T	p.V118V	AAGTGTCGACAGC	.	PASS	Atlas-SNP
